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Cackett G, Sýkora M, Portugal R, Dulson C, Dixon L, Werner F. Transcription termination and readthrough in African swine fever virus. Front Immunol 2024; 15:1350267. [PMID: 38545109 PMCID: PMC10965686 DOI: 10.3389/fimmu.2024.1350267] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2023] [Accepted: 01/30/2024] [Indexed: 04/13/2024] Open
Abstract
Introduction African swine fever virus (ASFV) is a nucleocytoplasmic large DNA virus (NCLDV) that encodes its own host-like RNA polymerase (RNAP) and factors required to produce mature mRNA. The formation of accurate mRNA 3' ends by ASFV RNAP depends on transcription termination, likely enabled by a combination of sequence motifs and transcription factors, although these are poorly understood. The termination of any RNAP is rarely 100% efficient, and the transcriptional "readthrough" at terminators can generate long mRNAs which may interfere with the expression of downstream genes. ASFV transcriptome analyses reveal a landscape of heterogeneous mRNA 3' termini, likely a combination of bona fide termination sites and the result of mRNA degradation and processing. While short-read sequencing (SRS) like 3' RNA-seq indicates an accumulation of mRNA 3' ends at specific sites, it cannot inform about which promoters and transcription start sites (TSSs) directed their synthesis, i.e., information about the complete and unprocessed mRNAs at nucleotide resolution. Methods Here, we report a rigorous analysis of full-length ASFV transcripts using long-read sequencing (LRS). We systematically compared transcription termination sites predicted from SRS 3' RNA-seq with 3' ends mapped by LRS during early and late infection. Results Using in-vitro transcription assays, we show that recombinant ASFV RNAP terminates transcription at polyT stretches in the non-template strand, similar to the archaeal RNAP or eukaryotic RNAPIII, unaided by secondary RNA structures or predicted viral termination factors. Our results cement this T-rich motif (U-rich in the RNA) as a universal transcription termination signal in ASFV. Many genes share the usage of the same terminators, while genes can also use a range of terminators to generate transcript isoforms varying enormously in length. A key factor in the latter phenomenon is the highly abundant terminator readthrough we observed, which is more prevalent during late compared with early infection. Discussion This indicates that ASFV mRNAs under the control of late gene promoters utilize different termination mechanisms and factors to early promoters and/or that cellular factors influence the viral transcriptome landscape differently during the late stages of infection.
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Affiliation(s)
- Gwenny Cackett
- Institute for Structural and Molecular Biology, University College London, London, United Kingdom
| | - Michal Sýkora
- Institute for Structural and Molecular Biology, University College London, London, United Kingdom
| | | | - Christopher Dulson
- Institute for Structural and Molecular Biology, University College London, London, United Kingdom
| | - Linda Dixon
- Pirbright Institute, Pirbright, Surrey, United Kingdom
| | - Finn Werner
- Institute for Structural and Molecular Biology, University College London, London, United Kingdom
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Blombach F, Sýkora M, Case J, Feng X, Baquero DP, Fouqueau T, Phung DK, Barker D, Krupovic M, She Q, Werner F. Cbp1 and Cren7 form chromatin-like structures that ensure efficient transcription of long CRISPR arrays. Nat Commun 2024; 15:1620. [PMID: 38388540 PMCID: PMC10883916 DOI: 10.1038/s41467-024-45728-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/05/2023] [Accepted: 02/01/2024] [Indexed: 02/24/2024] Open
Abstract
CRISPR arrays form the physical memory of CRISPR adaptive immune systems by incorporating foreign DNA as spacers that are often AT-rich and derived from viruses. As promoter elements such as the TATA-box are AT-rich, CRISPR arrays are prone to harbouring cryptic promoters. Sulfolobales harbour extremely long CRISPR arrays spanning several kilobases, a feature that is accompanied by the CRISPR-specific transcription factor Cbp1. Aberrant Cbp1 expression modulates CRISPR array transcription, but the molecular mechanisms underlying this regulation are unknown. Here, we characterise the genome-wide Cbp1 binding at nucleotide resolution and characterise the binding motifs on distinct CRISPR arrays, as well as on unexpected non-canonical binding sites associated with transposons. Cbp1 recruits Cren7 forming together 'chimeric' chromatin-like structures at CRISPR arrays. We dissect Cbp1 function in vitro and in vivo and show that the third helix-turn-helix domain is responsible for Cren7 recruitment, and that Cbp1-Cren7 chromatinization plays a dual role in the transcription of CRISPR arrays. It suppresses spurious transcription from cryptic promoters within CRISPR arrays but enhances CRISPR RNA transcription directed from their cognate promoters in their leader region. Our results show that Cbp1-Cren7 chromatinization drives the productive expression of long CRISPR arrays.
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Affiliation(s)
- Fabian Blombach
- RNAP laboratory, Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London, WC1E 6BT, United Kingdom.
| | - Michal Sýkora
- RNAP laboratory, Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London, WC1E 6BT, United Kingdom
| | - Jo Case
- RNAP laboratory, Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London, WC1E 6BT, United Kingdom
| | - Xu Feng
- CRISPR and Archaea Biology Research Center, Microbial Technology Institute, Shandong University, Qingdao, 266237, PR China
| | - Diana P Baquero
- Institut Pasteur, Université Paris Cité, CNRS UMR6047, Archaeal Virology Unit, F-75015, Paris, France
| | - Thomas Fouqueau
- RNAP laboratory, Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London, WC1E 6BT, United Kingdom
| | - Duy Khanh Phung
- RNAP laboratory, Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London, WC1E 6BT, United Kingdom
| | - Declan Barker
- RNAP laboratory, Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London, WC1E 6BT, United Kingdom
| | - Mart Krupovic
- Institut Pasteur, Université Paris Cité, CNRS UMR6047, Archaeal Virology Unit, F-75015, Paris, France
| | - Qunxin She
- CRISPR and Archaea Biology Research Center, Microbial Technology Institute, Shandong University, Qingdao, 266237, PR China
| | - Finn Werner
- RNAP laboratory, Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London, WC1E 6BT, United Kingdom.
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Pilotto S, Sýkora M, Cackett G, Dulson C, Werner F. Structure of the recombinant RNA polymerase from African Swine Fever Virus. Nat Commun 2024; 15:1606. [PMID: 38383525 PMCID: PMC10881513 DOI: 10.1038/s41467-024-45842-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2023] [Accepted: 02/06/2024] [Indexed: 02/23/2024] Open
Abstract
African Swine Fever Virus is a Nucleo-Cytoplasmic Large DNA Virus that causes an incurable haemorrhagic fever in pigs with a high impact on global food security. ASFV replicates in the cytoplasm of the infected cell and encodes its own transcription machinery that is independent of cellular factors, however, not much is known about how this system works at a molecular level. Here, we present methods to produce recombinant ASFV RNA polymerase, functional assays to screen for inhibitors, and high-resolution cryo-electron microscopy structures of the ASFV RNAP in different conformational states. The ASFV RNAP bears a striking resemblance to RNAPII with bona fide homologues of nine of its twelve subunits. Key differences include the fusion of the ASFV assembly platform subunits RPB3 and RPB11, and an unusual C-terminal domain of the stalk subunit vRPB7 that is related to the eukaryotic mRNA cap 2´-O-methyltransferase 1. Despite the high degree of structural conservation with cellular RNA polymerases, the ASFV RNAP is resistant to the inhibitors rifampicin and alpha-amanitin. The cryo-EM structures and fully recombinant RNAP system together provide an important tool for the design, development, and screening of antiviral drugs in a low biosafety containment environment.
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Affiliation(s)
- Simona Pilotto
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London, WC1E 6BT, United Kingdom
| | - Michal Sýkora
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London, WC1E 6BT, United Kingdom
| | - Gwenny Cackett
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London, WC1E 6BT, United Kingdom
| | - Christopher Dulson
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London, WC1E 6BT, United Kingdom
| | - Finn Werner
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London, WC1E 6BT, United Kingdom.
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4
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Aharonian F, Benkhali FA, Aschersleben J, Ashkar H, Backes M, Martins VB, Batzofin R, Becherini Y, Berge D, Bernlöhr K, Bi B, Böttcher M, Boisson C, Bolmont J, de Lavergne MDB, Borowska J, Bouyahiaoui M, Breuhaus M, Brose R, Brown AM, Brun F, Bruno B, Bulik T, Burger-Scheidlin C, Caroff S, Casanova S, Cecil R, Celic J, Cerruti M, Chand T, Chandra S, Chen A, Chibueze J, Chibueze O, Cotter G, Dai S, Mbarubucyeye JD, Djannati-Ataï A, Dmytriiev A, Doroshenko V, Egberts K, Einecke S, Ernenwein JP, Filipovic M, Fontaine G, Füßling M, Funk S, Gabici S, Ghafourizadeh S, Giavitto G, Glawion D, Glicenstein JF, Grolleron G, Haerer L, Hinton JA, Hofmann W, Holch TL, Holler M, Horns D, Jamrozy M, Jankowsky F, Jardin-Blicq A, Joshi V, Jung-Richardt I, Kasai E, Katarzyński K, Khatoon R, Khélifi B, Klepser S, Kluźniak W, Komin N, Kosack K, Kostunin D, Kundu A, Lang RG, Le Stum S, Leitl F, Lemière A, Lenain JP, Leuschner F, Lohse T, Luashvili A, Lypova I, Mackey J, Malyshev D, Malyshev D, Marandon V, Marchegiani P, Marcowith A, Martí-Devesa G, Marx R, Mehta A, Mitchell A, Moderski R, Mohrmann L, Montanari A, Moulin E, Murach T, Nakashima K, de Naurois M, Niemiec J, Noel AP, Ohm S, Olivera-Nieto L, de Ona Wilhelmi E, Ostrowski M, Panny S, Panter M, Parsons RD, Peron G, Prokhorov DA, Pühlhofer G, Punch M, Quirrenbach A, Reichherzer P, Reimer A, Reimer O, Ren H, Renaud M, Reville B, Rieger F, Rowell G, Rudak B, Ricarte HR, Ruiz-Velasco E, Sahakian V, Salzmann H, Santangelo A, Sasaki M, Schäfer J, Schüssler F, Schwanke U, Shapopi JNS, Sol H, Specovius A, Spencer S, Stawarz L, Steenkamp R, Steinmassl S, Steppa C, Streil K, Sushch I, Suzuki H, Takahashi T, Tanaka T, Taylor AM, Terrier R, Tsirou M, Tsuji N, Unbehaun T, van Eldik C, Vecchi M, Veh J, Venter C, Vink J, Wach T, Wagner SJ, Werner F, White R, Wierzcholska A, Wong YW, Zacharias M, Zargaryan D, Zdziarski AA, Zech A, Zouari S, Żywucka N. Acceleration and transport of relativistic electrons in the jets of the microquasar SS 433. Science 2024; 383:402-406. [PMID: 38271522 DOI: 10.1126/science.adi2048] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2023] [Accepted: 12/04/2023] [Indexed: 01/27/2024]
Abstract
SS 433 is a microquasar, a stellar binary system that launches collimated relativistic jets. We observed SS 433 in gamma rays using the High Energy Stereoscopic System (H.E.S.S.) and found an energy-dependent shift in the apparent position of the gamma-ray emission from the parsec-scale jets. These observations trace the energetic electron population and indicate that inverse Compton scattering is the emission mechanism of the gamma rays. Our modeling of the energy-dependent gamma-ray morphology constrains the location of particle acceleration and requires an abrupt deceleration of the jet flow. We infer the presence of shocks on either side of the binary system, at distances of 25 to 30 parsecs, and that self-collimation of the precessing jets forms the shocks, which then efficiently accelerate electrons.
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Affiliation(s)
- F Aharonian
- Dublin Institute for Advanced Studies, Dublin D02 XF86, Ireland
- Max-Planck-Institut für Kernphysik, Heidelberg D-69117, Germany
| | - F Ait Benkhali
- Landessternwarte, Universität Heidelberg, Heidelberg D-69117, Germany
| | - J Aschersleben
- Kapteyn Astronomical Institute, University of Groningen, Groningen 9747 AD, Netherlands
| | - H Ashkar
- Laboratoire Leprince-Ringuet, École Polytechnique, Centre national de la recherche scientifique, Institut Polytechnique de Paris, Palaiseau F-91128, France
| | - M Backes
- Department of Physics, University of Namibia, Windhoek 10005, Namibia
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | | | - R Batzofin
- Institut für Physik und Astronomie, Universität Potsdam, Potsdam 14476, Germany
| | - Y Becherini
- Laboratoire Astroparticule et Cosmologie, Université de Paris, Centre national de la recherche scientifique, Paris F-75013, France
- Department of Physics and Electrical Engineering, Linnaeus University, Växjö 351 95, Sweden
| | - D Berge
- Deutsches Elektronen-Synchrotron, Zeuthen D-15738, Germany
- Institut für Physik, Humboldt-Universität zu Berlin, Berlin D-12489, Germany
| | - K Bernlöhr
- Max-Planck-Institut für Kernphysik, Heidelberg D-69117, Germany
| | - B Bi
- Institut für Astronomie und Astrophysik, Universität Tübingen, Tübingen D-72076, Germany
| | - M Böttcher
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - C Boisson
- Laboratoire Univers et Théories, Observatoire de Paris, Université Paris Sciences et Lettres, CNRS, Université de Paris, Meudon 92190, France
| | - J Bolmont
- Laboratoire de Physique Nucléaire et de Hautes Energies, Sorbonne Université, Université Paris Diderot, Université Paris Cité, Institut national de physique nucléaire et de physique des particules, Centre national de la recherche scientifique, Paris F-75252, France
| | - M de Bony de Lavergne
- Laboratoire d'Annecy de Physique des Particules, Centre national de la recherche scientifique, Institut national de physique nucléaire et de physique des particules, Université Savoie Mont Blanc, Annecy 74000, France
| | - J Borowska
- Institut für Physik, Humboldt-Universität zu Berlin, Berlin D-12489, Germany
| | - M Bouyahiaoui
- Max-Planck-Institut für Kernphysik, Heidelberg D-69117, Germany
| | - M Breuhaus
- Max-Planck-Institut für Kernphysik, Heidelberg D-69117, Germany
| | - R Brose
- Dublin Institute for Advanced Studies, Dublin D02 XF86, Ireland
| | - A M Brown
- Department of Physics, University of Oxford, Oxford OX1 3RH, UK
| | - F Brun
- Institute for Research on the Fundamental Laws of the Universe, Commissariat à l'énergie atomique et aux énergies alternatives, Université Paris-Saclay, Gif-sur-Yvette F-91191, France
| | - B Bruno
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - T Bulik
- Astronomical Observatory, The University of Warsaw, Warsaw 00-478, Poland
| | | | - S Caroff
- Laboratoire d'Annecy de Physique des Particules, Centre national de la recherche scientifique, Institut national de physique nucléaire et de physique des particules, Université Savoie Mont Blanc, Annecy 74000, France
| | - S Casanova
- Instytut Fizyki J[Formula: see text]drowej, Polska Akademia Nauk, Kraków 31-342, Poland
| | - R Cecil
- Institut für Experimentalphysik, Universität Hamburg, Hamburg D-22761, Germany
| | - J Celic
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - M Cerruti
- Laboratoire Astroparticule et Cosmologie, Université de Paris, Centre national de la recherche scientifique, Paris F-75013, France
| | - T Chand
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - S Chandra
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - A Chen
- School of Physics, University of the Witwatersrand, Johannesburg 2050, South Africa
| | - J Chibueze
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - O Chibueze
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - G Cotter
- Department of Physics, University of Oxford, Oxford OX1 3RH, UK
| | - S Dai
- School of Science, Western Sydney University, Penrith NSW 2751, Australia
| | | | - A Djannati-Ataï
- Laboratoire Astroparticule et Cosmologie, Université de Paris, Centre national de la recherche scientifique, Paris F-75013, France
| | - A Dmytriiev
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - V Doroshenko
- Institut für Astronomie und Astrophysik, Universität Tübingen, Tübingen D-72076, Germany
| | - K Egberts
- Institut für Physik und Astronomie, Universität Potsdam, Potsdam 14476, Germany
| | - S Einecke
- School of Physical Sciences, University of Adelaide, Adelaide 5005, Australia
| | - J-P Ernenwein
- Centre de Physique des Particules de Marseille, Aix Marseille Université, Centre national de la recherche scientifique, Institut national de physique nucléaire et de physique des particules, Marseille 13288, France
| | - M Filipovic
- School of Science, Western Sydney University, Penrith NSW 2751, Australia
| | - G Fontaine
- Laboratoire Leprince-Ringuet, École Polytechnique, Centre national de la recherche scientifique, Institut Polytechnique de Paris, Palaiseau F-91128, France
| | - M Füßling
- Deutsches Elektronen-Synchrotron, Zeuthen D-15738, Germany
| | - S Funk
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - S Gabici
- Laboratoire Astroparticule et Cosmologie, Université de Paris, Centre national de la recherche scientifique, Paris F-75013, France
| | - S Ghafourizadeh
- Landessternwarte, Universität Heidelberg, Heidelberg D-69117, Germany
| | - G Giavitto
- Deutsches Elektronen-Synchrotron, Zeuthen D-15738, Germany
| | - D Glawion
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - J-F Glicenstein
- Institute for Research on the Fundamental Laws of the Universe, Commissariat à l'énergie atomique et aux énergies alternatives, Université Paris-Saclay, Gif-sur-Yvette F-91191, France
| | - G Grolleron
- Laboratoire de Physique Nucléaire et de Hautes Energies, Sorbonne Université, Université Paris Diderot, Université Paris Cité, Institut national de physique nucléaire et de physique des particules, Centre national de la recherche scientifique, Paris F-75252, France
| | - L Haerer
- Max-Planck-Institut für Kernphysik, Heidelberg D-69117, Germany
| | - J A Hinton
- Max-Planck-Institut für Kernphysik, Heidelberg D-69117, Germany
| | - W Hofmann
- Max-Planck-Institut für Kernphysik, Heidelberg D-69117, Germany
| | - T L Holch
- Deutsches Elektronen-Synchrotron, Zeuthen D-15738, Germany
| | - M Holler
- Institut für Astro- und Teilchenphysik, Leopold-Franzens-Universität Innsbruck, Innsbruck A-6020, Austria
| | - D Horns
- Max-Planck-Institut für Kernphysik, Heidelberg D-69117, Germany
| | - M Jamrozy
- Obserwatorium Astronomiczne, Uniwersytet Jagielloński, Kraków 30-244, Poland
| | - F Jankowsky
- Landessternwarte, Universität Heidelberg, Heidelberg D-69117, Germany
| | - A Jardin-Blicq
- Laboratoir de de Physique des deux Infinis, Université Bordeaux, CNRS, Gradignan F-33170, France
| | - V Joshi
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - I Jung-Richardt
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - E Kasai
- Department of Physics, University of Namibia, Windhoek 10005, Namibia
| | - K Katarzyński
- Institute of Astronomy, Faculty of Physics, Astronomy and Informatics, Nicolaus Copernicus University, Torun 87-100, Poland
| | - R Khatoon
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - B Khélifi
- Laboratoire Astroparticule et Cosmologie, Université de Paris, Centre national de la recherche scientifique, Paris F-75013, France
| | - S Klepser
- Deutsches Elektronen-Synchrotron, Zeuthen D-15738, Germany
| | - W Kluźniak
- Nicolaus Copernicus Astronomical Center, Polish Academy of Sciences, Warsaw 00-716, Poland
| | - Nu Komin
- School of Physics, University of the Witwatersrand, Johannesburg 2050, South Africa
| | - K Kosack
- Institute for Research on the Fundamental Laws of the Universe, Commissariat à l'énergie atomique et aux énergies alternatives, Université Paris-Saclay, Gif-sur-Yvette F-91191, France
| | - D Kostunin
- Deutsches Elektronen-Synchrotron, Zeuthen D-15738, Germany
| | - A Kundu
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - R G Lang
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - S Le Stum
- Centre de Physique des Particules de Marseille, Aix Marseille Université, Centre national de la recherche scientifique, Institut national de physique nucléaire et de physique des particules, Marseille 13288, France
| | - F Leitl
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - A Lemière
- Laboratoire Astroparticule et Cosmologie, Université de Paris, Centre national de la recherche scientifique, Paris F-75013, France
| | - J-P Lenain
- Laboratoire de Physique Nucléaire et de Hautes Energies, Sorbonne Université, Université Paris Diderot, Université Paris Cité, Institut national de physique nucléaire et de physique des particules, Centre national de la recherche scientifique, Paris F-75252, France
| | - F Leuschner
- Institut für Astronomie und Astrophysik, Universität Tübingen, Tübingen D-72076, Germany
| | - T Lohse
- Institut für Physik, Humboldt-Universität zu Berlin, Berlin D-12489, Germany
| | - A Luashvili
- Laboratoire Univers et Théories, Observatoire de Paris, Université Paris Sciences et Lettres, CNRS, Université de Paris, Meudon 92190, France
| | - I Lypova
- Landessternwarte, Universität Heidelberg, Heidelberg D-69117, Germany
| | - J Mackey
- Dublin Institute for Advanced Studies, Dublin D02 XF86, Ireland
| | - D Malyshev
- Institut für Astronomie und Astrophysik, Universität Tübingen, Tübingen D-72076, Germany
| | - D Malyshev
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - V Marandon
- Institute for Research on the Fundamental Laws of the Universe, Commissariat à l'énergie atomique et aux énergies alternatives, Université Paris-Saclay, Gif-sur-Yvette F-91191, France
| | - P Marchegiani
- School of Physics, University of the Witwatersrand, Johannesburg 2050, South Africa
| | - A Marcowith
- Laboratoire Univers et Particules de Montpellier, Université Montpellier, Centre national de la recherche scientifique, Institut national de physique nucléaire et de physique des particules, Montpellier F-34095, France
| | - G Martí-Devesa
- Institut für Astro- und Teilchenphysik, Leopold-Franzens-Universität Innsbruck, Innsbruck A-6020, Austria
| | - R Marx
- Landessternwarte, Universität Heidelberg, Heidelberg D-69117, Germany
| | - A Mehta
- Deutsches Elektronen-Synchrotron, Zeuthen D-15738, Germany
| | - A Mitchell
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - R Moderski
- Nicolaus Copernicus Astronomical Center, Polish Academy of Sciences, Warsaw 00-716, Poland
| | - L Mohrmann
- Max-Planck-Institut für Kernphysik, Heidelberg D-69117, Germany
| | - A Montanari
- Landessternwarte, Universität Heidelberg, Heidelberg D-69117, Germany
| | - E Moulin
- Institute for Research on the Fundamental Laws of the Universe, Commissariat à l'énergie atomique et aux énergies alternatives, Université Paris-Saclay, Gif-sur-Yvette F-91191, France
| | - T Murach
- Deutsches Elektronen-Synchrotron, Zeuthen D-15738, Germany
| | - K Nakashima
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - M de Naurois
- Laboratoire Leprince-Ringuet, École Polytechnique, Centre national de la recherche scientifique, Institut Polytechnique de Paris, Palaiseau F-91128, France
| | - J Niemiec
- Instytut Fizyki J[Formula: see text]drowej, Polska Akademia Nauk, Kraków 31-342, Poland
| | - A Priyana Noel
- Obserwatorium Astronomiczne, Uniwersytet Jagielloński, Kraków 30-244, Poland
| | - S Ohm
- Deutsches Elektronen-Synchrotron, Zeuthen D-15738, Germany
| | - L Olivera-Nieto
- Max-Planck-Institut für Kernphysik, Heidelberg D-69117, Germany
| | | | - M Ostrowski
- Obserwatorium Astronomiczne, Uniwersytet Jagielloński, Kraków 30-244, Poland
| | - S Panny
- Institut für Astro- und Teilchenphysik, Leopold-Franzens-Universität Innsbruck, Innsbruck A-6020, Austria
| | - M Panter
- Max-Planck-Institut für Kernphysik, Heidelberg D-69117, Germany
| | - R D Parsons
- Institut für Physik, Humboldt-Universität zu Berlin, Berlin D-12489, Germany
| | - G Peron
- Laboratoire Astroparticule et Cosmologie, Université de Paris, Centre national de la recherche scientifique, Paris F-75013, France
| | - D A Prokhorov
- Gravitation and Astroparticle Physics Amsterdam, Anton Pannekoek Institute for Astronomy, University of Amsterdam, Amsterdam 1098 XH, Netherlands
| | - G Pühlhofer
- Institut für Astronomie und Astrophysik, Universität Tübingen, Tübingen D-72076, Germany
| | - M Punch
- Laboratoire Astroparticule et Cosmologie, Université de Paris, Centre national de la recherche scientifique, Paris F-75013, France
| | - A Quirrenbach
- Landessternwarte, Universität Heidelberg, Heidelberg D-69117, Germany
| | - P Reichherzer
- Institute for Research on the Fundamental Laws of the Universe, Commissariat à l'énergie atomique et aux énergies alternatives, Université Paris-Saclay, Gif-sur-Yvette F-91191, France
| | - A Reimer
- Institut für Astro- und Teilchenphysik, Leopold-Franzens-Universität Innsbruck, Innsbruck A-6020, Austria
| | - O Reimer
- Institut für Astro- und Teilchenphysik, Leopold-Franzens-Universität Innsbruck, Innsbruck A-6020, Austria
| | - H Ren
- Max-Planck-Institut für Kernphysik, Heidelberg D-69117, Germany
| | - M Renaud
- Laboratoire Univers et Particules de Montpellier, Université Montpellier, Centre national de la recherche scientifique, Institut national de physique nucléaire et de physique des particules, Montpellier F-34095, France
| | - B Reville
- Max-Planck-Institut für Kernphysik, Heidelberg D-69117, Germany
| | - F Rieger
- Max-Planck-Institut für Kernphysik, Heidelberg D-69117, Germany
| | - G Rowell
- School of Physical Sciences, University of Adelaide, Adelaide 5005, Australia
| | - B Rudak
- Nicolaus Copernicus Astronomical Center, Polish Academy of Sciences, Warsaw 00-716, Poland
| | - H Rueda Ricarte
- Institute for Research on the Fundamental Laws of the Universe, Commissariat à l'énergie atomique et aux énergies alternatives, Université Paris-Saclay, Gif-sur-Yvette F-91191, France
| | - E Ruiz-Velasco
- Max-Planck-Institut für Kernphysik, Heidelberg D-69117, Germany
| | - V Sahakian
- Yerevan Physics Institute, Yerevan 375036, Armenia
| | - H Salzmann
- Institut für Astronomie und Astrophysik, Universität Tübingen, Tübingen D-72076, Germany
| | - A Santangelo
- Institut für Astronomie und Astrophysik, Universität Tübingen, Tübingen D-72076, Germany
| | - M Sasaki
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - J Schäfer
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - F Schüssler
- Institute for Research on the Fundamental Laws of the Universe, Commissariat à l'énergie atomique et aux énergies alternatives, Université Paris-Saclay, Gif-sur-Yvette F-91191, France
| | - U Schwanke
- Institut für Physik, Humboldt-Universität zu Berlin, Berlin D-12489, Germany
| | - J N S Shapopi
- Department of Physics, University of Namibia, Windhoek 10005, Namibia
| | - H Sol
- Laboratoire Univers et Théories, Observatoire de Paris, Université Paris Sciences et Lettres, CNRS, Université de Paris, Meudon 92190, France
| | - A Specovius
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - S Spencer
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - L Stawarz
- Obserwatorium Astronomiczne, Uniwersytet Jagielloński, Kraków 30-244, Poland
| | - R Steenkamp
- Department of Physics, University of Namibia, Windhoek 10005, Namibia
| | - S Steinmassl
- Max-Planck-Institut für Kernphysik, Heidelberg D-69117, Germany
| | - C Steppa
- Institut für Physik und Astronomie, Universität Potsdam, Potsdam 14476, Germany
| | - K Streil
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - I Sushch
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - H Suzuki
- Department of Physics, Konan University, Higashinada-ku Kobe 658-8501, Japan, Japan
| | - T Takahashi
- Kavli Institute for the Physics and Mathematics of the Universe, The University of Tokyo Institutes for Advanced Study, The University of Tokyo, Kashiwa Chiba 277-8583, Japan
| | - T Tanaka
- Department of Physics, Konan University, Higashinada-ku Kobe 658-8501, Japan, Japan
| | - A M Taylor
- Deutsches Elektronen-Synchrotron, Zeuthen D-15738, Germany
| | - R Terrier
- Laboratoire Astroparticule et Cosmologie, Université de Paris, Centre national de la recherche scientifique, Paris F-75013, France
| | - M Tsirou
- Deutsches Elektronen-Synchrotron, Zeuthen D-15738, Germany
| | - N Tsuji
- The Institute of Physical and Chemical Research (RIKEN), Wako Saitama 351-0198, Japan
| | - T Unbehaun
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - C van Eldik
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - M Vecchi
- Kapteyn Astronomical Institute, University of Groningen, Groningen 9747 AD, Netherlands
| | - J Veh
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - C Venter
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - J Vink
- Gravitation and Astroparticle Physics Amsterdam, Anton Pannekoek Institute for Astronomy, University of Amsterdam, Amsterdam 1098 XH, Netherlands
| | - T Wach
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - S J Wagner
- Landessternwarte, Universität Heidelberg, Heidelberg D-69117, Germany
| | - F Werner
- Max-Planck-Institut für Kernphysik, Heidelberg D-69117, Germany
| | - R White
- Max-Planck-Institut für Kernphysik, Heidelberg D-69117, Germany
| | - A Wierzcholska
- Instytut Fizyki J[Formula: see text]drowej, Polska Akademia Nauk, Kraków 31-342, Poland
| | - Yu Wun Wong
- Erlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen D-91058, Germany
| | - M Zacharias
- Landessternwarte, Universität Heidelberg, Heidelberg D-69117, Germany
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - D Zargaryan
- Dublin Institute for Advanced Studies, Dublin D02 XF86, Ireland
| | - A A Zdziarski
- Nicolaus Copernicus Astronomical Center, Polish Academy of Sciences, Warsaw 00-716, Poland
| | - A Zech
- Dublin Institute for Advanced Studies, Dublin D02 XF86, Ireland
- Kapteyn Astronomical Institute, University of Groningen, Groningen 9747 AD, Netherlands
| | - S Zouari
- Laboratoire Astroparticule et Cosmologie, Université de Paris, Centre national de la recherche scientifique, Paris F-75013, France
| | - N Żywucka
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
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5
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Ofer S, Blombach F, Erkelens AM, Barker D, Soloviev Z, Schwab S, Smollett K, Matelska D, Fouqueau T, van der Vis N, Kent NA, Thalassinos K, Dame RT, Werner F. DNA-bridging by an archaeal histone variant via a unique tetramerisation interface. Commun Biol 2023; 6:968. [PMID: 37740023 PMCID: PMC10516927 DOI: 10.1038/s42003-023-05348-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2022] [Accepted: 09/12/2023] [Indexed: 09/24/2023] Open
Abstract
In eukaryotes, histone paralogues form obligate heterodimers such as H3/H4 and H2A/H2B that assemble into octameric nucleosome particles. Archaeal histones are dimeric and assemble on DNA into 'hypernucleosome' particles of varying sizes with each dimer wrapping 30 bp of DNA. These are composed of canonical and variant histone paralogues, but the function of these variants is poorly understood. Here, we characterise the structure and function of the histone paralogue MJ1647 from Methanocaldococcus jannaschii that has a unique C-terminal extension enabling homotetramerisation. The 1.9 Å X-ray structure of a dimeric MJ1647 species, structural modelling of the tetramer, and site-directed mutagenesis reveal that the C-terminal tetramerization module consists of two alpha helices in a handshake arrangement. Unlike canonical histones, MJ1647 tetramers can bridge two DNA molecules in vitro. Using single-molecule tethered particle motion and DNA binding assays, we show that MJ1647 tetramers bind ~60 bp DNA and compact DNA in a highly cooperative manner. We furthermore show that MJ1647 effectively competes with the transcription machinery to block access to the promoter in vitro. To the best of our knowledge, MJ1647 is the first histone shown to have DNA bridging properties, which has important implications for genome structure and gene expression in archaea.
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Affiliation(s)
- Sapir Ofer
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Darwin Building, Gower Street, London, WC1E 6BT, UK
| | - Fabian Blombach
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Darwin Building, Gower Street, London, WC1E 6BT, UK
| | - Amanda M Erkelens
- Leiden Institute of Chemistry, Leiden University, Leiden, the Netherlands
| | - Declan Barker
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Darwin Building, Gower Street, London, WC1E 6BT, UK
| | - Zoja Soloviev
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Darwin Building, Gower Street, London, WC1E 6BT, UK
| | - Samuel Schwab
- Leiden Institute of Chemistry, Leiden University, Leiden, the Netherlands
| | - Katherine Smollett
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Darwin Building, Gower Street, London, WC1E 6BT, UK
| | - Dorota Matelska
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Darwin Building, Gower Street, London, WC1E 6BT, UK
- Centre for Genomics Research, Discovery Sciences, BioPharmaceuticals R&D, AstraZeneca, Cambridge, UK
| | - Thomas Fouqueau
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Darwin Building, Gower Street, London, WC1E 6BT, UK
| | - Nico van der Vis
- Leiden Institute of Chemistry, Leiden University, Leiden, the Netherlands
| | - Nicholas A Kent
- School of Biosciences, Cardiff University, Museum Avenue, Cardiff, CF10 3AX, UK
| | - Konstantinos Thalassinos
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Darwin Building, Gower Street, London, WC1E 6BT, UK
| | - Remus T Dame
- Leiden Institute of Chemistry, Leiden University, Leiden, the Netherlands.
| | - Finn Werner
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Darwin Building, Gower Street, London, WC1E 6BT, UK.
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6
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Werner F, Covenas R. P-24 Updated neural networks in schizophrenia and novel antipsychotic drugs. Clin Neurophysiol 2023. [DOI: 10.1016/j.clinph.2023.02.041] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/08/2023]
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7
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Han Y, Kinfu BM, Blombach F, Cackett G, Zhang H, Pérez-García P, Krohn I, Salomon J, Besirlioglu V, Mirzaeigarakani T, Schwaneberg U, Chow J, Werner F, Streit WR. A novel metagenome-derived viral RNA polymerase and its application in a cell-free expression system for metagenome screening. Sci Rep 2022; 12:17882. [PMID: 36284144 PMCID: PMC9596486 DOI: 10.1038/s41598-022-22383-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2022] [Accepted: 10/13/2022] [Indexed: 01/20/2023] Open
Abstract
The mining of genomes from non-cultivated microorganisms using metagenomics is a powerful tool to discover novel proteins and other valuable biomolecules. However, function-based metagenome searches are often limited by the time-consuming expression of the active proteins in various heterologous host systems. We here report the initial characterization of novel single-subunit bacteriophage RNA polymerase, EM1 RNAP, identified from a metagenome data set obtained from an elephant dung microbiome. EM1 RNAP and its promoter sequence are distantly related to T7 RNA polymerase. Using EM1 RNAP and a translation-competent Escherichia coli extract, we have developed an efficient medium-throughput pipeline and protocol allowing the expression of metagenome-derived genes and the production of proteins in cell-free system is sufficient for the initial testing of the predicted activities. Here, we have successfully identified and verified 12 enzymes acting on bis(2-hydroxyethyl) terephthalate (BHET) in a completely clone-free approach and proposed an in vitro high-throughput metagenomic screening method.
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Affiliation(s)
- Yuchen Han
- grid.9026.d0000 0001 2287 2617Department of Microbiology and Biotechnology, University of Hamburg, Ohnhorststr. 18, 22609 Hamburg, Germany
| | - Birhanu M. Kinfu
- grid.9026.d0000 0001 2287 2617Department of Microbiology and Biotechnology, University of Hamburg, Ohnhorststr. 18, 22609 Hamburg, Germany ,grid.9764.c0000 0001 2153 9986Present Address: Institute for General Microbiology, Christian-Albrechts-University, 24118 Kiel, Germany
| | - Fabian Blombach
- grid.83440.3b0000000121901201Division of Biosciences, Institute of Structural and Molecular Biology, University College London, Gower Street, London, WC1E 6BT UK
| | - Gwenny Cackett
- grid.83440.3b0000000121901201Division of Biosciences, Institute of Structural and Molecular Biology, University College London, Gower Street, London, WC1E 6BT UK
| | - Hongli Zhang
- grid.9026.d0000 0001 2287 2617Department of Microbiology and Biotechnology, University of Hamburg, Ohnhorststr. 18, 22609 Hamburg, Germany
| | - Pablo Pérez-García
- grid.9026.d0000 0001 2287 2617Department of Microbiology and Biotechnology, University of Hamburg, Ohnhorststr. 18, 22609 Hamburg, Germany
| | - Ines Krohn
- grid.9026.d0000 0001 2287 2617Department of Microbiology and Biotechnology, University of Hamburg, Ohnhorststr. 18, 22609 Hamburg, Germany
| | - Jesper Salomon
- grid.10582.3e0000 0004 0373 0797Novozymes A/S, Microbial Discovery, Bagsværd, Denmark
| | - Volkan Besirlioglu
- grid.1957.a0000 0001 0728 696XChair of Biotechnology, RWTH Aachen, Worringerweg 3, 52074 Aachen, Germany
| | - Tayebeh Mirzaeigarakani
- grid.1957.a0000 0001 0728 696XChair of Biotechnology, RWTH Aachen, Worringerweg 3, 52074 Aachen, Germany
| | - Ulrich Schwaneberg
- grid.1957.a0000 0001 0728 696XChair of Biotechnology, RWTH Aachen, Worringerweg 3, 52074 Aachen, Germany
| | - Jennifer Chow
- grid.9026.d0000 0001 2287 2617Department of Microbiology and Biotechnology, University of Hamburg, Ohnhorststr. 18, 22609 Hamburg, Germany
| | - Finn Werner
- grid.83440.3b0000000121901201Division of Biosciences, Institute of Structural and Molecular Biology, University College London, Gower Street, London, WC1E 6BT UK
| | - Wolfgang R. Streit
- grid.9026.d0000 0001 2287 2617Department of Microbiology and Biotechnology, University of Hamburg, Ohnhorststr. 18, 22609 Hamburg, Germany
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8
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Pinna S, Kunz C, Halpern A, Harrison SA, Jordan SF, Ward J, Werner F, Lane N. A prebiotic basis for ATP as the universal energy currency. PLoS Biol 2022; 20:e3001437. [PMID: 36194581 PMCID: PMC9531788 DOI: 10.1371/journal.pbio.3001437] [Citation(s) in RCA: 16] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2021] [Accepted: 08/30/2022] [Indexed: 11/07/2022] Open
Abstract
ATP is universally conserved as the principal energy currency in cells, driving metabolism through phosphorylation and condensation reactions. Such deep conservation suggests that ATP arose at an early stage of biochemical evolution. Yet purine synthesis requires 6 phosphorylation steps linked to ATP hydrolysis. This autocatalytic requirement for ATP to synthesize ATP implies the need for an earlier prebiotic ATP equivalent, which could drive protometabolism before purine synthesis. Why this early phosphorylating agent was replaced, and specifically with ATP rather than other nucleoside triphosphates, remains a mystery. Here, we show that the deep conservation of ATP might reflect its prebiotic chemistry in relation to another universally conserved intermediate, acetyl phosphate (AcP), which bridges between thioester and phosphate metabolism by linking acetyl CoA to the substrate-level phosphorylation of ADP. We confirm earlier results showing that AcP can phosphorylate ADP to ATP at nearly 20% yield in water in the presence of Fe3+ ions. We then show that Fe3+ and AcP are surprisingly favoured. A wide range of prebiotically relevant ions and minerals failed to catalyse ADP phosphorylation. From a panel of prebiotic phosphorylating agents, only AcP, and to a lesser extent carbamoyl phosphate, showed any significant phosphorylating potential. Critically, AcP did not phosphorylate any other nucleoside diphosphate. We use these data, reaction kinetics, and molecular dynamic simulations to infer a possible mechanism. Our findings might suggest that the reason ATP is universally conserved across life is that its formation is chemically favoured in aqueous solution under mild prebiotic conditions.
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Affiliation(s)
- Silvana Pinna
- Centre for Life’s Origins and Evolution (CLOE), Department of Genetics, Evolution and Environment, University College London, Darwin Building, London, United Kingdom
| | - Cäcilia Kunz
- Centre for Life’s Origins and Evolution (CLOE), Department of Genetics, Evolution and Environment, University College London, Darwin Building, London, United Kingdom
| | - Aaron Halpern
- Centre for Life’s Origins and Evolution (CLOE), Department of Genetics, Evolution and Environment, University College London, Darwin Building, London, United Kingdom
| | - Stuart A. Harrison
- Centre for Life’s Origins and Evolution (CLOE), Department of Genetics, Evolution and Environment, University College London, Darwin Building, London, United Kingdom
| | - Sean F. Jordan
- Centre for Life’s Origins and Evolution (CLOE), Department of Genetics, Evolution and Environment, University College London, Darwin Building, London, United Kingdom
| | - John Ward
- Department of Biochemical Engineering, University College London, London, United Kingdom
| | - Finn Werner
- Institute for Structural and Molecular Biology, University College London, Darwin Building, London, United Kingdom
| | - Nick Lane
- Centre for Life’s Origins and Evolution (CLOE), Department of Genetics, Evolution and Environment, University College London, Darwin Building, London, United Kingdom
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9
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Wöhnke E, Cackett G, Werner F, Blome S, Mettenleiter TC, Karger A. Proteome Analysis of Swine Macrophages after Infection with Two Genotype II African Swine Fever Isolates of Different Pathogenicity. Viruses 2022; 14:v14102140. [PMID: 36298696 PMCID: PMC9607119 DOI: 10.3390/v14102140] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2022] [Revised: 09/25/2022] [Accepted: 09/26/2022] [Indexed: 11/17/2022] Open
Abstract
Since the introduction of a highly pathogenic genotype II isolate of the African swine fever virus (ASFV) into Georgia in 2007, African swine fever (ASF) has gone panzootic. Outbreaks have been reported in Europe, Asia and, more recently, Latin America. Thus, ASFV has become a major threat to the pig industry worldwide, as broadly applicable vaccines are not available. While the majority of ASFV strains show high virulence in domestic pigs and wild boar, variations within the ASFV genome have resulted in the emergence of attenuated strains with low or moderate virulence. However, the molecular basis of the differences in virulence has not yet been discovered. To reveal virulence-associated protein expression patterns, we analysed the proteomes of the natural target cells of ASFV, primary porcine macrophages, after infection with two genotype II ASFV strains displaying high (Armenia 2008) and moderate (Estonia 2014) virulence using quantitative mass spectrometry. Very similar expression patterns were observed for the viral genes, and any differences were limited to the deletions within the Estonia 2014 genome. In addition to the canonical ASFV proteins, twelve novel protein products from recently described transcripts were confirmed in both isolates. Pathway analyses showed that both isolates evoked a similar host proteome response, despite their difference in virulence. However, subtle differences in the manipulation of the proteins involved in the proinflammatory response mediated by the MAPK14/p38 signalling cascade were observed.
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Affiliation(s)
- Elisabeth Wöhnke
- Institute of Molecular Virology and Cell Biology, Friedrich-Loeffler-Institut, Federal Research Institute for Animal Health, Südufer 10, 17493 Greifswald, Germany
| | - Gwenny Cackett
- Institute for Structural and Molecular Biology, Darwin Building, University College London, Gower Street, London WC1E 6BT, UK
| | - Finn Werner
- Institute for Structural and Molecular Biology, Darwin Building, University College London, Gower Street, London WC1E 6BT, UK
| | - Sandra Blome
- Institute of Diagnostic Virology, Friedrich-Loeffler-Institut, Federal Research Institute for Animal Health, Südufer 10, 17493 Greifswald, Germany
| | - Thomas C. Mettenleiter
- Friedrich-Loeffler-Institut, Federal Research Institute for Animal Health, Südufer 10, 17493 Greifswald, Germany
| | - Axel Karger
- Institute of Molecular Virology and Cell Biology, Friedrich-Loeffler-Institut, Federal Research Institute for Animal Health, Südufer 10, 17493 Greifswald, Germany
- Correspondence: ; Tel.: +49-38351-7-1247
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10
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Millán L, Santee ML, Lambert A, Livesey NJ, Werner F, Schwartz MJ, Pumphrey HC, Manney GL, Wang Y, Su H, Wu L, Read WG, Froidevaux L. The Hunga Tonga-Hunga Ha'apai Hydration of the Stratosphere. Geophys Res Lett 2022; 49:e2022GL099381. [PMID: 35865735 DOI: 10.1029/2021gl096270] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/30/2022] [Revised: 05/31/2022] [Accepted: 06/02/2022] [Indexed: 05/21/2023]
Abstract
Following the 15 January 2022 Hunga Tonga-Hunga Ha'apai eruption, several trace gases measured by the Aura Microwave Limb Sounder (MLS) displayed anomalous stratospheric values. Trajectories and radiance simulations confirm that the H2O, SO2, and HCl enhancements were injected by the eruption. In comparison with those from previous eruptions, the SO2 and HCl mass injections were unexceptional, although they reached higher altitudes. In contrast, the H2O injection was unprecedented in both magnitude (far exceeding any previous values in the 17-year MLS record) and altitude (penetrating into the mesosphere). We estimate the mass of H2O injected into the stratosphere to be 146 ± 5 Tg, or ∼10% of the stratospheric burden. It may take several years for the H2O plume to dissipate. This eruption could impact climate not through surface cooling due to sulfate aerosols, but rather through surface warming due to the radiative forcing from the excess stratospheric H2O.
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Affiliation(s)
- L Millán
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - M L Santee
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - A Lambert
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - N J Livesey
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - F Werner
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - M J Schwartz
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - H C Pumphrey
- School of GeoSciences The University of Edinburgh Edinburgh UK
| | - G L Manney
- NorthWest Research Associates Socorro NM USA
- New Mexico Institute of Mining and Technology Socorro NM USA
| | - Y Wang
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
- Division of Geological and Planetary Sciences California Institute of Technology Pasadena CA USA
| | - H Su
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - L Wu
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - W G Read
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - L Froidevaux
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
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11
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Millán L, Santee ML, Lambert A, Livesey NJ, Werner F, Schwartz MJ, Pumphrey HC, Manney GL, Wang Y, Su H, Wu L, Read WG, Froidevaux L. The Hunga Tonga-Hunga Ha'apai Hydration of the Stratosphere. Geophys Res Lett 2022; 49:e2022GL099381. [PMID: 35865735 DOI: 10.1029/2022gl098131] [Citation(s) in RCA: 16] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/30/2022] [Revised: 05/31/2022] [Accepted: 06/02/2022] [Indexed: 05/21/2023]
Abstract
Following the 15 January 2022 Hunga Tonga-Hunga Ha'apai eruption, several trace gases measured by the Aura Microwave Limb Sounder (MLS) displayed anomalous stratospheric values. Trajectories and radiance simulations confirm that the H2O, SO2, and HCl enhancements were injected by the eruption. In comparison with those from previous eruptions, the SO2 and HCl mass injections were unexceptional, although they reached higher altitudes. In contrast, the H2O injection was unprecedented in both magnitude (far exceeding any previous values in the 17-year MLS record) and altitude (penetrating into the mesosphere). We estimate the mass of H2O injected into the stratosphere to be 146 ± 5 Tg, or ∼10% of the stratospheric burden. It may take several years for the H2O plume to dissipate. This eruption could impact climate not through surface cooling due to sulfate aerosols, but rather through surface warming due to the radiative forcing from the excess stratospheric H2O.
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Affiliation(s)
- L Millán
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - M L Santee
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - A Lambert
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - N J Livesey
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - F Werner
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - M J Schwartz
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - H C Pumphrey
- School of GeoSciences The University of Edinburgh Edinburgh UK
| | - G L Manney
- NorthWest Research Associates Socorro NM USA
- New Mexico Institute of Mining and Technology Socorro NM USA
| | - Y Wang
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
- Division of Geological and Planetary Sciences California Institute of Technology Pasadena CA USA
| | - H Su
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - L Wu
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - W G Read
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - L Froidevaux
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
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12
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Millán L, Santee ML, Lambert A, Livesey NJ, Werner F, Schwartz MJ, Pumphrey HC, Manney GL, Wang Y, Su H, Wu L, Read WG, Froidevaux L. The Hunga Tonga-Hunga Ha'apai Hydration of the Stratosphere. Geophys Res Lett 2022. [PMID: 35865735 DOI: 10.1029/2022gl09938] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Subscribe] [Scholar Register] [Indexed: 05/12/2023]
Abstract
Following the 15 January 2022 Hunga Tonga-Hunga Ha'apai eruption, several trace gases measured by the Aura Microwave Limb Sounder (MLS) displayed anomalous stratospheric values. Trajectories and radiance simulations confirm that the H2O, SO2, and HCl enhancements were injected by the eruption. In comparison with those from previous eruptions, the SO2 and HCl mass injections were unexceptional, although they reached higher altitudes. In contrast, the H2O injection was unprecedented in both magnitude (far exceeding any previous values in the 17-year MLS record) and altitude (penetrating into the mesosphere). We estimate the mass of H2O injected into the stratosphere to be 146 ± 5 Tg, or ∼10% of the stratospheric burden. It may take several years for the H2O plume to dissipate. This eruption could impact climate not through surface cooling due to sulfate aerosols, but rather through surface warming due to the radiative forcing from the excess stratospheric H2O.
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Affiliation(s)
- L Millán
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - M L Santee
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - A Lambert
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - N J Livesey
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - F Werner
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - M J Schwartz
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - H C Pumphrey
- School of GeoSciences The University of Edinburgh Edinburgh UK
| | - G L Manney
- NorthWest Research Associates Socorro NM USA
- New Mexico Institute of Mining and Technology Socorro NM USA
| | - Y Wang
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
- Division of Geological and Planetary Sciences California Institute of Technology Pasadena CA USA
| | - H Su
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - L Wu
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - W G Read
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - L Froidevaux
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
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13
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Millán L, Santee ML, Lambert A, Livesey NJ, Werner F, Schwartz MJ, Pumphrey HC, Manney GL, Wang Y, Su H, Wu L, Read WG, Froidevaux L. The Hunga Tonga-Hunga Ha'apai Hydration of the Stratosphere. Geophys Res Lett 2022. [PMID: 35865735 DOI: 10.1029/2022gl100248] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/12/2023]
Abstract
Following the 15 January 2022 Hunga Tonga-Hunga Ha'apai eruption, several trace gases measured by the Aura Microwave Limb Sounder (MLS) displayed anomalous stratospheric values. Trajectories and radiance simulations confirm that the H2O, SO2, and HCl enhancements were injected by the eruption. In comparison with those from previous eruptions, the SO2 and HCl mass injections were unexceptional, although they reached higher altitudes. In contrast, the H2O injection was unprecedented in both magnitude (far exceeding any previous values in the 17-year MLS record) and altitude (penetrating into the mesosphere). We estimate the mass of H2O injected into the stratosphere to be 146 ± 5 Tg, or ∼10% of the stratospheric burden. It may take several years for the H2O plume to dissipate. This eruption could impact climate not through surface cooling due to sulfate aerosols, but rather through surface warming due to the radiative forcing from the excess stratospheric H2O.
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Affiliation(s)
- L Millán
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - M L Santee
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - A Lambert
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - N J Livesey
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - F Werner
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - M J Schwartz
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - H C Pumphrey
- School of GeoSciences The University of Edinburgh Edinburgh UK
| | - G L Manney
- NorthWest Research Associates Socorro NM USA
- New Mexico Institute of Mining and Technology Socorro NM USA
| | - Y Wang
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
- Division of Geological and Planetary Sciences California Institute of Technology Pasadena CA USA
| | - H Su
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - L Wu
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - W G Read
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
| | - L Froidevaux
- Jet Propulsion Laboratory California Institute of Technology Pasadena CA USA
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14
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Millán L, Santee ML, Lambert A, Livesey NJ, Werner F, Schwartz MJ, Pumphrey HC, Manney GL, Wang Y, Su H, Wu L, Read WG, Froidevaux L. The Hunga Tonga-Hunga Ha'apai Hydration of the Stratosphere. Geophys Res Lett 2022; 49:e2022GL099381. [PMID: 35865735 PMCID: PMC9285945 DOI: 10.1029/2022gl099381] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/30/2022] [Revised: 05/31/2022] [Accepted: 06/02/2022] [Indexed: 05/05/2023]
Abstract
Following the 15 January 2022 Hunga Tonga-Hunga Ha'apai eruption, several trace gases measured by the Aura Microwave Limb Sounder (MLS) displayed anomalous stratospheric values. Trajectories and radiance simulations confirm that the H2O, SO2, and HCl enhancements were injected by the eruption. In comparison with those from previous eruptions, the SO2 and HCl mass injections were unexceptional, although they reached higher altitudes. In contrast, the H2O injection was unprecedented in both magnitude (far exceeding any previous values in the 17-year MLS record) and altitude (penetrating into the mesosphere). We estimate the mass of H2O injected into the stratosphere to be 146 ± 5 Tg, or ∼10% of the stratospheric burden. It may take several years for the H2O plume to dissipate. This eruption could impact climate not through surface cooling due to sulfate aerosols, but rather through surface warming due to the radiative forcing from the excess stratospheric H2O.
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Affiliation(s)
- L. Millán
- Jet Propulsion LaboratoryCalifornia Institute of TechnologyPasadenaCAUSA
| | - M. L. Santee
- Jet Propulsion LaboratoryCalifornia Institute of TechnologyPasadenaCAUSA
| | - A. Lambert
- Jet Propulsion LaboratoryCalifornia Institute of TechnologyPasadenaCAUSA
| | - N. J. Livesey
- Jet Propulsion LaboratoryCalifornia Institute of TechnologyPasadenaCAUSA
| | - F. Werner
- Jet Propulsion LaboratoryCalifornia Institute of TechnologyPasadenaCAUSA
| | - M. J. Schwartz
- Jet Propulsion LaboratoryCalifornia Institute of TechnologyPasadenaCAUSA
| | - H. C. Pumphrey
- School of GeoSciencesThe University of EdinburghEdinburghUK
| | - G. L. Manney
- NorthWest Research AssociatesSocorroNMUSA
- New Mexico Institute of Mining and TechnologySocorroNMUSA
| | - Y. Wang
- Jet Propulsion LaboratoryCalifornia Institute of TechnologyPasadenaCAUSA
- Division of Geological and Planetary SciencesCalifornia Institute of TechnologyPasadenaCAUSA
| | - H. Su
- Jet Propulsion LaboratoryCalifornia Institute of TechnologyPasadenaCAUSA
| | - L. Wu
- Jet Propulsion LaboratoryCalifornia Institute of TechnologyPasadenaCAUSA
| | - W. G. Read
- Jet Propulsion LaboratoryCalifornia Institute of TechnologyPasadenaCAUSA
| | - L. Froidevaux
- Jet Propulsion LaboratoryCalifornia Institute of TechnologyPasadenaCAUSA
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15
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Aharonian F, Ait Benkhali F, Angüner EO, Ashkar H, Backes M, Baghmanyan V, Barbosa Martins V, Batzofin R, Becherini Y, Berge D, Bernlöhr K, Bi B, Böttcher M, Boisson C, Bolmont J, de Bony de Lavergne M, Breuhaus M, Brose R, Brun F, Caroff S, Casanova S, Cerruti M, Chand T, Chen A, Cotter G, Damascene Mbarubucyeye J, Djannati-Ataï A, Dmytriiev A, Doroshenko V, Duffy C, Egberts K, Ernenwein JP, Fegan S, Feijen K, Fiasson A, Fichet de Clairfontaine G, Fontaine G, Füßling M, Funk S, Gabici S, Gallant YA, Ghafourizadeh S, Giavitto G, Giunti L, Glawion D, Glicenstein JF, Grondin MH, Hermann G, Hinton JA, Hörbe M, Hofmann W, Hoischen C, Holch TL, Holler M, Horns D, Huang Z, Jamrozy M, Jankowsky F, Jung-Richardt I, Kasai E, Katarzyński K, Katz U, Khangulyan D, Khélifi B, Klepser S, Kluźniak W, Komin N, Konno R, Kosack K, Kostunin D, Le Stum S, Lemière A, Lemoine-Goumard M, Lenain JP, Leuschner F, Lohse T, Luashvili A, Lypova I, Mackey J, Malyshev D, Malyshev D, Marandon V, Marchegiani P, Marcowith A, Martí-Devesa G, Marx R, Maurin G, Meyer M, Mitchell A, Moderski R, Mohrmann L, Montanari A, Moulin E, Muller J, Murach T, Nakashima K, de Naurois M, Nayerhoda A, Niemiec J, Priyana Noel A, O'Brien P, Ohm S, Olivera-Nieto L, de Ona Wilhelmi E, Ostrowski M, Panny S, Panter M, Parsons RD, Peron G, Pita S, Poireau V, Prokhorov DA, Prokoph H, Pühlhofer G, Punch M, Quirrenbach A, Reichherzer P, Reimer A, Reimer O, Renaud M, Reville B, Rieger F, Rowell G, Rudak B, Rueda Ricarte H, Ruiz-Velasco E, Sahakian V, Sailer S, Salzmann H, Sanchez DA, Santangelo A, Sasaki M, Schäfer J, Schüssler F, Schutte HM, Schwanke U, Senniappan M, Shapopi JNS, Simoni R, Sinha A, Sol H, Specovius A, Spencer S, Stawarz Ł, Steinmassl S, Steppa C, Takahashi T, Tanaka T, Taylor AM, Terrier R, Thorpe-Morgan C, Tsirou M, Tsuji N, Tuffs R, Uchiyama Y, Unbehaun T, van Eldik C, van Soelen B, Veh J, Venter C, Vink J, Wagner SJ, Werner F, White R, Wierzcholska A, Wong YW, Yusafzai A, Zacharias M, Zargaryan D, Zdziarski AA, Zech A, Zhu SJ, Zouari S, Żywucka N. Time-resolved hadronic particle acceleration in the recurrent nova RS Ophiuchi. Science 2022; 376:77-80. [PMID: 35271303 DOI: 10.1126/science.abn0567] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022]
Abstract
Recurrent novae are repeating thermonuclear explosions in the outer layers of white dwarfs, due to the accretion of fresh material from a binary companion. The shock generated when ejected material slams into the companion star's wind can accelerate particles. We report very-high-energy (VHE, [Formula: see text]) gamma rays from the recurrent nova RS Ophiuchi, up to a month after its 2021 outburst, observed using the High Energy Stereoscopic System. The VHE emission has a similar temporal profile to lower-energy GeV emission, indicating a common origin, with a two-day delay in peak flux. These observations constrain models of time-dependent particle energization, favoring a hadronic emission scenario over the leptonic alternative. Shocks in dense winds provide favorable environments for efficient acceleration of cosmic-rays to very high energies.
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Affiliation(s)
- F Aharonian
- Dublin Institute for Advanced Studies, 31 Fitzwilliam Place, Dublin 2, Ireland
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
- High Energy Astrophysics Laboratory, Russian-Armenian University (RAU), 123 Hovsep Emin St Yerevan 0051, Armenia
| | - F Ait Benkhali
- Landessternwarte, Universität Heidelberg, Königstuhl, D 69117 Heidelberg, Germany
| | - E O Angüner
- Aix Marseille Université, Centre national de la recherche scientifique (CNRS)/Institut National de Physique Nucléaire et Physique des Particules (IN2P3), Centre de Physique des Particules de Marseille (CPPM), Marseille, France
| | - H Ashkar
- Laboratoire Leprince-Ringuet, École Polytechnique, CNRS, Institut Polytechnique de Paris, F-91128 Palaiseau, France
| | - M Backes
- University of Namibia, Department of Physics, Private Bag 13301, Windhoek 10005, Namibia
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - V Baghmanyan
- Instytut Fizyki J[Formula: see text]drowej Polskiej Akademii Nauk (PAN), ul. Radzikowskiego 152, 31-342 Kraków, Poland
| | - V Barbosa Martins
- Deutsches Elektronen-Synchrotron DESY, Platanenallee 6, 15738, Germany
| | - R Batzofin
- School of Physics, University of the Witwatersrand, 1 Jan Smuts Avenue, Braamfontein, Johannesburg, 2050 South Africa
| | - Y Becherini
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
- Department of Physics and Electrical Engineering, Linnaeus University, 351 95 Växjö, Sweden
| | - D Berge
- Deutsches Elektronen-Synchrotron DESY, Platanenallee 6, 15738, Germany
| | - K Bernlöhr
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
| | - B Bi
- Institut für Astronomie und Astrophysik, Universität Tübingen, Sand 1, D 72076 Tübingen, Germany
| | - M Böttcher
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - C Boisson
- Laboratoire Univers et Théories, Observatoire de Paris, Université PSL, CNRS, Université de Paris, 92190 Meudon, France
| | - J Bolmont
- Sorbonne Université, Université Paris Diderot, Sorbonne Paris Cité, CNRS/IN2P3, Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), 4 Place Jussieu, F-75252 Paris, France
| | - M de Bony de Lavergne
- Université Savoie Mont Blanc, CNRS, Laboratoire d'Annecy de Physique des Particules - IN2P3, 74000 Annecy, France
| | - M Breuhaus
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
| | - R Brose
- Dublin Institute for Advanced Studies, 31 Fitzwilliam Place, Dublin 2, Ireland
| | - F Brun
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commisariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - S Caroff
- Sorbonne Université, Université Paris Diderot, Sorbonne Paris Cité, CNRS/IN2P3, Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), 4 Place Jussieu, F-75252 Paris, France
| | - S Casanova
- Instytut Fizyki J[Formula: see text]drowej Polskiej Akademii Nauk (PAN), ul. Radzikowskiego 152, 31-342 Kraków, Poland
| | - M Cerruti
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
| | - T Chand
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - A Chen
- School of Physics, University of the Witwatersrand, 1 Jan Smuts Avenue, Braamfontein, Johannesburg, 2050 South Africa
| | - G Cotter
- University of Oxford, Department of Physics, Denys Wilkinson Building, Keble Road, Oxford OX1 3RH, UK
| | | | - A Djannati-Ataï
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
| | - A Dmytriiev
- Laboratoire Univers et Théories, Observatoire de Paris, Université PSL, CNRS, Université de Paris, 92190 Meudon, France
| | - V Doroshenko
- Institut für Astronomie und Astrophysik, Universität Tübingen, Sand 1, D 72076 Tübingen, Germany
| | - C Duffy
- University of Oxford, Department of Physics, Denys Wilkinson Building, Keble Road, Oxford OX1 3RH, UK
| | - K Egberts
- Institut für Physik und Astronomie, Universität Potsdam, Karl-Liebknecht-Strasse 24/25, D 14476 Potsdam, Germany
| | - J-P Ernenwein
- Aix Marseille Université, Centre national de la recherche scientifique (CNRS)/Institut National de Physique Nucléaire et Physique des Particules (IN2P3), Centre de Physique des Particules de Marseille (CPPM), Marseille, France
| | - S Fegan
- Laboratoire Leprince-Ringuet, École Polytechnique, CNRS, Institut Polytechnique de Paris, F-91128 Palaiseau, France
| | - K Feijen
- School of Physical Sciences, University of Adelaide, Adelaide 5005, Australia
| | - A Fiasson
- Université Savoie Mont Blanc, CNRS, Laboratoire d'Annecy de Physique des Particules - IN2P3, 74000 Annecy, France
| | - G Fichet de Clairfontaine
- Laboratoire Univers et Théories, Observatoire de Paris, Université PSL, CNRS, Université de Paris, 92190 Meudon, France
| | - G Fontaine
- Laboratoire Leprince-Ringuet, École Polytechnique, CNRS, Institut Polytechnique de Paris, F-91128 Palaiseau, France
| | - M Füßling
- Deutsches Elektronen-Synchrotron DESY, Platanenallee 6, 15738, Germany
| | - S Funk
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, Erwin-Rommel-Str. 1, D 91058 Erlangen, Germany
| | - S Gabici
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
| | - Y A Gallant
- Laboratoire Univers et Particules de Montpellier, Université Montpellier, CNRS/IN2P3, CC 72, Place Eugène Bataillon, F-34095 Montpellier Cedex 5, France
| | - S Ghafourizadeh
- Landessternwarte, Universität Heidelberg, Königstuhl, D 69117 Heidelberg, Germany
| | - G Giavitto
- Deutsches Elektronen-Synchrotron DESY, Platanenallee 6, 15738, Germany
| | - L Giunti
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commisariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - D Glawion
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, Erwin-Rommel-Str. 1, D 91058 Erlangen, Germany
| | - J F Glicenstein
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commisariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - M-H Grondin
- Université Bordeaux, CNRS, Laboratoire de Physique des Deux Infinis (LP2i), Bordeaux, Joint Research Unit (UMR 5797), F-33170 Gradignan, France
| | - G Hermann
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
| | - J A Hinton
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
| | - M Hörbe
- University of Oxford, Department of Physics, Denys Wilkinson Building, Keble Road, Oxford OX1 3RH, UK
| | - W Hofmann
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
| | - C Hoischen
- Institut für Physik und Astronomie, Universität Potsdam, Karl-Liebknecht-Strasse 24/25, D 14476 Potsdam, Germany
| | - T L Holch
- Deutsches Elektronen-Synchrotron DESY, Platanenallee 6, 15738, Germany
| | - M Holler
- Institut für Astro- und Teilchenphysik, Leopold-Franzens-Universität Innsbruck, A-6020 Innsbruck, Austria
| | - D Horns
- Universität Hamburg, Institut für Experimentalphysik, Luruper Chaussee 149, D 22761 Hamburg, Germany
| | - Zhiqiu Huang
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
| | - M Jamrozy
- Obserwatorium Astronomiczne, Uniwersytet Jagielloński, ul. Orla 171, 30-244 Kraków, Poland
| | - F Jankowsky
- Landessternwarte, Universität Heidelberg, Königstuhl, D 69117 Heidelberg, Germany
| | - I Jung-Richardt
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, Erwin-Rommel-Str. 1, D 91058 Erlangen, Germany
| | - E Kasai
- University of Namibia, Department of Physics, Private Bag 13301, Windhoek 10005, Namibia
| | - K Katarzyński
- Institute of Astronomy, Faculty of Physics, Astronomy and Informatics, Nicolaus Copernicus University, Grudziadzka 5, 87-100 Torun, Poland
| | - U Katz
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, Erwin-Rommel-Str. 1, D 91058 Erlangen, Germany
| | - D Khangulyan
- Department of Physics, Rikkyo University, 3-34-1 Nishi-Ikebukuro, Toshima-ku, Tokyo 171-8501, Japan
| | - B Khélifi
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
| | - S Klepser
- Deutsches Elektronen-Synchrotron DESY, Platanenallee 6, 15738, Germany
| | - W Kluźniak
- Nicolaus Copernicus Astronomical Center, Polish Academy of Sciences, ul. Bartycka 18, 00-716 Warsaw, Poland
| | - Nu Komin
- School of Physics, University of the Witwatersrand, 1 Jan Smuts Avenue, Braamfontein, Johannesburg, 2050 South Africa
| | - R Konno
- Deutsches Elektronen-Synchrotron DESY, Platanenallee 6, 15738, Germany
| | - K Kosack
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commisariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - D Kostunin
- Deutsches Elektronen-Synchrotron DESY, Platanenallee 6, 15738, Germany
| | - S Le Stum
- Aix Marseille Université, Centre national de la recherche scientifique (CNRS)/Institut National de Physique Nucléaire et Physique des Particules (IN2P3), Centre de Physique des Particules de Marseille (CPPM), Marseille, France
| | - A Lemière
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
| | - M Lemoine-Goumard
- Université Bordeaux, CNRS, Laboratoire de Physique des Deux Infinis (LP2i), Bordeaux, Joint Research Unit (UMR 5797), F-33170 Gradignan, France
| | - J-P Lenain
- Sorbonne Université, Université Paris Diderot, Sorbonne Paris Cité, CNRS/IN2P3, Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), 4 Place Jussieu, F-75252 Paris, France
| | - F Leuschner
- Institut für Astronomie und Astrophysik, Universität Tübingen, Sand 1, D 72076 Tübingen, Germany
| | - T Lohse
- Institut für Physik, Humboldt-Universität zu Berlin, Newtonstr. 15, D 12489 Berlin, Germany
| | - A Luashvili
- Laboratoire Univers et Théories, Observatoire de Paris, Université PSL, CNRS, Université de Paris, 92190 Meudon, France
| | - I Lypova
- Landessternwarte, Universität Heidelberg, Königstuhl, D 69117 Heidelberg, Germany
| | - J Mackey
- Dublin Institute for Advanced Studies, 31 Fitzwilliam Place, Dublin 2, Ireland
| | - D Malyshev
- Institut für Astronomie und Astrophysik, Universität Tübingen, Sand 1, D 72076 Tübingen, Germany
| | - D Malyshev
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, Erwin-Rommel-Str. 1, D 91058 Erlangen, Germany
| | - V Marandon
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
| | - P Marchegiani
- School of Physics, University of the Witwatersrand, 1 Jan Smuts Avenue, Braamfontein, Johannesburg, 2050 South Africa
| | - A Marcowith
- Laboratoire Univers et Particules de Montpellier, Université Montpellier, CNRS/IN2P3, CC 72, Place Eugène Bataillon, F-34095 Montpellier Cedex 5, France
| | - G Martí-Devesa
- Institut für Astro- und Teilchenphysik, Leopold-Franzens-Universität Innsbruck, A-6020 Innsbruck, Austria
| | - R Marx
- Landessternwarte, Universität Heidelberg, Königstuhl, D 69117 Heidelberg, Germany
| | - G Maurin
- Université Savoie Mont Blanc, CNRS, Laboratoire d'Annecy de Physique des Particules - IN2P3, 74000 Annecy, France
| | - M Meyer
- Universität Hamburg, Institut für Experimentalphysik, Luruper Chaussee 149, D 22761 Hamburg, Germany
| | - A Mitchell
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, Erwin-Rommel-Str. 1, D 91058 Erlangen, Germany
| | - R Moderski
- Nicolaus Copernicus Astronomical Center, Polish Academy of Sciences, ul. Bartycka 18, 00-716 Warsaw, Poland
| | - L Mohrmann
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
| | - A Montanari
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commisariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - E Moulin
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commisariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - J Muller
- Laboratoire Leprince-Ringuet, École Polytechnique, CNRS, Institut Polytechnique de Paris, F-91128 Palaiseau, France
| | - T Murach
- Deutsches Elektronen-Synchrotron DESY, Platanenallee 6, 15738, Germany
| | - K Nakashima
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, Erwin-Rommel-Str. 1, D 91058 Erlangen, Germany
| | - M de Naurois
- Laboratoire Leprince-Ringuet, École Polytechnique, CNRS, Institut Polytechnique de Paris, F-91128 Palaiseau, France
| | - A Nayerhoda
- Instytut Fizyki J[Formula: see text]drowej Polskiej Akademii Nauk (PAN), ul. Radzikowskiego 152, 31-342 Kraków, Poland
| | - J Niemiec
- Instytut Fizyki J[Formula: see text]drowej Polskiej Akademii Nauk (PAN), ul. Radzikowskiego 152, 31-342 Kraków, Poland
| | - A Priyana Noel
- Obserwatorium Astronomiczne, Uniwersytet Jagielloński, ul. Orla 171, 30-244 Kraków, Poland
| | - P O'Brien
- Department of Physics and Astronomy, The University of Leicester, University Road, Leicester, LE1 7RH, UK
| | - S Ohm
- Deutsches Elektronen-Synchrotron DESY, Platanenallee 6, 15738, Germany
| | - L Olivera-Nieto
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
| | - E de Ona Wilhelmi
- Deutsches Elektronen-Synchrotron DESY, Platanenallee 6, 15738, Germany
| | - M Ostrowski
- Obserwatorium Astronomiczne, Uniwersytet Jagielloński, ul. Orla 171, 30-244 Kraków, Poland
| | - S Panny
- Institut für Astro- und Teilchenphysik, Leopold-Franzens-Universität Innsbruck, A-6020 Innsbruck, Austria
| | - M Panter
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
| | - R D Parsons
- Institut für Physik, Humboldt-Universität zu Berlin, Newtonstr. 15, D 12489 Berlin, Germany
| | - G Peron
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
| | - S Pita
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
| | - V Poireau
- Université Savoie Mont Blanc, CNRS, Laboratoire d'Annecy de Physique des Particules - IN2P3, 74000 Annecy, France
| | - D A Prokhorov
- Gravitation and Astroparticle Physics at the University of Amsterdam (GRAPPA), Anton Pannekoek Institute for Astronomy, University of Amsterdam, Science Park 904, 1098 XH Amsterdam, Netherlands
| | - H Prokoph
- Deutsches Elektronen-Synchrotron DESY, Platanenallee 6, 15738, Germany
| | - G Pühlhofer
- Institut für Astronomie und Astrophysik, Universität Tübingen, Sand 1, D 72076 Tübingen, Germany
| | - M Punch
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
- Department of Physics and Electrical Engineering, Linnaeus University, 351 95 Växjö, Sweden
| | - A Quirrenbach
- Landessternwarte, Universität Heidelberg, Königstuhl, D 69117 Heidelberg, Germany
| | - P Reichherzer
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commisariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - A Reimer
- Institut für Astro- und Teilchenphysik, Leopold-Franzens-Universität Innsbruck, A-6020 Innsbruck, Austria
| | - O Reimer
- Institut für Astro- und Teilchenphysik, Leopold-Franzens-Universität Innsbruck, A-6020 Innsbruck, Austria
| | - M Renaud
- Laboratoire Univers et Particules de Montpellier, Université Montpellier, CNRS/IN2P3, CC 72, Place Eugène Bataillon, F-34095 Montpellier Cedex 5, France
| | - B Reville
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
| | - F Rieger
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
| | - G Rowell
- School of Physical Sciences, University of Adelaide, Adelaide 5005, Australia
| | - B Rudak
- Nicolaus Copernicus Astronomical Center, Polish Academy of Sciences, ul. Bartycka 18, 00-716 Warsaw, Poland
| | - H Rueda Ricarte
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commisariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - E Ruiz-Velasco
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
| | - V Sahakian
- Yerevan Physics Institute, 2 Alikhanian Brothers St., 375036 Yerevan, Armenia
| | - S Sailer
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
| | - H Salzmann
- Institut für Astronomie und Astrophysik, Universität Tübingen, Sand 1, D 72076 Tübingen, Germany
| | - D A Sanchez
- Université Savoie Mont Blanc, CNRS, Laboratoire d'Annecy de Physique des Particules - IN2P3, 74000 Annecy, France
| | - A Santangelo
- Institut für Astronomie und Astrophysik, Universität Tübingen, Sand 1, D 72076 Tübingen, Germany
| | - M Sasaki
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, Erwin-Rommel-Str. 1, D 91058 Erlangen, Germany
| | - J Schäfer
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, Erwin-Rommel-Str. 1, D 91058 Erlangen, Germany
| | - F Schüssler
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commisariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - H M Schutte
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - U Schwanke
- Institut für Physik, Humboldt-Universität zu Berlin, Newtonstr. 15, D 12489 Berlin, Germany
| | - M Senniappan
- Department of Physics and Electrical Engineering, Linnaeus University, 351 95 Växjö, Sweden
| | - J N S Shapopi
- University of Namibia, Department of Physics, Private Bag 13301, Windhoek 10005, Namibia
| | - R Simoni
- Gravitation and Astroparticle Physics at the University of Amsterdam (GRAPPA), Anton Pannekoek Institute for Astronomy, University of Amsterdam, Science Park 904, 1098 XH Amsterdam, Netherlands
| | - A Sinha
- Laboratoire Univers et Particules de Montpellier, Université Montpellier, CNRS/IN2P3, CC 72, Place Eugène Bataillon, F-34095 Montpellier Cedex 5, France
| | - H Sol
- Laboratoire Univers et Théories, Observatoire de Paris, Université PSL, CNRS, Université de Paris, 92190 Meudon, France
| | - A Specovius
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, Erwin-Rommel-Str. 1, D 91058 Erlangen, Germany
| | - S Spencer
- University of Oxford, Department of Physics, Denys Wilkinson Building, Keble Road, Oxford OX1 3RH, UK
| | - Ł Stawarz
- Obserwatorium Astronomiczne, Uniwersytet Jagielloński, ul. Orla 171, 30-244 Kraków, Poland
| | - S Steinmassl
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
| | - C Steppa
- Institut für Physik und Astronomie, Universität Potsdam, Karl-Liebknecht-Strasse 24/25, D 14476 Potsdam, Germany
| | - T Takahashi
- Kavli Institute for the Physics and Mathematics of the Universe (World Premier International Research Center Initiative (WPI)), The University of Tokyo Institutes for Advanced Study (UTIAS), The University of Tokyo, 5-1-5 Kashiwa-no-Ha, Kashiwa, Chiba, 277-8583, Japan
| | - T Tanaka
- Department of Physics, Konan University, 8-9-1 Okamoto, Higashinada, Kobe, Hyogo 658-8501, Japan
| | - A M Taylor
- Deutsches Elektronen-Synchrotron DESY, Platanenallee 6, 15738, Germany
| | - R Terrier
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
| | - C Thorpe-Morgan
- Institut für Astronomie und Astrophysik, Universität Tübingen, Sand 1, D 72076 Tübingen, Germany
| | - M Tsirou
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
| | - N Tsuji
- Institute of Physical and Chemical Research (RIKEN), 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
| | - R Tuffs
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
| | - Y Uchiyama
- Department of Physics, Rikkyo University, 3-34-1 Nishi-Ikebukuro, Toshima-ku, Tokyo 171-8501, Japan
| | - T Unbehaun
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, Erwin-Rommel-Str. 1, D 91058 Erlangen, Germany
| | - C van Eldik
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, Erwin-Rommel-Str. 1, D 91058 Erlangen, Germany
| | - B van Soelen
- Department of Physics, University of the Free State, PO Box 339, Bloemfontein 9300, South Africa
| | - J Veh
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, Erwin-Rommel-Str. 1, D 91058 Erlangen, Germany
| | - C Venter
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - J Vink
- Gravitation and Astroparticle Physics at the University of Amsterdam (GRAPPA), Anton Pannekoek Institute for Astronomy, University of Amsterdam, Science Park 904, 1098 XH Amsterdam, Netherlands
| | - S J Wagner
- Landessternwarte, Universität Heidelberg, Königstuhl, D 69117 Heidelberg, Germany
| | - F Werner
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
| | - R White
- Max-Planck-Institut für Kernphysik, P.O. Box 103980, D 69029 Heidelberg, Germany
| | - A Wierzcholska
- Instytut Fizyki J[Formula: see text]drowej Polskiej Akademii Nauk (PAN), ul. Radzikowskiego 152, 31-342 Kraków, Poland
| | - Yu Wun Wong
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, Erwin-Rommel-Str. 1, D 91058 Erlangen, Germany
| | - A Yusafzai
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, Erwin-Rommel-Str. 1, D 91058 Erlangen, Germany
| | - M Zacharias
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
- Laboratoire Univers et Théories, Observatoire de Paris, Université PSL, CNRS, Université de Paris, 92190 Meudon, France
| | - D Zargaryan
- Dublin Institute for Advanced Studies, 31 Fitzwilliam Place, Dublin 2, Ireland
- High Energy Astrophysics Laboratory, Russian-Armenian University (RAU), 123 Hovsep Emin St Yerevan 0051, Armenia
| | - A A Zdziarski
- Nicolaus Copernicus Astronomical Center, Polish Academy of Sciences, ul. Bartycka 18, 00-716 Warsaw, Poland
| | - A Zech
- Laboratoire Univers et Théories, Observatoire de Paris, Université PSL, CNRS, Université de Paris, 92190 Meudon, France
| | - S J Zhu
- Deutsches Elektronen-Synchrotron DESY, Platanenallee 6, 15738, Germany
| | - S Zouari
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
| | - N Żywucka
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
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Werner F. Progress and Challenges in Archaeal Molecular Biology. Methods Mol Biol 2022; 2522:205-207. [PMID: 36125751 DOI: 10.1007/978-1-0716-2445-6_12] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Archaea are a key feature of the terran biosphere. Since their early characterization in the 1970s, we have learned much about the fascinating organism, most recently by applying genome-, transcriptome-, proteome-, and metabolome-scale methods. This chapter describes seminal contributions that elaborate on the study of archaeal biology at the systems level.
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Affiliation(s)
- Finn Werner
- RNAP laboratory, Institute of Structural and Molecular Biology, University College London, London, UK.
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17
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Blombach F, Smollett KL, Werner F. ChIP-Seq Occupancy Mapping of the Archaeal Transcription Machinery. Methods Mol Biol 2022; 2522:209-222. [PMID: 36125752 DOI: 10.1007/978-1-0716-2445-6_13] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Genome-wide occupancy studies for RNA polymerases and their basal transcription factors deliver information about transcription dynamics and the recruitment of transcription elongation and termination factors in eukaryotes and prokaryotes. The primary method to determine genome-wide occupancies is chromatin immunoprecipitation combined with deep sequencing (ChIP-seq). Archaea possess a transcription machinery that is evolutionarily closer related to its eukaryotic counterpart but it operates in a prokaryotic cellular context. Studies on archaeal transcription brought insight into the evolution of transcription machineries and the universality of transcription mechanisms. Because of the limited resolution of ChIP-seq, the close spacing of promoters and transcription units found in archaeal genomes pose a challenge for ChIP-seq and the ensuing data analysis. The extreme growth temperature of many established archaeal model organisms necessitates further adaptations. This chapter describes a version of ChIP-seq adapted for the basal transcription machinery of thermophilic archaea and some modifications to the data analysis.
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Affiliation(s)
- Fabian Blombach
- Institute of Structural and Molecular Biology, Division of Biosciences, University College London, London, UK.
| | - Kathy L Smollett
- Institute of Structural and Molecular Biology, Division of Biosciences, University College London, London, UK
| | - Finn Werner
- Institute of Structural and Molecular Biology, Division of Biosciences, University College London, London, UK.
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18
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Pilotto S, Fouqueau T, Lukoyanova N, Sheppard C, Lucas-Staat S, Díaz-Santín LM, Matelska D, Prangishvili D, Cheung ACM, Werner F. Structural basis of RNA polymerase inhibition by viral and host factors. Nat Commun 2021; 12:5523. [PMID: 34535646 PMCID: PMC8448823 DOI: 10.1038/s41467-021-25666-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2021] [Accepted: 08/19/2021] [Indexed: 12/26/2022] Open
Abstract
RNA polymerase inhibition plays an important role in the regulation of transcription in response to environmental changes and in the virus-host relationship. Here we present the high-resolution structures of two such RNAP-inhibitor complexes that provide the structural bases underlying RNAP inhibition in archaea. The Acidianus two-tailed virus encodes the RIP factor that binds inside the DNA-binding channel of RNAP, inhibiting transcription by occlusion of binding sites for nucleic acid and the transcription initiation factor TFB. Infection with the Sulfolobus Turreted Icosahedral Virus induces the expression of the host factor TFS4, which binds in the RNAP funnel similarly to eukaryotic transcript cleavage factors. However, TFS4 allosterically induces a widening of the DNA-binding channel which disrupts trigger loop and bridge helix motifs. Importantly, the conformational changes induced by TFS4 are closely related to inactivated states of RNAP in other domains of life indicating a deep evolutionary conservation of allosteric RNAP inhibition.
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Affiliation(s)
- Simona Pilotto
- RNAP Laboratory, Institute for Structural and Molecular Biology, University College London, London, UK
| | - Thomas Fouqueau
- RNAP Laboratory, Institute for Structural and Molecular Biology, University College London, London, UK
| | - Natalya Lukoyanova
- Institute for Structural and Molecular Biology, Birkbeck College, London, UK
| | - Carol Sheppard
- Section of Virology, Department of Infectious disease, Imperial College London, London, UK
| | | | | | - Dorota Matelska
- RNAP Laboratory, Institute for Structural and Molecular Biology, University College London, London, UK
| | | | | | - Finn Werner
- RNAP Laboratory, Institute for Structural and Molecular Biology, University College London, London, UK.
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19
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Abstract
Recruitment of RNA polymerase and initiation factors to the promoter is the only known target for transcription activation and repression in archaea. Whether any of the subsequent steps towards productive transcription elongation are involved in regulation is not known. We characterised how the basal transcription machinery is distributed along genes in the archaeon Saccharolobus solfataricus. We discovered a distinct early elongation phase where RNA polymerases sequentially recruit the elongation factors Spt4/5 and Elf1 to form the transcription elongation complex (TEC) before the TEC escapes into productive transcription. TEC escape is rate-limiting for transcription output during exponential growth. Oxidative stress causes changes in TEC escape that correlate with changes in the transcriptome. Our results thus establish that TEC escape contributes to the basal promoter strength and facilitates transcription regulation. Impaired TEC escape coincides with the accumulation of initiation factors at the promoter and recruitment of termination factor aCPSF1 to the early TEC. This suggests two possible mechanisms for how TEC escape limits transcription, physically blocking upstream RNA polymerases during transcription initiation and premature termination of early TECs.
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Affiliation(s)
- Fabian Blombach
- Division of Biosciences, Institute of Structural and Molecular Biology, University College London, London, UK.
| | - Thomas Fouqueau
- Division of Biosciences, Institute of Structural and Molecular Biology, University College London, London, UK
| | - Dorota Matelska
- Division of Biosciences, Institute of Structural and Molecular Biology, University College London, London, UK
| | - Katherine Smollett
- Division of Biosciences, Institute of Structural and Molecular Biology, University College London, London, UK
| | - Finn Werner
- Division of Biosciences, Institute of Structural and Molecular Biology, University College London, London, UK.
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20
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Abdalla H, Aharonian F, Ait Benkhali F, Angüner EO, Arcaro C, Armand C, Armstrong T, Ashkar H, Backes M, Baghmanyan V, Barbosa Martins V, Barnacka A, Barnard M, Becherini Y, Berge D, Bernlöhr K, Bi B, Bissaldi E, Böttcher M, Boisson C, Bolmont J, de Bony de Lavergne M, Breuhaus M, Brun F, Brun P, Bryan M, Büchele M, Bulik T, Bylund T, Caroff S, Carosi A, Casanova S, Chand T, Chandra S, Chen A, Cotter G, Curyło M, Damascene Mbarubucyeye J, Davids ID, Davies J, Deil C, Devin J, Dirson L, Djannati-Ataï A, Dmytriiev A, Donath A, Doroshenko V, Dreyer L, Duffy C, Dyks J, Egberts K, Eichhorn F, Einecke S, Emery G, Ernenwein JP, Feijen K, Fegan S, Fiasson A, Fichet de Clairfontaine G, Fontaine G, Funk S, Füßling M, Gabici S, Gallant YA, Giavitto G, Giunti L, Glawion D, Glicenstein JF, Grondin MH, Hahn J, Haupt M, Hermann G, Hinton JA, Hofmann W, Hoischen C, Holch TL, Holler M, Hörbe M, Horns D, Huber D, Jamrozy M, Jankowsky D, Jankowsky F, Jardin-Blicq A, Joshi V, Jung-Richardt I, Kasai E, Kastendieck MA, Katarzyński K, Katz U, Khangulyan D, Khélifi B, Klepser S, Kluźniak W, Komin N, Konno R, Kosack K, Kostunin D, Kreter M, Lamanna G, Lemière A, Lemoine-Goumard M, Lenain JP, Leuschner F, Levy C, Lohse T, Lypova I, Mackey J, Majumdar J, Malyshev D, Malyshev D, Marandon V, Marchegiani P, Marcowith A, Mares A, Martí-Devesa G, Marx R, Maurin G, Meintjes PJ, Meyer M, Mitchell A, Moderski R, Mohrmann L, Montanari A, Moore C, Morris P, Moulin E, Muller J, Murach T, Nakashima K, Nayerhoda A, de Naurois M, Ndiyavala H, Niemiec J, Oakes L, O'Brien P, Odaka H, Ohm S, Olivera-Nieto L, de Ona Wilhelmi E, Ostrowski M, Panny S, Panter M, Parsons RD, Peron G, Peyaud B, Piel Q, Pita S, Poireau V, Priyana Noel A, Prokhorov DA, Prokoph H, Pühlhofer G, Punch M, Quirrenbach A, Raab S, Rauth R, Reichherzer P, Reimer A, Reimer O, Remy Q, Renaud M, Rieger F, Rinchiuso L, Romoli C, Rowell G, Rudak B, Ruiz-Velasco E, Sahakian V, Sailer S, Salzmann H, Sanchez DA, Santangelo A, Sasaki M, Scalici M, Schäfer J, Schüssler F, Schutte HM, Schwanke U, Seglar-Arroyo M, Senniappan M, Seyffert AS, Shafi N, Shapopi JNS, Shiningayamwe K, Simoni R, Sinha A, Sol H, Specovius A, Spencer S, Spir-Jacob M, Stawarz Ł, Sun L, Steenkamp R, Stegmann C, Steinmassl S, Steppa C, Takahashi T, Tam T, Tavernier T, Taylor AM, Terrier R, Thiersen JHE, Tiziani D, Tluczykont M, Tomankova L, Tsirou M, Tuffs R, Uchiyama Y, van der Walt DJ, van Eldik C, van Rensburg C, van Soelen B, Vasileiadis G, Veh J, Venter C, Vincent P, Vink J, Völk HJ, Wadiasingh Z, Wagner SJ, Watson J, Werner F, White R, Wierzcholska A, Wong YW, Yusafzai A, Zacharias M, Zanin R, Zargaryan D, Zdziarski AA, Zech A, Zhu SJ, Zorn J, Zouari S, Żywucka N, Evans P, Page K. Revealing x-ray and gamma ray temporal and spectral similarities in the GRB 190829A afterglow. Science 2021; 372:1081-1085. [PMID: 34083487 DOI: 10.1126/science.abe8560] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2020] [Accepted: 04/07/2021] [Indexed: 11/02/2022]
Abstract
Gamma-ray bursts (GRBs), which are bright flashes of gamma rays from extragalactic sources followed by fading afterglow emission, are associated with stellar core collapse events. We report the detection of very-high-energy (VHE) gamma rays from the afterglow of GRB 190829A, between 4 and 56 hours after the trigger, using the High Energy Stereoscopic System (H.E.S.S.). The low luminosity and redshift of GRB 190829A reduce both internal and external absorption, allowing determination of its intrinsic energy spectrum. Between energies of 0.18 and 3.3 tera-electron volts, this spectrum is described by a power law with photon index of 2.07 ± 0.09, similar to the x-ray spectrum. The x-ray and VHE gamma-ray light curves also show similar decay profiles. These similar characteristics in the x-ray and gamma-ray bands challenge GRB afterglow emission scenarios.
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Affiliation(s)
| | - H Abdalla
- University of Namibia, Department of Physics, Windhoek 10005, Namibia
| | - F Aharonian
- Dublin Institute for Advanced Studies, Dublin 2, Ireland. .,Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany.,High Energy Astrophysics Laboratory, Russian-Armenian University (RAU), Yerevan 0051, Armenia
| | - F Ait Benkhali
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - E O Angüner
- Aix Marseille Université, Centre national de la recherche scientifique (CNRS)/Institut National de Physique Nucléaire et Physique des Particules (IN2P3), Centre de Physique des Particules de Marseille (CPPM), Marseille, France
| | - C Arcaro
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - C Armand
- Laboratoire d'Annecy de Physique des Particules (LAPP), Université Grenoble Alpes, Université Savoie Mont Blanc, CNRS, 74000 Annecy, France
| | - T Armstrong
- University of Oxford, Department of Physics, Denys Wilkinson Building, Oxford OX1 3RH, UK
| | - H Ashkar
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commissariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - M Backes
- University of Namibia, Department of Physics, Windhoek 10005, Namibia.,Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - V Baghmanyan
- Instytut Fizyki Jądrowej Polskiej Akademii Nauk (PAN), 31-342 Kraków, Poland
| | | | - A Barnacka
- Obserwatorium Astronomiczne, Uniwersytet Jagielloński, 30-244 Kraków, Poland
| | - M Barnard
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - Y Becherini
- Department of Physics and Electrical Engineering, Linnaeus University, 351 95 Växjö, Sweden
| | - D Berge
- Deutsches Elektronen-Synchrotron (DESY), D-15738 Zeuthen, Germany
| | - K Bernlöhr
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - B Bi
- Institut für Astronomie und Astrophysik, Universität Tübingen, D 72076 Tübingen, Germany
| | - E Bissaldi
- Dipartimento Interateneo di Fisica, Politecnico di Bari, 70125 Bari, Italy.,Istituto Nazionale di Fisica Nucleare, Sezione di Bari, 70125 Bari, Italy
| | - M Böttcher
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - C Boisson
- Laboratoire Univers et Théories, Observatoire de Paris, Université PSL, CNRS, Université de Paris, 92190 Meudon, France
| | - J Bolmont
- Sorbonne Université, Université Paris Diderot, Sorbonne Paris Cité, CNRS/IN2P3, Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), F-75252 Paris, France
| | - M de Bony de Lavergne
- Laboratoire d'Annecy de Physique des Particules (LAPP), Université Grenoble Alpes, Université Savoie Mont Blanc, CNRS, 74000 Annecy, France
| | - M Breuhaus
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - F Brun
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commissariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - P Brun
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commissariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - M Bryan
- Gravitation and Astroparticle Physics at the University of Amsterdam (GRAPPA), Anton Pannekoek Institute for Astronomy, University of Amsterdam, 1098 XH Amsterdam, Netherlands
| | - M Büchele
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - T Bulik
- Astronomical Observatory, The University of Warsaw, 00-478 Warsaw, Poland
| | - T Bylund
- Department of Physics and Electrical Engineering, Linnaeus University, 351 95 Växjö, Sweden
| | - S Caroff
- Laboratoire d'Annecy de Physique des Particules (LAPP), Université Grenoble Alpes, Université Savoie Mont Blanc, CNRS, 74000 Annecy, France
| | - A Carosi
- Laboratoire d'Annecy de Physique des Particules (LAPP), Université Grenoble Alpes, Université Savoie Mont Blanc, CNRS, 74000 Annecy, France
| | - S Casanova
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany.,Instytut Fizyki Jądrowej Polskiej Akademii Nauk (PAN), 31-342 Kraków, Poland
| | - T Chand
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - S Chandra
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - A Chen
- School of Physics, University of the Witwatersrand, Braamfontein, Johannesburg 2050, South Africa
| | - G Cotter
- University of Oxford, Department of Physics, Denys Wilkinson Building, Oxford OX1 3RH, UK
| | - M Curyło
- Astronomical Observatory, The University of Warsaw, 00-478 Warsaw, Poland
| | | | - I D Davids
- University of Namibia, Department of Physics, Windhoek 10005, Namibia
| | - J Davies
- University of Oxford, Department of Physics, Denys Wilkinson Building, Oxford OX1 3RH, UK
| | - C Deil
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - J Devin
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
| | - L Dirson
- Universität Hamburg, Institut für Experimentalphysik, D 22761 Hamburg, Germany
| | - A Djannati-Ataï
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
| | - A Dmytriiev
- Laboratoire Univers et Théories, Observatoire de Paris, Université PSL, CNRS, Université de Paris, 92190 Meudon, France
| | - A Donath
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - V Doroshenko
- Institut für Astronomie und Astrophysik, Universität Tübingen, D 72076 Tübingen, Germany
| | - L Dreyer
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - C Duffy
- School of Physics and Astronomy, The University of Leicester, Leicester LE1 7RH, UK
| | - J Dyks
- Nicolaus Copernicus Astronomical Center, Polish Academy of Sciences, 00-716 Warsaw, Poland
| | - K Egberts
- Institut für Physik und Astronomie, Universität Potsdam, D 14476 Potsdam, Germany
| | - F Eichhorn
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - S Einecke
- School of Physical Sciences, University of Adelaide, Adelaide, SA 5005, Australia
| | - G Emery
- Sorbonne Université, Université Paris Diderot, Sorbonne Paris Cité, CNRS/IN2P3, Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), F-75252 Paris, France
| | - J-P Ernenwein
- Aix Marseille Université, Centre national de la recherche scientifique (CNRS)/Institut National de Physique Nucléaire et Physique des Particules (IN2P3), Centre de Physique des Particules de Marseille (CPPM), Marseille, France
| | - K Feijen
- School of Physical Sciences, University of Adelaide, Adelaide, SA 5005, Australia
| | - S Fegan
- Laboratoire Leprince-Ringuet, CNRS, Institut Polytechnique de Paris, F-91128 Palaiseau, France
| | - A Fiasson
- Laboratoire d'Annecy de Physique des Particules (LAPP), Université Grenoble Alpes, Université Savoie Mont Blanc, CNRS, 74000 Annecy, France
| | - G Fichet de Clairfontaine
- Laboratoire Univers et Théories, Observatoire de Paris, Université PSL, CNRS, Université de Paris, 92190 Meudon, France
| | - G Fontaine
- Laboratoire Leprince-Ringuet, CNRS, Institut Polytechnique de Paris, F-91128 Palaiseau, France
| | - S Funk
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - M Füßling
- Deutsches Elektronen-Synchrotron (DESY), D-15738 Zeuthen, Germany
| | - S Gabici
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
| | - Y A Gallant
- Laboratoire Univers et Particules de Montpellier, Université Montpellier, CNRS/IN2P3, F-34095 Montpellier Cedex 5, France
| | - G Giavitto
- Deutsches Elektronen-Synchrotron (DESY), D-15738 Zeuthen, Germany
| | - L Giunti
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commissariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France.,Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
| | - D Glawion
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - J F Glicenstein
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commissariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - M-H Grondin
- Université Bordeaux, CNRS/IN2P3, Centre d'Études Nucléaires de Bordeaux Gradignan, 33175 Gradignan, France
| | - J Hahn
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - M Haupt
- Deutsches Elektronen-Synchrotron (DESY), D-15738 Zeuthen, Germany
| | - G Hermann
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - J A Hinton
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - W Hofmann
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - C Hoischen
- Institut für Physik und Astronomie, Universität Potsdam, D 14476 Potsdam, Germany
| | - T L Holch
- Deutsches Elektronen-Synchrotron (DESY), D-15738 Zeuthen, Germany
| | - M Holler
- Institut für Astro- und Teilchenphysik, Leopold-Franzens-Universität Innsbruck, A-6020 Innsbruck, Austria
| | - M Hörbe
- University of Oxford, Department of Physics, Denys Wilkinson Building, Oxford OX1 3RH, UK
| | - D Horns
- Universität Hamburg, Institut für Experimentalphysik, D 22761 Hamburg, Germany
| | - D Huber
- Institut für Astro- und Teilchenphysik, Leopold-Franzens-Universität Innsbruck, A-6020 Innsbruck, Austria
| | - M Jamrozy
- Obserwatorium Astronomiczne, Uniwersytet Jagielloński, 30-244 Kraków, Poland
| | - D Jankowsky
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - F Jankowsky
- Landessternwarte, Universität Heidelberg, Königstuhl, D 69117 Heidelberg, Germany
| | - A Jardin-Blicq
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - V Joshi
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - I Jung-Richardt
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - E Kasai
- University of Namibia, Department of Physics, Windhoek 10005, Namibia
| | - M A Kastendieck
- Universität Hamburg, Institut für Experimentalphysik, D 22761 Hamburg, Germany
| | - K Katarzyński
- Institute of Astronomy, Faculty of Physics, Astronomy and Informatics, Nicolaus Copernicus University, 87-100 Torun, Poland
| | - U Katz
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - D Khangulyan
- Department of Physics, Rikkyo University, Toshima-ku, Tokyo 171-8501, Japan.
| | - B Khélifi
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
| | - S Klepser
- Deutsches Elektronen-Synchrotron (DESY), D-15738 Zeuthen, Germany
| | - W Kluźniak
- Nicolaus Copernicus Astronomical Center, Polish Academy of Sciences, 00-716 Warsaw, Poland
| | - Nu Komin
- School of Physics, University of the Witwatersrand, Braamfontein, Johannesburg 2050, South Africa
| | - R Konno
- Deutsches Elektronen-Synchrotron (DESY), D-15738 Zeuthen, Germany
| | - K Kosack
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commissariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - D Kostunin
- Deutsches Elektronen-Synchrotron (DESY), D-15738 Zeuthen, Germany
| | - M Kreter
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - G Lamanna
- Laboratoire d'Annecy de Physique des Particules (LAPP), Université Grenoble Alpes, Université Savoie Mont Blanc, CNRS, 74000 Annecy, France
| | - A Lemière
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
| | - M Lemoine-Goumard
- Université Bordeaux, CNRS/IN2P3, Centre d'Études Nucléaires de Bordeaux Gradignan, 33175 Gradignan, France
| | - J-P Lenain
- Sorbonne Université, Université Paris Diderot, Sorbonne Paris Cité, CNRS/IN2P3, Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), F-75252 Paris, France
| | - F Leuschner
- Institut für Astronomie und Astrophysik, Universität Tübingen, D 72076 Tübingen, Germany
| | - C Levy
- Sorbonne Université, Université Paris Diderot, Sorbonne Paris Cité, CNRS/IN2P3, Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), F-75252 Paris, France
| | - T Lohse
- Institut für Physik, Humboldt-Universität zu Berlin, D 12489 Berlin, Germany
| | - I Lypova
- Deutsches Elektronen-Synchrotron (DESY), D-15738 Zeuthen, Germany
| | - J Mackey
- Dublin Institute for Advanced Studies, Dublin 2, Ireland
| | - J Majumdar
- Deutsches Elektronen-Synchrotron (DESY), D-15738 Zeuthen, Germany
| | - D Malyshev
- Institut für Astronomie und Astrophysik, Universität Tübingen, D 72076 Tübingen, Germany
| | - D Malyshev
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - V Marandon
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - P Marchegiani
- School of Physics, University of the Witwatersrand, Braamfontein, Johannesburg 2050, South Africa
| | - A Marcowith
- Laboratoire Univers et Particules de Montpellier, Université Montpellier, CNRS/IN2P3, F-34095 Montpellier Cedex 5, France
| | - A Mares
- Université Bordeaux, CNRS/IN2P3, Centre d'Études Nucléaires de Bordeaux Gradignan, 33175 Gradignan, France
| | - G Martí-Devesa
- Institut für Astro- und Teilchenphysik, Leopold-Franzens-Universität Innsbruck, A-6020 Innsbruck, Austria
| | - R Marx
- Landessternwarte, Universität Heidelberg, Königstuhl, D 69117 Heidelberg, Germany.,Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - G Maurin
- Laboratoire d'Annecy de Physique des Particules (LAPP), Université Grenoble Alpes, Université Savoie Mont Blanc, CNRS, 74000 Annecy, France
| | - P J Meintjes
- Department of Physics, University of the Free State, Bloemfontein 9300, South Africa
| | - M Meyer
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - A Mitchell
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - R Moderski
- Nicolaus Copernicus Astronomical Center, Polish Academy of Sciences, 00-716 Warsaw, Poland
| | - L Mohrmann
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - A Montanari
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commissariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - C Moore
- School of Physics and Astronomy, The University of Leicester, Leicester LE1 7RH, UK
| | - P Morris
- University of Oxford, Department of Physics, Denys Wilkinson Building, Oxford OX1 3RH, UK
| | - E Moulin
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commissariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - J Muller
- Laboratoire Leprince-Ringuet, CNRS, Institut Polytechnique de Paris, F-91128 Palaiseau, France
| | - T Murach
- Deutsches Elektronen-Synchrotron (DESY), D-15738 Zeuthen, Germany
| | - K Nakashima
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - A Nayerhoda
- Instytut Fizyki Jądrowej Polskiej Akademii Nauk (PAN), 31-342 Kraków, Poland
| | - M de Naurois
- Laboratoire Leprince-Ringuet, CNRS, Institut Polytechnique de Paris, F-91128 Palaiseau, France
| | - H Ndiyavala
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - J Niemiec
- Instytut Fizyki Jądrowej Polskiej Akademii Nauk (PAN), 31-342 Kraków, Poland
| | - L Oakes
- Institut für Physik, Humboldt-Universität zu Berlin, D 12489 Berlin, Germany
| | - P O'Brien
- School of Physics and Astronomy, The University of Leicester, Leicester LE1 7RH, UK
| | - H Odaka
- Department of Physics, The University of Tokyo, Bunkyo-ku, Tokyo 113-0033, Japan
| | - S Ohm
- Deutsches Elektronen-Synchrotron (DESY), D-15738 Zeuthen, Germany
| | - L Olivera-Nieto
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | | | - M Ostrowski
- Obserwatorium Astronomiczne, Uniwersytet Jagielloński, 30-244 Kraków, Poland
| | - S Panny
- Institut für Astro- und Teilchenphysik, Leopold-Franzens-Universität Innsbruck, A-6020 Innsbruck, Austria
| | - M Panter
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - R D Parsons
- Institut für Physik, Humboldt-Universität zu Berlin, D 12489 Berlin, Germany
| | - G Peron
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - B Peyaud
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commissariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - Q Piel
- Laboratoire d'Annecy de Physique des Particules (LAPP), Université Grenoble Alpes, Université Savoie Mont Blanc, CNRS, 74000 Annecy, France
| | - S Pita
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
| | - V Poireau
- Laboratoire d'Annecy de Physique des Particules (LAPP), Université Grenoble Alpes, Université Savoie Mont Blanc, CNRS, 74000 Annecy, France
| | - A Priyana Noel
- Obserwatorium Astronomiczne, Uniwersytet Jagielloński, 30-244 Kraków, Poland
| | - D A Prokhorov
- Gravitation and Astroparticle Physics at the University of Amsterdam (GRAPPA), Anton Pannekoek Institute for Astronomy, University of Amsterdam, 1098 XH Amsterdam, Netherlands
| | - H Prokoph
- Deutsches Elektronen-Synchrotron (DESY), D-15738 Zeuthen, Germany
| | - G Pühlhofer
- Institut für Astronomie und Astrophysik, Universität Tübingen, D 72076 Tübingen, Germany
| | - M Punch
- Department of Physics and Electrical Engineering, Linnaeus University, 351 95 Växjö, Sweden.,Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
| | - A Quirrenbach
- Landessternwarte, Universität Heidelberg, Königstuhl, D 69117 Heidelberg, Germany
| | - S Raab
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - R Rauth
- Institut für Astro- und Teilchenphysik, Leopold-Franzens-Universität Innsbruck, A-6020 Innsbruck, Austria
| | - P Reichherzer
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commissariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - A Reimer
- Institut für Astro- und Teilchenphysik, Leopold-Franzens-Universität Innsbruck, A-6020 Innsbruck, Austria
| | - O Reimer
- Institut für Astro- und Teilchenphysik, Leopold-Franzens-Universität Innsbruck, A-6020 Innsbruck, Austria
| | - Q Remy
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - M Renaud
- Laboratoire Univers et Particules de Montpellier, Université Montpellier, CNRS/IN2P3, F-34095 Montpellier Cedex 5, France
| | - F Rieger
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - L Rinchiuso
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commissariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - C Romoli
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany.
| | - G Rowell
- School of Physical Sciences, University of Adelaide, Adelaide, SA 5005, Australia
| | - B Rudak
- Nicolaus Copernicus Astronomical Center, Polish Academy of Sciences, 00-716 Warsaw, Poland
| | - E Ruiz-Velasco
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany.
| | - V Sahakian
- Yerevan Physics Institute, 375036 Yerevan, Armenia
| | - S Sailer
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - H Salzmann
- Institut für Astronomie und Astrophysik, Universität Tübingen, D 72076 Tübingen, Germany
| | - D A Sanchez
- Laboratoire d'Annecy de Physique des Particules (LAPP), Université Grenoble Alpes, Université Savoie Mont Blanc, CNRS, 74000 Annecy, France
| | - A Santangelo
- Institut für Astronomie und Astrophysik, Universität Tübingen, D 72076 Tübingen, Germany
| | - M Sasaki
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - M Scalici
- Institut für Astronomie und Astrophysik, Universität Tübingen, D 72076 Tübingen, Germany
| | - J Schäfer
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - F Schüssler
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commissariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France.
| | - H M Schutte
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - U Schwanke
- Institut für Physik, Humboldt-Universität zu Berlin, D 12489 Berlin, Germany
| | - M Seglar-Arroyo
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commissariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - M Senniappan
- Department of Physics and Electrical Engineering, Linnaeus University, 351 95 Växjö, Sweden
| | - A S Seyffert
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - N Shafi
- School of Physics, University of the Witwatersrand, Braamfontein, Johannesburg 2050, South Africa
| | - J N S Shapopi
- University of Namibia, Department of Physics, Windhoek 10005, Namibia
| | - K Shiningayamwe
- University of Namibia, Department of Physics, Windhoek 10005, Namibia
| | - R Simoni
- Gravitation and Astroparticle Physics at the University of Amsterdam (GRAPPA), Anton Pannekoek Institute for Astronomy, University of Amsterdam, 1098 XH Amsterdam, Netherlands
| | - A Sinha
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
| | - H Sol
- Laboratoire Univers et Théories, Observatoire de Paris, Université PSL, CNRS, Université de Paris, 92190 Meudon, France
| | - A Specovius
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - S Spencer
- University of Oxford, Department of Physics, Denys Wilkinson Building, Oxford OX1 3RH, UK
| | - M Spir-Jacob
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
| | - Ł Stawarz
- Obserwatorium Astronomiczne, Uniwersytet Jagielloński, 30-244 Kraków, Poland
| | - L Sun
- Gravitation and Astroparticle Physics at the University of Amsterdam (GRAPPA), Anton Pannekoek Institute for Astronomy, University of Amsterdam, 1098 XH Amsterdam, Netherlands
| | - R Steenkamp
- University of Namibia, Department of Physics, Windhoek 10005, Namibia
| | - C Stegmann
- Institut für Physik und Astronomie, Universität Potsdam, D 14476 Potsdam, Germany.,Deutsches Elektronen-Synchrotron (DESY), D-15738 Zeuthen, Germany
| | - S Steinmassl
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - C Steppa
- Institut für Physik und Astronomie, Universität Potsdam, D 14476 Potsdam, Germany
| | - T Takahashi
- Kavli Institute for the Physics and Mathematics of the Universe (World Premier International Research Center Initiative (WPI)), The University of Tokyo Institutes for Advanced Study (UTIAS), The University of Tokyo, Kashiwa, Chiba, 277-8583, Japan
| | - T Tam
- School of Physics and Astronomy, Sun Yat Sen University, Guangzhou 510275, People's Republic of China
| | - T Tavernier
- Institute for Research on the Fundamental Laws of the Universe (IRFU), Commissariat à l'énergie atomique (CEA), Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - A M Taylor
- Deutsches Elektronen-Synchrotron (DESY), D-15738 Zeuthen, Germany.
| | - R Terrier
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
| | - J H E Thiersen
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - D Tiziani
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - M Tluczykont
- Universität Hamburg, Institut für Experimentalphysik, D 22761 Hamburg, Germany
| | - L Tomankova
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - M Tsirou
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - R Tuffs
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - Y Uchiyama
- Department of Physics, Rikkyo University, Toshima-ku, Tokyo 171-8501, Japan
| | - D J van der Walt
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - C van Eldik
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - C van Rensburg
- University of Namibia, Department of Physics, Windhoek 10005, Namibia
| | - B van Soelen
- Department of Physics, University of the Free State, Bloemfontein 9300, South Africa
| | - G Vasileiadis
- Laboratoire Univers et Particules de Montpellier, Université Montpellier, CNRS/IN2P3, F-34095 Montpellier Cedex 5, France
| | - J Veh
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - C Venter
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - P Vincent
- Sorbonne Université, Université Paris Diderot, Sorbonne Paris Cité, CNRS/IN2P3, Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), F-75252 Paris, France
| | - J Vink
- Gravitation and Astroparticle Physics at the University of Amsterdam (GRAPPA), Anton Pannekoek Institute for Astronomy, University of Amsterdam, 1098 XH Amsterdam, Netherlands
| | - H J Völk
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - Z Wadiasingh
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - S J Wagner
- Landessternwarte, Universität Heidelberg, Königstuhl, D 69117 Heidelberg, Germany
| | - J Watson
- University of Oxford, Department of Physics, Denys Wilkinson Building, Oxford OX1 3RH, UK
| | - F Werner
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - R White
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - A Wierzcholska
- Instytut Fizyki Jądrowej Polskiej Akademii Nauk (PAN), 31-342 Kraków, Poland.,Landessternwarte, Universität Heidelberg, Königstuhl, D 69117 Heidelberg, Germany
| | - Yu Wun Wong
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - A Yusafzai
- Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen Centre for Astroparticle Physics, D 91058 Erlangen, Germany
| | - M Zacharias
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa.,Laboratoire Univers et Théories, Observatoire de Paris, Université PSL, CNRS, Université de Paris, 92190 Meudon, France
| | - R Zanin
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - D Zargaryan
- Dublin Institute for Advanced Studies, Dublin 2, Ireland.,High Energy Astrophysics Laboratory, Russian-Armenian University (RAU), Yerevan 0051, Armenia
| | - A A Zdziarski
- Nicolaus Copernicus Astronomical Center, Polish Academy of Sciences, 00-716 Warsaw, Poland
| | - A Zech
- Laboratoire Univers et Théories, Observatoire de Paris, Université PSL, CNRS, Université de Paris, 92190 Meudon, France
| | - S J Zhu
- Deutsches Elektronen-Synchrotron (DESY), D-15738 Zeuthen, Germany.
| | - J Zorn
- Max-Planck-Institut für Kernphysik, D 69029 Heidelberg, Germany
| | - S Zouari
- Université de Paris, CNRS, Astroparticule et Cosmologie, F-75013 Paris, France
| | - N Żywucka
- Centre for Space Research, North-West University, Potchefstroom 2520, South Africa
| | - P Evans
- School of Physics and Astronomy, The University of Leicester, Leicester LE1 7RH, UK
| | - K Page
- School of Physics and Astronomy, The University of Leicester, Leicester LE1 7RH, UK
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21
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Weixlbaumer A, Grünberger F, Werner F, Grohmann D. Coupling of Transcription and Translation in Archaea: Cues From the Bacterial World. Front Microbiol 2021; 12:661827. [PMID: 33995325 PMCID: PMC8116511 DOI: 10.3389/fmicb.2021.661827] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2021] [Accepted: 03/30/2021] [Indexed: 01/07/2023] Open
Abstract
The lack of a nucleus is the defining cellular feature of bacteria and archaea. Consequently, transcription and translation are occurring in the same compartment, proceed simultaneously and likely in a coupled fashion. Recent cryo-electron microscopy (cryo-EM) and tomography data, also combined with crosslinking-mass spectrometry experiments, have uncovered detailed structural features of the coupling between a transcribing bacterial RNA polymerase (RNAP) and the trailing translating ribosome in Escherichia coli and Mycoplasma pneumoniae. Formation of this supercomplex, called expressome, is mediated by physical interactions between the RNAP-bound transcription elongation factors NusG and/or NusA and the ribosomal proteins including uS10. Based on the structural conservation of the RNAP core enzyme, the ribosome, and the universally conserved elongation factors Spt5 (NusG) and NusA, we discuss requirements and functional implications of transcription-translation coupling in archaea. We furthermore consider additional RNA-mediated and co-transcriptional processes that potentially influence expressome formation in archaea.
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Affiliation(s)
- Albert Weixlbaumer
- Department of Integrated Structural Biology, Institut de Génétique et de Biologie Moléculaire et Cellulaire (IGBMC), Illkirch, France
- Université de Strasbourg, Strasbourg, France
- CNRS UMR7104, Illkirch, France
- INSERM U1258, Illkirch, France
| | - Felix Grünberger
- Institute of Microbiology and Archaea Centre, University of Regensburg, Regensburg, Germany
| | - Finn Werner
- RNAP Lab, Division of Biosciences, Institute for Structural and Molecular Biology, London, United Kingdom
| | - Dina Grohmann
- Institute of Microbiology and Archaea Centre, University of Regensburg, Regensburg, Germany
- Regensburg Center for Biochemistry, University of Regensburg, Regensburg, Germany
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22
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Zink IA, Fouqueau T, Tarrason Risa G, Werner F, Baum B, Bläsi U, Schleper C. Comparative CRISPR type III-based knockdown of essential genes in hyperthermophilic Sulfolobales and the evasion of lethal gene silencing. RNA Biol 2021; 18:421-434. [PMID: 32957821 PMCID: PMC7951960 DOI: 10.1080/15476286.2020.1813411] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2020] [Revised: 07/22/2020] [Accepted: 08/16/2020] [Indexed: 02/07/2023] Open
Abstract
CRISPR type III systems, which are abundantly found in archaea, recognize and degrade RNA in their specific response to invading nucleic acids. Therefore, these systems can be harnessed for gene knockdown technologies even in hyperthermophilic archaea to study essential genes. We show here the broader usability of this posttranscriptional silencing technology by expanding the application to further essential genes and systematically analysing and comparing silencing thresholds and escape mutants. Synthetic guide RNAs expressed from miniCRISPR cassettes were used to silence genes involved in cell division (cdvA), transcription (rpo8), and RNA metabolism (smAP2) of the two crenarchaeal model organisms Saccharolobus solfataricus and Sulfolobus acidocaldarius. Results were systematically analysed together with those obtained from earlier experiments of cell wall biogenesis (slaB) and translation (aif5A). Comparison of over 100 individual transformants revealed gene-specific silencing maxima ranging between 40 and 75%, which induced specific knockdown phenotypes leading to growth retardation. Exceedance of this threshold by strong miniCRISPR constructs was not tolerated and led to specific mutation of the silencing miniCRISPR array and phenotypical reversion of cultures. In two thirds of sequenced reverted cultures, the targeting spacers were found to be precisely excised from the miniCRISPR array, indicating a still hypothetical, but highly active recombination system acting on the dynamics of CRISPR spacer arrays. Our results indicate that CRISPR type III - based silencing is a broadly applicable tool to study in vivo functions of essential genes in Sulfolobales which underlies a specific mechanism to avoid malignant silencing overdose.
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Affiliation(s)
- Isabelle Anna Zink
- Department of Functional and Evolutionary Ecology, University of Vienna, Vienna, Austria
| | - Thomas Fouqueau
- RNAP Lab, Institute of Structural and Molecular Biology, Division of Biosciences, University College London, London, UK
| | - Gabriel Tarrason Risa
- Medical Research Council Laboratory for Molecular Cell Biology, University College London, London, UK
| | - Finn Werner
- RNAP Lab, Institute of Structural and Molecular Biology, Division of Biosciences, University College London, London, UK
| | - Buzz Baum
- Medical Research Council Laboratory for Molecular Cell Biology, University College London, London, UK
| | - Udo Bläsi
- Max Perutz Laboratories, University of Vienna, Vienna, Austria
| | - Christa Schleper
- Department of Functional and Evolutionary Ecology, University of Vienna, Vienna, Austria
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23
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Werner F, Schwartz MJ, Livesey NJ, Read WG, Santee ML. Extreme Outliers in Lower Stratospheric Water Vapor Over North America Observed by MLS: Relation to Overshooting Convection Diagnosed From Colocated Aqua-MODIS Data. Geophys Res Lett 2020; 47:e2020GL090131. [PMID: 33518832 PMCID: PMC7816234 DOI: 10.1029/2020gl090131] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/30/2020] [Revised: 10/29/2020] [Accepted: 11/12/2020] [Indexed: 05/21/2023]
Abstract
Convectively injected water vapor (H2O) in the North American (NA) summer lowermost stratosphere results in significant outliers in the 100-hPa H2O measurements from the Aura Microwave Limb Sounder (MLS). MLS statistics from 15 years confirm that the NA region contains over 60% of global 100-hPa H2O > 12 ppmv, despite having only ∼1.8% of all MLS observations. A profile sampled in August 2019 stands out, withH 2 O = 26 . 3 ppmv, far exceeding the prior record and the median ∼4.5-ppmv abundance in NA. This particular outlier is associated with a large overshooting convective event (OCE) that spanned multiple U.S. states and persisted for several hours. Colocation of the MLS data over NA with cloud observations from Aqua's Moderate Resolution Imaging Spectroradiometer (MODIS) reveals the unique character of this case, as only 2.3% of MLS profiles are as close to an OCE and only 0.024% of OCEs cover as large an area within a 500-km perimeter of a profile.
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Affiliation(s)
- F. Werner
- Jet Propulsion LaboratoryCalifornia Institute of TechnologyPasadenaCAUSA
| | - M. J. Schwartz
- Jet Propulsion LaboratoryCalifornia Institute of TechnologyPasadenaCAUSA
| | - N. J. Livesey
- Jet Propulsion LaboratoryCalifornia Institute of TechnologyPasadenaCAUSA
| | - W. G. Read
- Jet Propulsion LaboratoryCalifornia Institute of TechnologyPasadenaCAUSA
| | - M. L. Santee
- Jet Propulsion LaboratoryCalifornia Institute of TechnologyPasadenaCAUSA
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24
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Cackett G, Matelska D, Sýkora M, Portugal R, Malecki M, Bähler J, Dixon L, Werner F. The African Swine Fever Virus Transcriptome. J Virol 2020; 94:e00119-20. [PMID: 32075923 PMCID: PMC7163114 DOI: 10.1128/jvi.00119-20] [Citation(s) in RCA: 95] [Impact Index Per Article: 23.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2020] [Accepted: 02/04/2020] [Indexed: 11/20/2022] Open
Abstract
African swine fever virus (ASFV) causes hemorrhagic fever in domestic pigs, presenting the biggest global threat to animal farming in recorded history. Despite the importance of ASFV, little is known about the mechanisms and regulation of ASFV transcription. Using RNA sequencing methods, we have determined total RNA abundance, transcription start sites, and transcription termination sites at single-nucleotide resolution. This allowed us to characterize DNA consensus motifs of early and late ASFV core promoters, as well as a polythymidylate sequence determinant for transcription termination. Our results demonstrate that ASFV utilizes alternative transcription start sites between early and late stages of infection and that ASFV RNA polymerase (RNAP) undergoes promoter-proximal transcript slippage at 5' ends of transcription units, adding quasitemplated AU- and AUAU-5' extensions to mRNAs. Here, we present the first much-needed genome-wide transcriptome study that provides unique insight into ASFV transcription and serves as a resource to aid future functional analyses of ASFV genes which are essential to combat this devastating disease.IMPORTANCE African swine fever virus (ASFV) causes incurable and often lethal hemorrhagic fever in domestic pigs. In 2020, ASF presents an acute and global animal health emergency that has the potential to devastate entire national economies as effective vaccines or antiviral drugs are not currently available (according to the Food and Agriculture Organization of the United Nations). With major outbreaks ongoing in Eastern Europe and Asia, urgent action is needed to advance our knowledge about the fundamental biology of ASFV, including the mechanisms and temporal control of gene expression. A thorough understanding of RNAP and transcription factor function, and of the sequence context of their promoter motifs, as well as accurate knowledge of which genes are expressed when and the amino acid sequence of the encoded proteins, is direly needed for the development of antiviral drugs and vaccines.
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Affiliation(s)
- Gwenny Cackett
- Institute for Structural and Molecular Biology, University College London, London, United Kingdom
| | - Dorota Matelska
- Institute for Structural and Molecular Biology, University College London, London, United Kingdom
| | - Michal Sýkora
- Institute for Structural and Molecular Biology, University College London, London, United Kingdom
- Institute of Molecular Genetics, Czech Academy of Sciences, Prague, Czechia
| | | | - Michal Malecki
- Institute for Structural and Molecular Biology, University College London, London, United Kingdom
- Institute of Healthy Ageing, Department of Genetics, Evolution and Environment, University College London, London, United Kingdom
| | - Jürg Bähler
- Institute for Structural and Molecular Biology, University College London, London, United Kingdom
- Institute of Healthy Ageing, Department of Genetics, Evolution and Environment, University College London, London, United Kingdom
| | - Linda Dixon
- Pirbright Institute, Pirbright, Surrey, United Kingdom
| | - Finn Werner
- Institute for Structural and Molecular Biology, University College London, London, United Kingdom
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25
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Carty AE, Werner F, Molloy JE. Histone-DNA Interactions in the Archaeon Methanocaldococcus Jannaschii. Biophys J 2020. [DOI: 10.1016/j.bpj.2019.11.2157] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
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26
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Schneider M, Werner F, Langenkämper D, Reinhart C, Laplanche G. Data compilation on the effect of grain size, temperature, and texture on the strength of a single-phase FCC MnFeNi medium-entropy alloy. Data Brief 2020; 28:104807. [PMID: 31871972 PMCID: PMC6909151 DOI: 10.1016/j.dib.2019.104807] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2019] [Accepted: 11/07/2019] [Indexed: 11/23/2022] Open
Abstract
This data article presents a compilation of microstructural and mechanical data regarding the ternary single-phase FCC MnFeNi medium-entropy alloy (MEA). For the analysis, interpretation, and comparison of the data to literature values, the reader can refer to the original related research article entitled "Effect of Temperature and Texture on Hall-Petch Strengthening by Grain and Annealing Twin Boundaries in the MnFeNi Medium-Entropy Alloy", see Schneider et al. (Metals 9, 2019, 84). The microstructural data reported here include: (i) raw backscatter electron (BSE) micrographs (tif-files) obtained using a scanning electron microscope (SEM) for nine different grain sizes with four images for each grain size and (ii) pdf reports and tables shown below presenting the distributions of the grain- (d, accounting for grain boundaries only) and crystallite- (c, which accounts for both grain and annealing twin boundaries) sizes and of the annealing twin thicknesses (t). These datasets may be useful to develop new algorithms for the automated evaluation of microstructural parameters in recrystallized alloys, i.e. with these benchmark data, an algorithm for image analysis could be trained to assess the above mentioned microstructural parameters. This would help to speed up the analysis of microstructures and improve its reliability. Additional tables describing the recrystallized microstructures and texture include the average number of annealing twin boundaries per grain (n), and the average Taylor factors (M). Raeisinia et al. (Model. Simul. Mater. Sc. 16, 2008, 025001) recently used a viscoplastic model to show that differences in the distribution of microstructural parameters affect the Hall-Petch parameters, but no attempt has been carried out so far to experimentally investigate this possibility since grain size distributions are rarely reported. Here, our benchmark data (e.g. distribution in grain/crystallite sizes, annealing twins per grain, distribution of annealing twin thicknesses) could be used to address these issues. The data describing the mechanical properties reported here are excel-sheets of raw stress-strain curves for temperatures ranging from 77 K to 873 K and different grain sizes. The yield stress (σ 0.2% ) and the normalized Hall-Petch parameters (σ 0 /G and k y /Gb 2) are given for all temperatures. The normalized Hall-Petch parameters are reported here since they allow to better compare the strength and the magnitude of grain boundary strengthening of different alloys with the same crystallographic structure, see Cordero et al. (Int. Mater. Rev. 61, 2016, 495-512). Moreover, the Hall-Petch parameters as well as the mechanical data reported here could be used for data mining and implemented in programs used for alloy design.
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Affiliation(s)
- M. Schneider
- Institute for Materials, Ruhr-University Bochum, Universitätsstr. 150, 44801, Bochum, Germany
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27
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Ebright RH, Werner F, Zhang X. RNA Polymerase Reaches 60: Transcription Initiation, Elongation, Termination, and Regulation in Prokaryotes. J Mol Biol 2019; 431:3945-3946. [PMID: 31356803 DOI: 10.1016/j.jmb.2019.07.026] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Affiliation(s)
- Richard H Ebright
- Waksman Institute and Department of Chemistry, Rutgers University, Piscataway, NJ 08854, USA.
| | - Finn Werner
- Institute of Structural and Molecular Biology, Division of Biosciences, University College London, London WC1E 6BT, United Kingdom
| | - Xiaodong Zhang
- Section of Structural Biology, Department of Medicine, Imperial College London, London SW7 2AZ, United Kingdom
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28
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Blombach F, Matelska D, Fouqueau T, Cackett G, Werner F. Key Concepts and Challenges in Archaeal Transcription. J Mol Biol 2019; 431:4184-4201. [PMID: 31260691 DOI: 10.1016/j.jmb.2019.06.020] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2019] [Revised: 06/18/2019] [Accepted: 06/20/2019] [Indexed: 12/17/2022]
Abstract
Transcription is enabled by RNA polymerase and general factors that allow its progress through the transcription cycle by facilitating initiation, elongation and termination. The transitions between specific stages of the transcription cycle provide opportunities for the global and gene-specific regulation of gene expression. The exact mechanisms and the extent to which the different steps of transcription are exploited for regulation vary between the domains of life, individual species and transcription units. However, a surprising degree of conservation is apparent. Similar key steps in the transcription cycle can be targeted by homologous or unrelated factors providing insights into the mechanisms of RNAP and the evolution of the transcription machinery. Archaea are bona fide prokaryotes but employ a eukaryote-like transcription system to express the information of bacteria-like genomes. Thus, archaea provide the means not only to study transcription mechanisms of interesting model systems but also to test key concepts of regulation in this arena. In this review, we discuss key principles of archaeal transcription, new questions that still await experimental investigation, and how novel integrative approaches hold great promise to fill this gap in our knowledge.
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Affiliation(s)
- Fabian Blombach
- Institute of Structural and Molecular Biology, Division of Biosciences, University College London, London, WC1E 6BT, United Kingdom.
| | - Dorota Matelska
- Institute of Structural and Molecular Biology, Division of Biosciences, University College London, London, WC1E 6BT, United Kingdom
| | - Thomas Fouqueau
- Institute of Structural and Molecular Biology, Division of Biosciences, University College London, London, WC1E 6BT, United Kingdom
| | - Gwenny Cackett
- Institute of Structural and Molecular Biology, Division of Biosciences, University College London, London, WC1E 6BT, United Kingdom
| | - Finn Werner
- Institute of Structural and Molecular Biology, Division of Biosciences, University College London, London, WC1E 6BT, United Kingdom.
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29
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Brenner P, Längin M, Mayr T, Güthoff S, Buchholz S, Michel S, Dashkevich A, Lutzmann I, Werner F, Klymiuk N, Wolf E, Reimann K, Hermanns W, Ayares D, Hagl C, Steen S, Abicht JM, Reichart B. Breakthrough in Orthotopic Cardiac Xenotransplantation: In a Preclinical Life-Supporting Pig-To-Baboon Model Worldwide First Continuous Successful Long-Term Survival (Up To 172/187 Days, Both Ongoing). Thorac Cardiovasc Surg 2019. [DOI: 10.1055/s-0039-1678915] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Affiliation(s)
- P. Brenner
- LMU München, Klinikum Grosshadern, Herzchirurgische Klinik, München, Germany
| | - M. Längin
- LMU Munich, Anaesthesiology, München, Germany
| | - T. Mayr
- LMU Munich, Walter-Brendel-Centre, München, Germany
| | - S. Güthoff
- LMU Munich, Walter-Brendel-Centre, München, Germany
| | - S. Buchholz
- LMU München, Klinikum Grosshadern, Herzchirurgische Klinik, München, Germany
| | - S. Michel
- LMU München, Klinikum Grosshadern, Herzchirurgische Klinik, München, Germany
| | - A. Dashkevich
- LMU München, Klinikum Grosshadern, Herzchirurgische Klinik, München, Germany
| | - I. Lutzmann
- LMU München, Walter-Brendel-Centre, München, Germany
| | - F. Werner
- LMU München, Walter-Brendel-Centre, München, Germany
| | - N. Klymiuk
- LMU München, Molecular Animal Breeding and Biotechnology, München, Germany
| | - E. Wolf
- LMU München, Molecular Animal Breeding and Biotechnology, München, Germany
| | - K. Reimann
- University of Massachusetts, Mass Biologics, Boston, United States
| | - W. Hermanns
- LMU München, Veterinary Pathology, München, Germany
| | - D. Ayares
- Revivicor Inc., Blackburn, United States
| | - C. Hagl
- LMU München, Klinikum Grosshadern, Herzchirurgische Klinik, München, Germany
| | - S. Steen
- University of Lund, Cardiothoracic Surgery, Lund, Sweden
| | | | - B. Reichart
- LMU Munich, Walter-Brendel-Centre, München, Germany
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30
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Fouqueau T, Blombach F, Cackett G, Carty AE, Matelska DM, Ofer S, Pilotto S, Phung DK, Werner F. The cutting edge of archaeal transcription. Emerg Top Life Sci 2018; 2:517-533. [PMID: 33525828 PMCID: PMC7289017 DOI: 10.1042/etls20180014] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2018] [Revised: 10/01/2018] [Accepted: 10/04/2018] [Indexed: 12/26/2022]
Abstract
The archaeal RNA polymerase (RNAP) is a double-psi β-barrel enzyme closely related to eukaryotic RNAPII in terms of subunit composition and architecture, promoter elements and basal transcription factors required for the initiation and elongation phase of transcription. Understanding archaeal transcription is, therefore, key to delineate the universally conserved fundamental mechanisms of transcription as well as the evolution of the archaeo-eukaryotic transcription machineries. The dynamic interplay between RNAP subunits, transcription factors and nucleic acids dictates the activity of RNAP and ultimately gene expression. This review focusses on recent progress in our understanding of (i) the structure, function and molecular mechanisms of known and less characterized factors including Elf1 (Elongation factor 1), NusA (N-utilization substance A), TFS4, RIP and Eta, and (ii) their evolution and phylogenetic distribution across the expanding tree of Archaea.
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Affiliation(s)
- Thomas Fouqueau
- RNAP laboratory, Institute of Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London WC1E 6BT, U.K
| | - Fabian Blombach
- RNAP laboratory, Institute of Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London WC1E 6BT, U.K
| | - Gwenny Cackett
- RNAP laboratory, Institute of Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London WC1E 6BT, U.K
| | - Alice E Carty
- RNAP laboratory, Institute of Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London WC1E 6BT, U.K
| | - Dorota M Matelska
- RNAP laboratory, Institute of Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London WC1E 6BT, U.K
| | - Sapir Ofer
- RNAP laboratory, Institute of Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London WC1E 6BT, U.K
| | - Simona Pilotto
- RNAP laboratory, Institute of Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London WC1E 6BT, U.K
| | - Duy Khanh Phung
- RNAP laboratory, Institute of Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London WC1E 6BT, U.K
| | - Finn Werner
- RNAP laboratory, Institute of Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London WC1E 6BT, U.K
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31
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Abeysekara AU, Albert A, Alfaro R, Alvarez C, Álvarez JD, Arceo R, Arteaga-Velázquez JC, Avila Rojas D, Ayala Solares HA, Belmont-Moreno E, BenZvi SY, Brisbois C, Caballero-Mora KS, Capistrán T, Carramiñana A, Casanova S, Castillo M, Cotti U, Cotzomi J, Coutiño de León S, De León C, De la Fuente E, Díaz-Vélez JC, Dichiara S, Dingus BL, DuVernois MA, Ellsworth RW, Engel K, Espinoza C, Fang K, Fleischhack H, Fraija N, Galván-Gámez A, García-González JA, Garfias F, González-Muñoz A, González MM, Goodman JA, Hampel-Arias Z, Harding JP, Hernandez S, Hinton J, Hona B, Hueyotl-Zahuantitla F, Hui CM, Hüntemeyer P, Iriarte A, Jardin-Blicq A, Joshi V, Kaufmann S, Kar P, Kunde GJ, Lauer RJ, Lee WH, León Vargas H, Li H, Linnemann JT, Longinotti AL, Luis-Raya G, López-Coto R, Malone K, Marinelli SS, Martinez O, Martinez-Castellanos I, Martínez-Castro J, Matthews JA, Miranda-Romagnoli P, Moreno E, Mostafá M, Nayerhoda A, Nellen L, Newbold M, Nisa MU, Noriega-Papaqui R, Pretz J, Pérez-Pérez EG, Ren Z, Rho CD, Rivière C, Rosa-González D, Rosenberg M, Ruiz-Velasco E, Salesa Greus F, Sandoval A, Schneider M, Schoorlemmer H, Seglar Arroyo M, Sinnis G, Smith AJ, Springer RW, Surajbali P, Taboada I, Tibolla O, Tollefson K, Torres I, Vianello G, Villaseñor L, Weisgarber T, Werner F, Westerhoff S, Wood J, Yapici T, Yodh G, Zepeda A, Zhang H, Zhou H. Publisher Correction: Very-high-energy particle acceleration powered by the jets of the microquasar SS 433. Nature 2018; 564:E38. [PMID: 30482938 DOI: 10.1038/s41586-018-0688-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
In this Letter, owing to a production error, the penultimate version of the PDF was published. The HTML version was always correct. The PDF has been corrected online.
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Affiliation(s)
- A U Abeysekara
- Department of Physics and Astronomy, University of Utah, Salt Lake City, UT, USA
| | - A Albert
- Physics and Theoretical Divisions, Los Alamos National Laboratory, Los Alamos, NM, USA
| | - R Alfaro
- Instituto de Física, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - C Alvarez
- Universidad Autónoma de Chiapas, Tuxtla Gutiérrez, Mexico
| | - J D Álvarez
- Universidad Michoacana de San Nicolás de Hidalgo, Morelia, Mexico
| | - R Arceo
- Universidad Autónoma de Chiapas, Tuxtla Gutiérrez, Mexico
| | | | - D Avila Rojas
- Instituto de Física, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - H A Ayala Solares
- Department of Physics, Pennsylvania State University, University Park, PA, USA
| | - E Belmont-Moreno
- Instituto de Física, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - S Y BenZvi
- Department of Physics and Astronomy, University of Rochester, Rochester, NY, USA
| | - C Brisbois
- Department of Physics, Michigan Technological University, Houghton, MI, USA
| | | | - T Capistrán
- Instituto Nacional de Astrofísica, Óptica y Electrónica, Puebla, Mexico
| | - A Carramiñana
- Instituto Nacional de Astrofísica, Óptica y Electrónica, Puebla, Mexico
| | - S Casanova
- Institute of Nuclear Physics Polish Academy of Sciences, IFJ-PAN, Krakow, Poland.,Max-Planck Institute for Nuclear Physics, Heidelberg, Germany
| | - M Castillo
- Universidad Michoacana de San Nicolás de Hidalgo, Morelia, Mexico
| | - U Cotti
- Universidad Michoacana de San Nicolás de Hidalgo, Morelia, Mexico
| | - J Cotzomi
- Facultad de Ciencias Físico Matemáticas, Benemérita Universidad Autónoma de Puebla, Puebla, Mexico
| | - S Coutiño de León
- Instituto Nacional de Astrofísica, Óptica y Electrónica, Puebla, Mexico
| | - C De León
- Facultad de Ciencias Físico Matemáticas, Benemérita Universidad Autónoma de Puebla, Puebla, Mexico
| | - E De la Fuente
- Departamento de Física, Centro Universitario de Ciencias Exactas e Ingenierías, Universidad de Guadalajara, Guadalajara, Mexico
| | - J C Díaz-Vélez
- Departamento de Física, Centro Universitario de Ciencias Exactas e Ingenierías, Universidad de Guadalajara, Guadalajara, Mexico.,Department of Physics and Wisconsin IceCube Particle Astrophysics Center, University of Wisconsin-Madison, Madison, WI, USA
| | - S Dichiara
- Instituto de Astronomía, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - B L Dingus
- Physics and Theoretical Divisions, Los Alamos National Laboratory, Los Alamos, NM, USA
| | - M A DuVernois
- Department of Physics and Wisconsin IceCube Particle Astrophysics Center, University of Wisconsin-Madison, Madison, WI, USA
| | - R W Ellsworth
- School of Physics, Astronomy, and Computational Sciences, George Mason University, Fairfax, VA, USA
| | - K Engel
- Department of Physics, University of Maryland, College Park, MD, USA
| | - C Espinoza
- Instituto de Física, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - K Fang
- Department of Astronomy, University of Maryland, College Park, MD, USA.,Joint Space-Science Institute, University of Maryland, College Park, MD, USA
| | - H Fleischhack
- Department of Physics, Michigan Technological University, Houghton, MI, USA
| | - N Fraija
- Instituto de Astronomía, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - A Galván-Gámez
- Instituto de Astronomía, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - J A García-González
- Instituto de Física, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - F Garfias
- Instituto de Astronomía, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - A González-Muñoz
- Departamento de Física, Centro Universitario de Ciencias Exactas e Ingenierías, Universidad de Guadalajara, Guadalajara, Mexico
| | - M M González
- Instituto de Astronomía, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - J A Goodman
- Department of Physics, University of Maryland, College Park, MD, USA
| | - Z Hampel-Arias
- Department of Physics and Wisconsin IceCube Particle Astrophysics Center, University of Wisconsin-Madison, Madison, WI, USA.,Inter-university Institute for High Energies, Université Libre de Bruxelles, Brussels, Belgium
| | - J P Harding
- Physics and Theoretical Divisions, Los Alamos National Laboratory, Los Alamos, NM, USA
| | - S Hernandez
- Instituto de Física, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - J Hinton
- Max-Planck Institute for Nuclear Physics, Heidelberg, Germany
| | - B Hona
- Department of Physics, Michigan Technological University, Houghton, MI, USA
| | | | - C M Hui
- NASA Marshall Space Flight Center, Astrophysics Office, Huntsville, AL, USA
| | - P Hüntemeyer
- Department of Physics, Michigan Technological University, Houghton, MI, USA
| | - A Iriarte
- Instituto de Astronomía, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - A Jardin-Blicq
- Max-Planck Institute for Nuclear Physics, Heidelberg, Germany
| | - V Joshi
- Max-Planck Institute for Nuclear Physics, Heidelberg, Germany
| | - S Kaufmann
- Universidad Autónoma de Chiapas, Tuxtla Gutiérrez, Mexico
| | - P Kar
- Department of Physics and Astronomy, University of Utah, Salt Lake City, UT, USA
| | - G J Kunde
- Physics and Theoretical Divisions, Los Alamos National Laboratory, Los Alamos, NM, USA
| | - R J Lauer
- Department of Physics and Astronomy, University of New Mexico, Albuquerque, NM, USA
| | - W H Lee
- Instituto de Astronomía, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - H León Vargas
- Instituto de Física, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - H Li
- Physics and Theoretical Divisions, Los Alamos National Laboratory, Los Alamos, NM, USA
| | - J T Linnemann
- Department of Physics and Astronomy, Michigan State University, East Lansing, MI, USA
| | - A L Longinotti
- Instituto Nacional de Astrofísica, Óptica y Electrónica, Puebla, Mexico
| | - G Luis-Raya
- Universidad Politecnica de Pachuca, Pachuca, Mexico
| | | | - K Malone
- Department of Physics, Pennsylvania State University, University Park, PA, USA
| | - S S Marinelli
- Department of Physics and Astronomy, Michigan State University, East Lansing, MI, USA
| | - O Martinez
- Facultad de Ciencias Físico Matemáticas, Benemérita Universidad Autónoma de Puebla, Puebla, Mexico
| | | | - J Martínez-Castro
- Centro de Investigación en Computación, Instituto Politécnico Nacional, Mexico City, Mexico
| | - J A Matthews
- Department of Physics and Astronomy, University of New Mexico, Albuquerque, NM, USA
| | | | - E Moreno
- Facultad de Ciencias Físico Matemáticas, Benemérita Universidad Autónoma de Puebla, Puebla, Mexico
| | - M Mostafá
- Department of Physics, Pennsylvania State University, University Park, PA, USA
| | - A Nayerhoda
- Institute of Nuclear Physics Polish Academy of Sciences, IFJ-PAN, Krakow, Poland
| | - L Nellen
- Instituto de Ciencias Nucleares, Universidad Nacional Autónoma de Mexico, Mexico City, Mexico
| | - M Newbold
- Department of Physics and Astronomy, University of Utah, Salt Lake City, UT, USA
| | - M U Nisa
- Department of Physics and Astronomy, University of Rochester, Rochester, NY, USA
| | | | - J Pretz
- Department of Physics, Pennsylvania State University, University Park, PA, USA
| | | | - Z Ren
- Department of Physics and Astronomy, University of New Mexico, Albuquerque, NM, USA
| | - C D Rho
- Department of Physics and Astronomy, University of Rochester, Rochester, NY, USA.
| | - C Rivière
- Department of Physics, University of Maryland, College Park, MD, USA
| | - D Rosa-González
- Instituto Nacional de Astrofísica, Óptica y Electrónica, Puebla, Mexico
| | - M Rosenberg
- Department of Physics, Pennsylvania State University, University Park, PA, USA
| | - E Ruiz-Velasco
- Max-Planck Institute for Nuclear Physics, Heidelberg, Germany
| | - F Salesa Greus
- Institute of Nuclear Physics Polish Academy of Sciences, IFJ-PAN, Krakow, Poland
| | - A Sandoval
- Instituto de Física, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - M Schneider
- Santa Cruz Institute for Particle Physics, University of California, Santa Cruz, Santa Cruz, CA, USA
| | - H Schoorlemmer
- Max-Planck Institute for Nuclear Physics, Heidelberg, Germany
| | - M Seglar Arroyo
- Department of Physics, Pennsylvania State University, University Park, PA, USA
| | - G Sinnis
- Physics and Theoretical Divisions, Los Alamos National Laboratory, Los Alamos, NM, USA
| | - A J Smith
- Department of Physics, University of Maryland, College Park, MD, USA
| | - R W Springer
- Department of Physics and Astronomy, University of Utah, Salt Lake City, UT, USA
| | - P Surajbali
- Max-Planck Institute for Nuclear Physics, Heidelberg, Germany
| | - I Taboada
- School of Physics and Center for Relativistic Astrophysics, Georgia Institute of Technology, Atlanta, GA, USA
| | - O Tibolla
- Universidad Autónoma de Chiapas, Tuxtla Gutiérrez, Mexico
| | - K Tollefson
- Department of Physics and Astronomy, Michigan State University, East Lansing, MI, USA
| | - I Torres
- Instituto Nacional de Astrofísica, Óptica y Electrónica, Puebla, Mexico
| | - G Vianello
- Department of Physics, Stanford University, Stanford, CA, USA
| | - L Villaseñor
- Facultad de Ciencias Físico Matemáticas, Benemérita Universidad Autónoma de Puebla, Puebla, Mexico
| | - T Weisgarber
- Department of Physics and Wisconsin IceCube Particle Astrophysics Center, University of Wisconsin-Madison, Madison, WI, USA
| | - F Werner
- Max-Planck Institute for Nuclear Physics, Heidelberg, Germany
| | - S Westerhoff
- Department of Physics and Wisconsin IceCube Particle Astrophysics Center, University of Wisconsin-Madison, Madison, WI, USA
| | - J Wood
- Department of Physics and Wisconsin IceCube Particle Astrophysics Center, University of Wisconsin-Madison, Madison, WI, USA
| | - T Yapici
- Department of Physics and Astronomy, University of Rochester, Rochester, NY, USA
| | - G Yodh
- Department of Physics and Astronomy, University of California, Irvine, Irvine, CA, USA
| | - A Zepeda
- Universidad Autónoma de Chiapas, Tuxtla Gutiérrez, Mexico.,Physics Department, Centro de Investigación y de Estudios Avanzados del IPN, Mexico City, Mexico
| | - H Zhang
- Department of Physics and Astronomy, Purdue University, West Lafayette, IN, USA
| | - H Zhou
- Physics and Theoretical Divisions, Los Alamos National Laboratory, Los Alamos, NM, USA.
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32
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Rossi R, Ohgoe T, Van Houcke K, Werner F. Resummation of Diagrammatic Series with Zero Convergence Radius for Strongly Correlated Fermions. Phys Rev Lett 2018; 121:130405. [PMID: 30312043 DOI: 10.1103/physrevlett.121.130405] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/21/2018] [Revised: 07/26/2018] [Indexed: 06/08/2023]
Abstract
We demonstrate that a summing up series of Feynman diagrams can yield unbiased accurate results for strongly correlated fermions even when the convergence radius vanishes. We consider the unitary Fermi gas, a model of nonrelativistic fermions in three-dimensional continuous space. Diagrams are built from partially dressed or fully dressed propagators of single particles and pairs. The series is resummed by a conformal-Borel transformation that incorporates the large-order behavior and the analytic structure in the Borel plane, which are found by the instanton approach. We report highly accurate numerical results for the equation of state in the normal unpolarized regime, and reconcile experimental data with the theoretically conjectured fourth virial coefficient.
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Affiliation(s)
- R Rossi
- Laboratoire de Physique Statistique, Ecole Normale Supérieure-Université PSL, CNRS, Sorbonne Université, Université Paris Diderot, 75005 Paris, France
| | - T Ohgoe
- Department of Applied Physics, University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan
| | - K Van Houcke
- Laboratoire de Physique Statistique, Ecole Normale Supérieure-Université PSL, CNRS, Sorbonne Université, Université Paris Diderot, 75005 Paris, France
| | - F Werner
- Laboratoire Kastler Brossel, Ecole Normale Supérieure-Université PSL, CNRS, Sorbonne Université, Collège de France, 75005 Paris, France
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33
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Rossi R, Ohgoe T, Kozik E, Prokof'ev N, Svistunov B, Van Houcke K, Werner F. Contact and Momentum Distribution of the Unitary Fermi Gas. Phys Rev Lett 2018; 121:130406. [PMID: 30312096 DOI: 10.1103/physrevlett.121.130406] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/08/2018] [Indexed: 06/08/2023]
Abstract
A key quantity in strongly interacting resonant Fermi gases is the contact C, which characterizes numerous properties such as the momentum distribution at large momenta or the pair correlation function at short distances. The temperature dependence of C was measured at unitarity, where existing theoretical predictions differ substantially even at the qualitative level. We report accurate data for the contact and the momentum distribution of the unitary gas in the normal phase, obtained by bold diagrammatic Monte Carlo and Borel resummation. Our results agree with experimental data within error bars and provide crucial benchmarks for the development of advanced theoretical treatments and precision measurements.
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Affiliation(s)
- R Rossi
- Laboratoire de Physique Statistique, Ecole Normale Supérieure, Université PSL, Sorbonne Université, Université Paris Diderot, CNRS, 75005 Paris, France
| | - T Ohgoe
- Department of Applied Physics, University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan
| | - E Kozik
- Physics Department, King's College, London WC2R 2LS, United Kingdom
| | - N Prokof'ev
- Department of Physics, University of Massachusetts, Amherst, Massachusetts 01003, USA
- National Research Center "Kurchatov Institute", 123182 Moscow, Russia
| | - B Svistunov
- Department of Physics, University of Massachusetts, Amherst, Massachusetts 01003, USA
- National Research Center "Kurchatov Institute", 123182 Moscow, Russia
- Wilczek Quantum Center, School of Physics and Astronomy and T. D. Lee Institute, Shanghai Jiao Tong University, Shanghai 200240, China
| | - K Van Houcke
- Laboratoire de Physique Statistique, Ecole Normale Supérieure, Université PSL, Sorbonne Université, Université Paris Diderot, CNRS, 75005 Paris, France
| | - F Werner
- Laboratoire Kastler Brossel, Ecole Normale Supérieure, Université PSL, CNRS, Sorbonne Université, Collège de France, 75005 Paris, France
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34
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Blombach F, Ausiannikava D, Figueiredo A, Soloviev Z, Prentice T, Zhang M, Zhou N, Thalassinos K, Allers T, Werner F. Structural and functional adaptation of Haloferax volcanii TFEα/β. Nucleic Acids Res 2018; 46:2308-2320. [PMID: 29309690 PMCID: PMC5861453 DOI: 10.1093/nar/gkx1302] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2017] [Revised: 12/08/2017] [Accepted: 12/19/2017] [Indexed: 12/14/2022] Open
Abstract
The basal transcription factor TFE enhances transcription initiation by catalysing DNA strand-separation, a process that varies with temperature and ionic strength. Canonical TFE forms a heterodimeric complex whose integrity and function critically relies on a cubane iron-sulphur cluster residing in the TFEβ subunit. Halophilic archaea such as Haloferax volcanii have highly divergent putative TFEβ homologues with unknown properties. Here, we demonstrate that Haloferax TFEβ lacks the prototypical iron-sulphur cluster yet still forms a stable complex with TFEα. A second metal cluster contained in the zinc ribbon domain in TFEα is highly degenerate but retains low binding affinity for zinc, which contributes to protein folding and stability. The deletion of the tfeB gene in H. volcanii results in the aberrant expression of approximately one third of all genes, consistent with its function as a basal transcription initiation factor. Interestingly, tfeB deletion particularly affects foreign genes including a prophage region. Our results reveal the loss of metal centres in Hvo transcription factors, and confirm the dual function of TFE as basal factor and regulator of transcription.
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Affiliation(s)
- Fabian Blombach
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, London, UK
| | - Darya Ausiannikava
- School of Life Sciences, University of Nottingham, Queen's Medical Centre, Nottingham NG7 2UH, UK
| | - Angelo Miguel Figueiredo
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, London, UK
| | - Zoja Soloviev
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, London, UK
| | - Tanya Prentice
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, London, UK
| | - Mark Zhang
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, London, UK
| | - Nanruoyi Zhou
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, London, UK
| | - Konstantinos Thalassinos
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, London, UK
| | - Thorsten Allers
- School of Life Sciences, University of Nottingham, Queen's Medical Centre, Nottingham NG7 2UH, UK
| | - Finn Werner
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, London, UK
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35
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Brenner P, Reichart B, Mayr T, Längin M, Guethoff S, Buchholz S, Dashkevich A, Michel S, Lutzmann I, Werner F, Bauer A, Klymiuk N, Wolf E, Reimann K, Hermanns W, Ayares D, Hagl C, Steen S, Abicht JM. Worldwide First Successful Long-term Survival after Orthotopic Cardiac Xenotransplantation of Multitransgenic Pig Hearts into Baboons Using a CD40mAb or CD40L Costimulation Blockade. Thorac Cardiovasc Surg 2018. [DOI: 10.1055/s-0038-1628008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
Affiliation(s)
- P. Brenner
- Department of Cardiac Surgery, LMU München, Munich, Germany
| | - B. Reichart
- Walter-Brendel-Centre, LMU Munich, Munich, Germany
| | - T. Mayr
- Walter-Brendel-Centre, LMU Munich, Munich, Germany
| | - M. Längin
- Department of Anesthesiology, LMU München, Munich, Germany
| | - S. Guethoff
- Walter-Brendel-Centre, LMU Munich, Munich, Germany
| | - S. Buchholz
- Department of Cardiac Surgery, LMU München, Munich, Germany
| | - A. Dashkevich
- Department of Cardiac Surgery, LMU München, Munich, Germany
| | - S. Michel
- Department of Cardiac Surgery, LMU München, Munich, Germany
| | - I. Lutzmann
- Walter-Brendel-Centre, LMU Munich, Munich, Germany
| | - F. Werner
- Walter-Brendel-Centre, LMU Munich, Munich, Germany
| | - A. Bauer
- Department of Anesthesiology, LMU München, Munich, Germany
| | - N. Klymiuk
- Department of Molecular Animal Breeding and Biotechnology, LMU Munich, Munich, Germany
| | - E. Wolf
- Department of Molecular Animal Breeding and Biotechnology, LMU Munich, Munich, Germany
| | | | - W. Hermanns
- Department of Veterinary Pathology, LMU, Munich, Germany
| | | | - C. Hagl
- Department of Cardiac Surgery, LMU München, Munich, Germany
| | - S. Steen
- Department of Cardiothoracic Surgery, University of Lund, Lund, Sweden
| | - J.-M. Abicht
- Department of Anesthesiology, LMU München, Munich, Germany
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36
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Fouqueau T, Blombach F, Hartman R, Cheung ACM, Young MJ, Werner F. The transcript cleavage factor paralogue TFS4 is a potent RNA polymerase inhibitor. Nat Commun 2017; 8:1914. [PMID: 29203770 PMCID: PMC5715097 DOI: 10.1038/s41467-017-02081-3] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2017] [Accepted: 11/05/2017] [Indexed: 12/03/2022] Open
Abstract
TFIIS-like transcript cleavage factors enhance the processivity and fidelity of archaeal and eukaryotic RNA polymerases. Sulfolobus solfataricus TFS1 functions as a bona fide cleavage factor, while the paralogous TFS4 evolved into a potent RNA polymerase inhibitor. TFS4 destabilises the TBP–TFB–RNAP pre-initiation complex and inhibits transcription initiation and elongation. All inhibitory activities are dependent on three lysine residues at the tip of the C-terminal zinc ribbon of TFS4; the inhibition likely involves an allosteric component and is mitigated by the basal transcription factor TFEα/β. A chimeric variant of yeast TFIIS and TFS4 inhibits RNAPII transcription, suggesting that the molecular basis of inhibition is conserved between archaea and eukaryotes. TFS4 expression in S. solfataricus is induced in response to infection with the Sulfolobus turreted icosahedral virus. Our results reveal a compelling functional diversification of cleavage factors in archaea, and provide novel insights into transcription inhibition in the context of the host–virus relationship. Transcript cleavage factors such as eukaryotic TFIIS assist the resumption of transcription following RNA pol II backtracking. Here the authors find that one of the Sulfolobus solfataricus TFIIS homolog—TFS4—has evolved into a potent RNA polymerase inhibitor potentially involved in antiviral defense.
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Affiliation(s)
- Thomas Fouqueau
- Institute of Structural & Molecular Biology, Division of Biosciences, University College London, London, WC1E 6BT, UK
| | - Fabian Blombach
- Institute of Structural & Molecular Biology, Division of Biosciences, University College London, London, WC1E 6BT, UK
| | - Ross Hartman
- Department of Microbiology, Montana State University, 173520, Bozeman, MT, MT 59717, USA
| | - Alan C M Cheung
- Institute of Structural & Molecular Biology, Division of Biosciences, University College London, London, WC1E 6BT, UK
| | - Mark J Young
- Department of Microbiology, Montana State University, 173520, Bozeman, MT, MT 59717, USA.,Department of Plant Sciences, Montana State University, 173150, Bozeman, MT, MT 59717, USA
| | - Finn Werner
- Institute of Structural & Molecular Biology, Division of Biosciences, University College London, London, WC1E 6BT, UK.
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37
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Affiliation(s)
- Thomas Fouqueau
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London WC1E 6BT, UK
| | - Finn Werner
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, Gower Street, London WC1E 6BT, UK.
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38
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Abstract
Virus-encoded transcription factors have been pivotal in exploring the molecular mechanisms and regulation of gene expression in bacteria and eukaryotes since the birth of molecular biology, while our understanding of viral transcription in archaea is still in its infancy. Archaeal viruses do not encode their own RNA polymerases (RNAPs) and are consequently entirely dependent on their hosts for gene expression; this is fundamentally different from many bacteriophages and requires alternative regulatory strategies. Archaeal viruses wield a repertoire of proteins to expropriate the host transcription machinery to their own benefit. In this short review we summarise our current understanding of gene-specific and global mechanisms that viruses employ to chiefly downregulate host transcription and enable the efficient and temporal expression of the viral transcriptome. Most of the experimentally characterised archaeo-viral transcription regulators possess either ribbon-helix-helix or Zn-finger motifs that allow them to engage with the DNA in a sequence-specific manner, altering the expression of a specific subset of genes. Recently a novel type of regulator was reported that directly binds to the RNAP and shuts down transcription of both host and viral genes in a global fashion.
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Affiliation(s)
- Carol Sheppard
- Division of Biosciences, Institute of Structural and Molecular Biology, University College London, London, WC1E 6BT, UK
| | - Finn Werner
- Division of Biosciences, Institute of Structural and Molecular Biology, University College London, London, WC1E 6BT, UK.
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39
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Abstract
Evolution-related multisubunit RNA polymerases (RNAPs) carry out RNA synthesis in all domains life. Although their catalytic cores and fundamental mechanisms of transcription elongation are conserved, the initiation stage of the transcription cycle differs substantially in bacteria, archaea, and eukaryotes in terms of the requirements for accessory factors and details of the molecular mechanisms. This review focuses on recent insights into the evolution of the transcription apparatus with regard to (a) the surprisingly pervasive double-Ψ β-barrel active-site configuration among different nucleic acid polymerase families, (b) the origin and phylogenetic distribution of TBP, TFB, and TFE transcription factors, and
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Affiliation(s)
- Thomas Fouqueau
- Institute of Structural and Molecular Biology, Division of Biosciences, University College London, London WC1E 6BT, United Kingdom; ,
| | - Fabian Blombach
- Institute of Structural and Molecular Biology, Division of Biosciences, University College London, London WC1E 6BT, United Kingdom; ,
| | - Finn Werner
- Institute of Structural and Molecular Biology, Division of Biosciences, University College London, London WC1E 6BT, United Kingdom; ,
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40
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Werner F, Gdaniec N, Knopp T. First experimental comparison between the Cartesian and the Lissajous trajectory for magnetic particle imaging. Phys Med Biol 2017; 62:3407-3421. [DOI: 10.1088/1361-6560/aa6177] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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41
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Zander A, Willkomm S, Ofer S, van Wolferen M, Egert L, Buchmeier S, Stöckl S, Tinnefeld P, Schneider S, Klingl A, Albers SV, Werner F, Grohmann D. Guide-independent DNA cleavage by archaeal Argonaute from Methanocaldococcus jannaschii. Nat Microbiol 2017; 2:17034. [PMID: 28319081 DOI: 10.1038/nmicrobiol.2017.34] [Citation(s) in RCA: 69] [Impact Index Per Article: 9.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2016] [Accepted: 02/10/2017] [Indexed: 12/17/2022]
Abstract
Prokaryotic Argonaute proteins acquire guide strands derived from invading or mobile genetic elements, via an unknown pathway, to direct guide-dependent cleavage of foreign DNA. Here, we report that Argonaute from the archaeal organism Methanocaldococcus jannaschii (MjAgo) possesses two modes of action: the canonical guide-dependent endonuclease activity and a non-guided DNA endonuclease activity. The latter allows MjAgo to process long double-stranded DNAs, including circular plasmid DNAs and genomic DNAs. Degradation of substrates in a guide-independent fashion primes MjAgo for subsequent rounds of DNA cleavage. Chromatinized genomic DNA is resistant to MjAgo degradation, and recombinant histones protect DNA from cleavage in vitro. Mutational analysis shows that key residues important for guide-dependent target processing are also involved in guide-independent MjAgo function. This is the first characterization of guide-independent cleavage activity for an Argonaute protein potentially serving as a guide biogenesis pathway in a prokaryotic system.
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Affiliation(s)
- Adrian Zander
- Department of Microbiology &Archaea Centre, University of Regensburg, Regensburg 93053, Germany
| | - Sarah Willkomm
- Department of Microbiology &Archaea Centre, University of Regensburg, Regensburg 93053, Germany
| | - Sapir Ofer
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, London WC1E 6BT, UK
| | - Marleen van Wolferen
- Molecular Biology of Archaea, Institute of Biology II, University of Freiburg, Microbiology, Schaenzlestraße 1, 79104 Freiburg, Germany
| | - Luisa Egert
- Department of Microbiology &Archaea Centre, University of Regensburg, Regensburg 93053, Germany
| | - Sabine Buchmeier
- Institute of Physical and Theoretical Chemistry - NanoBioSciences, Technische Universität Braunschweig-BRICS, Rebenring 56, 38106 Braunschweig, Germany
| | - Sarah Stöckl
- Department of Microbiology &Archaea Centre, University of Regensburg, Regensburg 93053, Germany
| | - Philip Tinnefeld
- Institute of Physical and Theoretical Chemistry - NanoBioSciences, Technische Universität Braunschweig-BRICS, Rebenring 56, 38106 Braunschweig, Germany
| | - Sabine Schneider
- Center for Integrated Protein Science Munich CIPSM, Department of Chemistry, Technische Universität München, Lichtenbergstraße 4, 85748 Garching, Germany
| | - Andreas Klingl
- Biocentre of the LMU Munich, Department Biology I - Plant Development, Großhadernerstraße 2-4, 82152 Planegg-Martinstried, Germany
| | - Sonja-Verena Albers
- Molecular Biology of Archaea, Institute of Biology II, University of Freiburg, Microbiology, Schaenzlestraße 1, 79104 Freiburg, Germany
| | - Finn Werner
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, London WC1E 6BT, UK
| | - Dina Grohmann
- Department of Microbiology &Archaea Centre, University of Regensburg, Regensburg 93053, Germany
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Smollett K, Blombach F, Reichelt R, Thomm M, Werner F. A global analysis of transcription reveals two modes of Spt4/5 recruitment to archaeal RNA polymerase. Nat Microbiol 2017; 2:17021. [PMID: 28248297 DOI: 10.1038/nmicrobiol.2017.21] [Citation(s) in RCA: 31] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2016] [Accepted: 01/24/2017] [Indexed: 01/21/2023]
Abstract
The archaeal transcription apparatus is closely related to the eukaryotic RNA polymerase (RNAP) II system, while archaeal genomes are more similar to bacteria with densely packed genes organized in operons. This makes understanding transcription in archaea vital, both in terms of molecular mechanisms and evolution. Very little is known about how archaeal cells orchestrate transcription on a systems level. We have characterized the genome-wide occupancy of the Methanocaldococcus jannaschii transcription machinery and its transcriptome. Our data reveal how the TATA and BRE promoter elements facilitate recruitment of the essential initiation factors TATA-binding protein and transcription factor B, respectively, which in turn are responsible for the loading of RNAP into the transcription units. The occupancies of RNAP and Spt4/5 strongly correlate with each other and with RNA levels. Our results show that Spt4/5 is a general elongation factor in archaea as its presence on all genes matches RNAP. Spt4/5 is recruited proximal to the transcription start site on the majority of transcription units, while on a subset of genes, including rRNA and CRISPR loci, Spt4/5 is recruited to the transcription elongation complex during early elongation within 500 base pairs of the transcription start site and akin to its bacterial homologue NusG.
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Affiliation(s)
- Katherine Smollett
- University College London, Institute for Structural and Molecular Biology, Gower Street, London WC1E 6BT, UK
| | - Fabian Blombach
- University College London, Institute for Structural and Molecular Biology, Gower Street, London WC1E 6BT, UK
| | - Robert Reichelt
- Institute of Microbiology and Archaea Center, Universität Regensburg, 93053 Regensburg, Germany
| | - Michael Thomm
- Institute of Microbiology and Archaea Center, Universität Regensburg, 93053 Regensburg, Germany
| | - Finn Werner
- University College London, Institute for Structural and Molecular Biology, Gower Street, London WC1E 6BT, UK
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Brenner P, Mayr T, Reichart B, Guethoff S, Buchholz S, Dashkevich A, Michel S, Lutzmann I, Werner F, Bauer A, Klymiuk N, Wolf E, Reimann K, Mohiuddin M, Hermanns W, Ayares D, McGregor C, Steen S, Abicht J. New Standards in Orthotopic Cardiac Xenotransplantation of Multitransgenic Pig Hearts Preserved with “Steens” Cold Blood Cardioplegia Perfusion in a Pig-to-Baboon Model with CD40mAb or CD40L Costimulation Blockade. Thorac Cardiovasc Surg 2017. [DOI: 10.1055/s-0037-1598771] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Affiliation(s)
- P. Brenner
- Ludwig-Maximilians-University (LMU), Department of Cardiac Surgery, Munich, Germany
| | - T. Mayr
- Walter-Brendel-Centre, LMU, Munich, Germany
| | | | | | - S. Buchholz
- Ludwig-Maximilians-University (LMU), Department of Cardiac Surgery, Munich, Germany
| | - A. Dashkevich
- Ludwig-Maximilians-University (LMU), Department of Cardiac Surgery, Munich, Germany
| | - S. Michel
- Ludwig-Maximilians-University (LMU), Department of Cardiac Surgery, Munich, Germany
| | | | - F. Werner
- Walter-Brendel-Centre, LMU, Munich, Germany
| | - A. Bauer
- Ludwig-Maximilians-University (LMU), Department of Anaesthesiology, Munich, Germany
| | - N. Klymiuk
- Ludwig-Maximilians-University (LMU), Department of Molecular Animal Breeding and Biotechnology, Munich, Germany
| | - E. Wolf
- Ludwig-Maximilians-University (LMU), Department of Molecular Animal Breeding and Biotechnology, Munich, Germany
| | - K. Reimann
- University of Massachusetts Medical School, MassBiologics, Boston, United States
| | - M. Mohiuddin
- NHLBI, NIH, Cardiothoracic Surgery Research Laboratory, Bethesda, United States
| | - W. Hermanns
- Ludwig-Maximilians-University (LMU), Department of Veterinary Pathology, Munich, Germany
| | - D. Ayares
- Revivicor Inc, Blackburg, United States
| | - C. McGregor
- University College, Department of Cardiothoracic Surgery, London, United Kingdom
| | - S. Steen
- University of Lund, Department of Cardiothoracic Surgery, Lund, Sweden
| | - J.M. Abicht
- Ludwig-Maximilians-University (LMU), Department of Anaesthesiology, Munich, Germany
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Zhang Z, Werner F, Cho HM, Wind G, Platnick S, Ackerman AS, Di Girolamo L, Marshak A, Meyer K. A framework based on 2-D Taylor expansion for quantifying the impacts of sub-pixel reflectance variance and covariance on cloud optical thickness and effective radius retrievals based on the bi-spectral method. J Geophys Res Atmos 2016; 121:7007-7025. [PMID: 32908807 PMCID: PMC7477826 DOI: 10.1002/2016jd024837] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
The bi-spectral method retrieves cloud optical thickness (τ) and cloud droplet effective radius (r e ) simultaneously from a pair of cloud reflectance observations, one in a visible or near infrared (VIS/NIR) band and the other in a shortwave-infrared (SWIR) band. A cloudy pixel is usually assumed to be horizontally homogeneous in the retrieval. Ignoring sub-pixel variations of cloud reflectances can lead to a significant bias in the retrieved τ and r e . In the literature, the retrievals of τ and r e are often assumed to be independent and considered separately when investigating the impact of sub-pixel cloud reflectance variations on the bi-spectral method. As a result, the impact on τ is contributed only by the sub-pixel variation of VIS/NIR band reflectance and the impact on r e only by the sub-pixel variation of SWIR band reflectance. In our new framework, we use the Taylor expansion of a two-variable function to understand and quantify the impacts of sub-pixel variances of VIS/NIR and SWIR cloud reflectances and their covariance on the τ and r e retrievals. This framework takes into account the fact that the retrievals are determined by both VIS/NIR and SWIR band observations in a mutually dependent way. In comparison with previous studies, it provides a more comprehensive understanding of how sub-pixel cloud reflectance variations impact the τ and r e retrievals based on the bi-spectral method. In particular, our framework provides a mathematical explanation of how the sub-pixel variation in VIS/NIR band influences the r e retrieval and why it can sometimes outweigh the influence of variations in the SWIR band and dominate the error in r e retrievals, leading to a potential contribution of positive bias to the r e retrieval. We test our framework using synthetic cloud fields from a large-eddy simulation and real observations from MODIS. The predicted results based on our framework agree very well with the numerical simulations. Our framework can be used to estimate the retrieval uncertainty from sub-pixel reflectance variations in operational satellite cloud products and to help understand the differences in τ and r e retrievals between two instruments.
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Affiliation(s)
- Z. Zhang
- Physics Department, UMBC, Baltimore, MD, USA
- Joint Center for Earth Systems Technology, UMBC, Baltimore, MD, USA
| | - F. Werner
- Joint Center for Earth Systems Technology, UMBC, Baltimore, MD, USA
| | - H.-M. Cho
- Joint Center for Earth Systems Technology, UMBC, Baltimore, MD, USA
- Electronics and Telecommunications Research Institute, Korea
| | - G. Wind
- NASA Goddard Space Flight Center, Greenbelt, MD, USA
- Science Systems and Applications, Inc., Maryland 20706, USA
| | - S. Platnick
- NASA Goddard Space Flight Center, Greenbelt, MD, USA
| | - A. S. Ackerman
- NASA Goddard Institute for Space Studies, New York City, NY, USA
| | - L. Di Girolamo
- Department of Atmospheric Sciences, University of Illinois, Urbana-Champaign, IL, USA
| | - A. Marshak
- NASA Goddard Space Flight Center, Greenbelt, MD, USA
| | - Kerry Meyer
- NASA Goddard Space Flight Center, Greenbelt, MD, USA
- Universities Space Research Association (USRA), Columbia, MD, USA
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Aab A, Abreu P, Aglietta M, Ahn EJ, Al Samarai I, Albuquerque IFM, Allekotte I, Allison P, Almela A, Alvarez Castillo J, Alvarez-Muñiz J, Alves Batista R, Ambrosio M, Aminaei A, Anastasi GA, Anchordoqui L, Andringa S, Aramo C, Arqueros F, Arsene N, Asorey H, Assis P, Aublin J, Avila G, Awal N, Badescu AM, Baus C, Beatty JJ, Becker KH, Bellido JA, Berat C, Bertaina ME, Bertou X, Biermann PL, Billoir P, Blaess SG, Blanco A, Blanco M, Blazek J, Bleve C, Blümer H, Boháčová M, Boncioli D, Bonifazi C, Borodai N, Brack J, Brancus I, Bretz T, Bridgeman A, Brogueira P, Buchholz P, Bueno A, Buitink S, Buscemi M, Caballero-Mora KS, Caccianiga B, Caccianiga L, Candusso M, Caramete L, Caruso R, Castellina A, Cataldi G, Cazon L, Cester R, Chavez AG, Chiavassa A, Chinellato JA, Chudoba J, Cilmo M, Clay RW, Cocciolo G, Colalillo R, Coleman A, Collica L, Coluccia MR, Conceição R, Contreras F, Cooper MJ, Cordier A, Coutu S, Covault CE, Cronin J, Dallier R, Daniel B, Dasso S, Daumiller K, Dawson BR, de Almeida RM, de Jong SJ, De Mauro G, de Mello Neto JRT, De Mitri I, de Oliveira J, de Souza V, Del Peral L, Deligny O, Dhital N, Di Giulio C, Di Matteo A, Diaz JC, Díaz Castro ML, Diogo F, Dobrigkeit C, Docters W, D'Olivo JC, Dorofeev A, Dorosti Hasankiadeh Q, Dos Anjos RC, Dova MT, Ebr J, Engel R, Erdmann M, Erfani M, Escobar CO, Espadanal J, Etchegoyen A, Falcke H, Fang K, Farrar G, Fauth AC, Fazzini N, Ferguson AP, Fick B, Figueira JM, Filevich A, Filipčič A, Fratu O, Freire MM, Fujii T, García B, Garcia-Gamez D, Garcia-Pinto D, Gate F, Gemmeke H, Gherghel-Lascu A, Ghia PL, Giaccari U, Giammarchi M, Giller M, Głas D, Glaser C, Glass H, Golup G, Gómez Berisso M, Gómez Vitale PF, González N, Gookin B, Gordon J, Gorgi A, Gorham P, Gouffon P, Griffith N, Grillo AF, Grubb TD, Guarino F, Guedes GP, Hampel MR, Hansen P, Harari D, Harrison TA, Hartmann S, Harton JL, Haungs A, Hebbeker T, Heck D, Heimann P, Herve AE, Hill GC, Hojvat C, Hollon N, Holt E, Homola P, Hörandel JR, Horvath P, Hrabovský M, Huber D, Huege T, Insolia A, Isar PG, Jandt I, Jansen S, Jarne C, Johnsen JA, Josebachuili M, Kääpä A, Kambeitz O, Kampert KH, Kasper P, Katkov I, Keilhauer B, Kemp E, Kieckhafer RM, Klages HO, Kleifges M, Kleinfeller J, Krause R, Krohm N, Kuempel D, Kukec Mezek G, Kunka N, Kuotb Awad AW, LaHurd D, Latronico L, Lauer R, Lauscher M, Lautridou P, Le Coz S, Lebrun D, Lebrun P, Leigui de Oliveira MA, Letessier-Selvon A, Lhenry-Yvon I, Link K, Lopes L, López R, López Casado A, Louedec K, Lucero A, Malacari M, Mallamaci M, Maller J, Mandat D, Mantsch P, Mariazzi AG, Marin V, Mariş IC, Marsella G, Martello D, Martinez H, Martínez Bravo O, Martraire D, Masías Meza JJ, Mathes HJ, Mathys S, Matthews J, Matthews JAJ, Matthiae G, Maurizio D, Mayotte E, Mazur PO, Medina C, Medina-Tanco G, Meissner R, Mello VBB, Melo D, Menshikov A, Messina S, Micheletti MI, Middendorf L, Minaya IA, Miramonti L, Mitrica B, Molina-Bueno L, Mollerach S, Montanet F, Morello C, Mostafá M, Moura CA, Muller MA, Müller G, Müller S, Navas S, Necesal P, Nellen L, Nelles A, Neuser J, Nguyen PH, Niculescu-Oglinzanu M, Niechciol M, Niemietz L, Niggemann T, Nitz D, Nosek D, Novotny V, Nožka L, Núñez LA, Ochilo L, Oikonomou F, Olinto A, Pacheco N, Pakk Selmi-Dei D, Palatka M, Pallotta J, Papenbreer P, Parente G, Parra A, Paul T, Pech M, Pȩkala J, Pelayo R, Pepe IM, Perrone L, Petermann E, Peters C, Petrera S, Petrov Y, Phuntsok J, Piegaia R, Pierog T, Pieroni P, Pimenta M, Pirronello V, Platino M, Plum M, Porcelli A, Porowski C, Prado RR, Privitera P, Prouza M, Quel EJ, Querchfeld S, Quinn S, Rautenberg J, Ravel O, Ravignani D, Reinert D, Revenu B, Ridky J, Risse M, Ristori P, Rizi V, Rodrigues de Carvalho W, Rodriguez Rojo J, Rodríguez-Frías MD, Rogozin D, Rosado J, Roth M, Roulet E, Rovero AC, Saffi SJ, Saftoiu A, Salazar H, Saleh A, Salesa Greus F, Salina G, Sanabria Gomez JD, Sánchez F, Sanchez-Lucas P, Santos E, Santos EM, Sarazin F, Sarkar B, Sarmento R, Sarmiento-Cano C, Sato R, Scarso C, Schauer M, Scherini V, Schieler H, Schmidt D, Scholten O, Schoorlemmer H, Schovánek P, Schröder FG, Schulz A, Schulz J, Schumacher J, Sciutto SJ, Segreto A, Settimo M, Shadkam A, Shellard RC, Sigl G, Sima O, Śmiałkowski A, Šmída R, Snow GR, Sommers P, Sonntag S, Sorokin J, Squartini R, Srivastava YN, Stanca D, Stanič S, Stapleton J, Stasielak J, Stephan M, Stutz A, Suarez F, Suarez Durán M, Suomijärvi T, Supanitsky AD, Sutherland MS, Swain J, Szadkowski Z, Taborda OA, Tapia A, Tepe A, Theodoro VM, Timmermans C, Todero Peixoto CJ, Toma G, Tomankova L, Tomé B, Tonachini A, Torralba Elipe G, Torres Machado D, Travnicek P, Trini M, Ulrich R, Unger M, Urban M, Valdés Galicia JF, Valiño I, Valore L, van Aar G, van Bodegom P, van den Berg AM, van Velzen S, van Vliet A, Varela E, Vargas Cárdenas B, Varner G, Vasquez R, Vázquez JR, Vázquez RA, Veberič D, Verzi V, Vicha J, Videla M, Villaseñor L, Vlcek B, Vorobiov S, Wahlberg H, Wainberg O, Walz D, Watson AA, Weber M, Weidenhaupt K, Weindl A, Welling C, Werner F, Widom A, Wiencke L, Wilczyński H, Winchen T, Wittkowski D, Wundheiler B, Wykes S, Yang L, Yapici T, Yushkov A, Zas E, Zavrtanik D, Zavrtanik M, Zepeda A, Zimmermann B, Ziolkowski M, Zuccarello F. Measurement of the Radiation Energy in the Radio Signal of Extensive Air Showers as a Universal Estimator of Cosmic-Ray Energy. Phys Rev Lett 2016; 116:241101. [PMID: 27367377 DOI: 10.1103/physrevlett.116.241101] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/27/2015] [Indexed: 06/06/2023]
Abstract
We measure the energy emitted by extensive air showers in the form of radio emission in the frequency range from 30 to 80 MHz. Exploiting the accurate energy scale of the Pierre Auger Observatory, we obtain a radiation energy of 15.8±0.7(stat)±6.7(syst) MeV for cosmic rays with an energy of 1 EeV arriving perpendicularly to a geomagnetic field of 0.24 G, scaling quadratically with the cosmic-ray energy. A comparison with predictions from state-of-the-art first-principles calculations shows agreement with our measurement. The radiation energy provides direct access to the calorimetric energy in the electromagnetic cascade of extensive air showers. Comparison with our result thus allows the direct calibration of any cosmic-ray radio detector against the well-established energy scale of the Pierre Auger Observatory.
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Affiliation(s)
- A Aab
- Universität Siegen, Fachbereich 7 Physik - Experimentelle Teilchenphysik, Siegen, Germany
| | - P Abreu
- Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisboa, Portugal
| | - M Aglietta
- Osservatorio Astrofisico di Torino (INAF), Università di Torino and Sezione INFN, Torino, Italy
| | - E J Ahn
- Fermilab, Batavia, Illinois, USA
| | - I Al Samarai
- Institut de Physique Nucléaire d'Orsay (IPNO), Université Paris 11, CNRS-IN2P3, Orsay, France
| | - I F M Albuquerque
- Universidade de São Paulo, Instituto de Física, São Paulo, São Paulo, Brazil
| | - I Allekotte
- Centro Atómico Bariloche and Instituto Balseiro (CNEA-UNCuyo-CONICET), San Carlos de Bariloche, Argentina
| | - P Allison
- Ohio State University, Columbus, Ohio, USA
| | - A Almela
- Universidad Tecnológica Nacional - Facultad Regional Buenos Aires, Buenos Aires, Argentina
- Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - J Alvarez Castillo
- Universidad Nacional Autónoma de México, México, Distrito Federal, Mexico
| | - J Alvarez-Muñiz
- Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | - R Alves Batista
- Universität Hamburg, II. Institut für Theoretische Physik, Hamburg, Germany
| | - M Ambrosio
- Università di Napoli "Federico II" and Sezione INFN, Napoli, Italy
| | - A Aminaei
- IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
| | - G A Anastasi
- Università di Catania and Sezione INFN, Catania, Italy
| | - L Anchordoqui
- Department of Physics and Astronomy, Lehman College, City University of New York, Bronx, New York, USA
| | - S Andringa
- Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisboa, Portugal
| | - C Aramo
- Università di Napoli "Federico II" and Sezione INFN, Napoli, Italy
| | - F Arqueros
- Universidad Complutense de Madrid, Madrid, Spain
| | - N Arsene
- University of Bucharest, Physics Department, Bucharest, Romania
| | - H Asorey
- Centro Atómico Bariloche and Instituto Balseiro (CNEA-UNCuyo-CONICET), San Carlos de Bariloche, Argentina
- Universidad Industrial de Santander, Bucaramanga, Colombia
| | - P Assis
- Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisboa, Portugal
| | - J Aublin
- Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), Universités Paris 6 et Paris 7, CNRS-IN2P3, Paris, France
| | - G Avila
- Observatorio Pierre Auger and Comisión Nacional de Energía Atómica, Malargüe, Argentina
| | - N Awal
- New York University, New York, New York, USA
| | - A M Badescu
- University Politehnica of Bucharest, Bucharest, Romania
| | - C Baus
- Karlsruhe Institute of Technology, Institut für Experimentelle Kernphysik (IEKP), Karlsruhe, Germany
| | - J J Beatty
- Ohio State University, Columbus, Ohio, USA
| | - K H Becker
- Bergische Universität Wuppertal, Fachbereich C - Physik, Wuppertal, Germany
| | - J A Bellido
- University of Adelaide, Adelaide, South Australia, Australia
| | - C Berat
- Laboratoire de Physique Subatomique et de Cosmologie (LPSC), Université Grenoble-Alpes, CNRS/IN2P3, Grenoble, France
| | - M E Bertaina
- Osservatorio Astrofisico di Torino (INAF), Università di Torino and Sezione INFN, Torino, Italy
| | - X Bertou
- Centro Atómico Bariloche and Instituto Balseiro (CNEA-UNCuyo-CONICET), San Carlos de Bariloche, Argentina
| | - P L Biermann
- Max-Planck-Institut für Radioastronomie, Bonn, Germany
| | - P Billoir
- Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), Universités Paris 6 et Paris 7, CNRS-IN2P3, Paris, France
| | - S G Blaess
- University of Adelaide, Adelaide, South Australia, Australia
| | - A Blanco
- Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisboa, Portugal
| | - M Blanco
- Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), Universités Paris 6 et Paris 7, CNRS-IN2P3, Paris, France
| | - J Blazek
- Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - C Bleve
- Dipartimento di Matematica e Fisica "E. De Giorgi" dell'Università del Salento and Sezione INFN, Lecce, Italy
| | - H Blümer
- Karlsruhe Institute of Technology, Institut für Experimentelle Kernphysik (IEKP), Karlsruhe, Germany
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - M Boháčová
- Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - D Boncioli
- INFN, Laboratori Nazionali del Gran Sasso, Assergi (L'Aquila), Italy
| | - C Bonifazi
- Universidade Federal do Rio de Janeiro, Instituto de Física, Rio de Janeiro, Rio de Janeiro, Brazil
| | - N Borodai
- Institute of Nuclear Physics PAN, Krakow, Poland
| | - J Brack
- Colorado State University, Fort Collins, Colorado, USA
| | - I Brancus
- "Horia Hulubei" National Institute for Physics and Nuclear Engineering, Bucharest-Magurele, Romania
| | - T Bretz
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - A Bridgeman
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - P Brogueira
- Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisboa, Portugal
| | - P Buchholz
- Universität Siegen, Fachbereich 7 Physik - Experimentelle Teilchenphysik, Siegen, Germany
| | - A Bueno
- Universidad de Granada and C.A.F.P.E., Granada, Spain
| | - S Buitink
- IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
| | - M Buscemi
- Università di Napoli "Federico II" and Sezione INFN, Napoli, Italy
| | | | - B Caccianiga
- Università di Milano and Sezione INFN, Milan, Italy
| | - L Caccianiga
- Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), Universités Paris 6 et Paris 7, CNRS-IN2P3, Paris, France
| | - M Candusso
- Università di Roma II "Tor Vergata" and Sezione INFN, Roma, Italy
| | - L Caramete
- Institute of Space Science, Bucharest-Magurele, Romania
| | - R Caruso
- Università di Catania and Sezione INFN, Catania, Italy
| | - A Castellina
- Osservatorio Astrofisico di Torino (INAF), Università di Torino and Sezione INFN, Torino, Italy
| | - G Cataldi
- Dipartimento di Matematica e Fisica "E. De Giorgi" dell'Università del Salento and Sezione INFN, Lecce, Italy
| | - L Cazon
- Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisboa, Portugal
| | - R Cester
- Università di Torino and Sezione INFN, Torino, Italy
| | - A G Chavez
- Universidad Michoacana de San Nicolás de Hidalgo, Morelia, Michoacán, Mexico
| | - A Chiavassa
- Osservatorio Astrofisico di Torino (INAF), Università di Torino and Sezione INFN, Torino, Italy
| | - J A Chinellato
- Universidade Estadual de Campinas, IFGW, Campinas, São Paulo, Brazil
| | - J Chudoba
- Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - M Cilmo
- Università di Napoli "Federico II" and Sezione INFN, Napoli, Italy
| | - R W Clay
- University of Adelaide, Adelaide, South Australia, Australia
| | - G Cocciolo
- Dipartimento di Matematica e Fisica "E. De Giorgi" dell'Università del Salento and Sezione INFN, Lecce, Italy
| | - R Colalillo
- Università di Napoli "Federico II" and Sezione INFN, Napoli, Italy
| | - A Coleman
- Pennsylvania State University, University Park, Pennsylvania, USA
| | - L Collica
- Università di Milano and Sezione INFN, Milan, Italy
| | - M R Coluccia
- Dipartimento di Matematica e Fisica "E. De Giorgi" dell'Università del Salento and Sezione INFN, Lecce, Italy
| | - R Conceição
- Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisboa, Portugal
| | - F Contreras
- Observatorio Pierre Auger, Malargüe, Argentina
| | - M J Cooper
- University of Adelaide, Adelaide, South Australia, Australia
| | - A Cordier
- Laboratoire de l'Accélérateur Linéaire (LAL), Université Paris 11, CNRS-IN2P3, Orsay, France
| | - S Coutu
- Pennsylvania State University, University Park, Pennsylvania, USA
| | - C E Covault
- Case Western Reserve University, Cleveland, Ohio, USA
| | - J Cronin
- University of Chicago, Enrico Fermi Institute, Chicago, Illinois, USA
| | - R Dallier
- SUBATECH, école des Mines de Nantes, CNRS-IN2P3, Université de Nantes, Nantes, France
- Station de Radioastronomie de Nançay, Observatoire de Paris, CNRS/INSU, Nançay, France
| | - B Daniel
- Universidade Estadual de Campinas, IFGW, Campinas, São Paulo, Brazil
| | - S Dasso
- Instituto de Astronomía y Física del Espacio (IAFE, CONICET-UBA), Buenos Aires, Argentina
- Departamento de Física, FCEyN, Universidad de Buenos Aires and CONICET, Buenos Aires, Argentina
| | - K Daumiller
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - B R Dawson
- University of Adelaide, Adelaide, South Australia, Australia
| | - R M de Almeida
- Universidade Federal Fluminense, EEIMVR, Volta Redonda, Rio de Janeiro, Brazil
| | - S J de Jong
- IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
- Nikhef, Science Park, Amsterdam, Netherlands
| | - G De Mauro
- IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
| | - J R T de Mello Neto
- Universidade Federal do Rio de Janeiro, Instituto de Física, Rio de Janeiro, Rio de Janeiro, Brazil
| | - I De Mitri
- Dipartimento di Matematica e Fisica "E. De Giorgi" dell'Università del Salento and Sezione INFN, Lecce, Italy
| | - J de Oliveira
- Universidade Federal Fluminense, EEIMVR, Volta Redonda, Rio de Janeiro, Brazil
| | - V de Souza
- Universidade de São Paulo, Instituto de Física de São Carlos, São Carlos, São Paulo, Brazil
| | - L Del Peral
- Universidad de Alcalá, Alcalá de Henares, Madrid, Spain
| | - O Deligny
- Institut de Physique Nucléaire d'Orsay (IPNO), Université Paris 11, CNRS-IN2P3, Orsay, France
| | - N Dhital
- Michigan Technological University, Houghton, Michigan, USA
| | - C Di Giulio
- Università di Roma II "Tor Vergata" and Sezione INFN, Roma, Italy
| | - A Di Matteo
- Dipartimento di Scienze Fisiche e Chimiche dell'Università dell'Aquila and INFN, L'Aquila, Italy
| | - J C Diaz
- Michigan Technological University, Houghton, Michigan, USA
| | - M L Díaz Castro
- Universidade Estadual de Campinas, IFGW, Campinas, São Paulo, Brazil
| | - F Diogo
- Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisboa, Portugal
| | - C Dobrigkeit
- Universidade Estadual de Campinas, IFGW, Campinas, São Paulo, Brazil
| | - W Docters
- KVI - Center for Advanced Radiation Technology, University of Groningen, Groningen, Netherlands
| | - J C D'Olivo
- Universidad Nacional Autónoma de México, México, Distrito Federal, Mexico
| | - A Dorofeev
- Colorado State University, Fort Collins, Colorado, USA
| | | | - R C Dos Anjos
- Universidade de São Paulo, Instituto de Física de São Carlos, São Carlos, São Paulo, Brazil
| | - M T Dova
- IFLP, Universidad Nacional de La Plata and CONICET, La Plata, Argentina
| | - J Ebr
- Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - R Engel
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - M Erdmann
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - M Erfani
- Universität Siegen, Fachbereich 7 Physik - Experimentelle Teilchenphysik, Siegen, Germany
| | - C O Escobar
- Fermilab, Batavia, Illinois, USA
- Universidade Estadual de Campinas, IFGW, Campinas, São Paulo, Brazil
| | - J Espadanal
- Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisboa, Portugal
| | - A Etchegoyen
- Universidad Tecnológica Nacional - Facultad Regional Buenos Aires, Buenos Aires, Argentina
- Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - H Falcke
- IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
- Nikhef, Science Park, Amsterdam, Netherlands
- ASTRON, Dwingeloo, Netherlands
| | - K Fang
- University of Chicago, Enrico Fermi Institute, Chicago, Illinois, USA
| | - G Farrar
- New York University, New York, New York, USA
| | - A C Fauth
- Universidade Estadual de Campinas, IFGW, Campinas, São Paulo, Brazil
| | | | - A P Ferguson
- Case Western Reserve University, Cleveland, Ohio, USA
| | - B Fick
- Michigan Technological University, Houghton, Michigan, USA
| | - J M Figueira
- Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - A Filevich
- Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - A Filipčič
- Experimental Particle Physics Department, J. Stefan Institute, Ljubljana, Slovenia
- Laboratory for Astroparticle Physics, University of Nova Gorica, Nova Gorica, Slovenia
| | - O Fratu
- University Politehnica of Bucharest, Bucharest, Romania
| | - M M Freire
- Instituto de Física de Rosario (IFIR) - CONICET/U.N.R. and Facultad de Ciencias Bioquímicas y Farmacéuticas U.N.R., Rosario, Argentina
| | - T Fujii
- University of Chicago, Enrico Fermi Institute, Chicago, Illinois, USA
| | - B García
- Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), and Universidad Tecnológica Nacional - Facultad Regional Mendoza (CONICET/CNEA), Mendoza, Argentina
| | - D Garcia-Gamez
- Laboratoire de l'Accélérateur Linéaire (LAL), Université Paris 11, CNRS-IN2P3, Orsay, France
| | | | - F Gate
- SUBATECH, école des Mines de Nantes, CNRS-IN2P3, Université de Nantes, Nantes, France
| | - H Gemmeke
- Karlsruhe Institute of Technology, Institut für Prozessdatenverarbeitung und Elektronik, Karlsruhe, Germany
| | - A Gherghel-Lascu
- "Horia Hulubei" National Institute for Physics and Nuclear Engineering, Bucharest-Magurele, Romania
| | - P L Ghia
- Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), Universités Paris 6 et Paris 7, CNRS-IN2P3, Paris, France
| | - U Giaccari
- Universidade Federal do Rio de Janeiro, Instituto de Física, Rio de Janeiro, Rio de Janeiro, Brazil
| | - M Giammarchi
- Università di Milano and Sezione INFN, Milan, Italy
| | - M Giller
- University of Łódź, Łódź, Poland
| | - D Głas
- University of Łódź, Łódź, Poland
| | - C Glaser
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - H Glass
- Fermilab, Batavia, Illinois, USA
| | - G Golup
- Centro Atómico Bariloche and Instituto Balseiro (CNEA-UNCuyo-CONICET), San Carlos de Bariloche, Argentina
| | - M Gómez Berisso
- Centro Atómico Bariloche and Instituto Balseiro (CNEA-UNCuyo-CONICET), San Carlos de Bariloche, Argentina
| | - P F Gómez Vitale
- Observatorio Pierre Auger and Comisión Nacional de Energía Atómica, Malargüe, Argentina
| | - N González
- Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - B Gookin
- Colorado State University, Fort Collins, Colorado, USA
| | - J Gordon
- Ohio State University, Columbus, Ohio, USA
| | - A Gorgi
- Osservatorio Astrofisico di Torino (INAF), Università di Torino and Sezione INFN, Torino, Italy
| | - P Gorham
- University of Hawaii, Honolulu, Hawaii, USA
| | - P Gouffon
- Universidade de São Paulo, Instituto de Física, São Paulo, São Paulo, Brazil
| | - N Griffith
- Ohio State University, Columbus, Ohio, USA
| | - A F Grillo
- INFN, Laboratori Nazionali del Gran Sasso, Assergi (L'Aquila), Italy
| | - T D Grubb
- University of Adelaide, Adelaide, South Australia, Australia
| | - F Guarino
- Università di Napoli "Federico II" and Sezione INFN, Napoli, Italy
| | - G P Guedes
- Universidade Estadual de Feira de Santana, Feira de Santana, Brazil
| | - M R Hampel
- Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - P Hansen
- IFLP, Universidad Nacional de La Plata and CONICET, La Plata, Argentina
| | - D Harari
- Centro Atómico Bariloche and Instituto Balseiro (CNEA-UNCuyo-CONICET), San Carlos de Bariloche, Argentina
| | - T A Harrison
- University of Adelaide, Adelaide, South Australia, Australia
| | - S Hartmann
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - J L Harton
- Colorado State University, Fort Collins, Colorado, USA
| | - A Haungs
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - T Hebbeker
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - D Heck
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - P Heimann
- Universität Siegen, Fachbereich 7 Physik - Experimentelle Teilchenphysik, Siegen, Germany
| | - A E Herve
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - G C Hill
- University of Adelaide, Adelaide, South Australia, Australia
| | - C Hojvat
- Fermilab, Batavia, Illinois, USA
| | - N Hollon
- University of Chicago, Enrico Fermi Institute, Chicago, Illinois, USA
| | - E Holt
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - P Homola
- Bergische Universität Wuppertal, Fachbereich C - Physik, Wuppertal, Germany
| | - J R Hörandel
- IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
- Nikhef, Science Park, Amsterdam, Netherlands
| | - P Horvath
- Palacky University, RCPTM, Olomouc, Czech Republic
| | - M Hrabovský
- Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
- Palacky University, RCPTM, Olomouc, Czech Republic
| | - D Huber
- Karlsruhe Institute of Technology, Institut für Experimentelle Kernphysik (IEKP), Karlsruhe, Germany
| | - T Huege
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - A Insolia
- Università di Catania and Sezione INFN, Catania, Italy
| | - P G Isar
- Institute of Space Science, Bucharest-Magurele, Romania
| | - I Jandt
- Bergische Universität Wuppertal, Fachbereich C - Physik, Wuppertal, Germany
| | - S Jansen
- IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
- Nikhef, Science Park, Amsterdam, Netherlands
| | - C Jarne
- IFLP, Universidad Nacional de La Plata and CONICET, La Plata, Argentina
| | - J A Johnsen
- Colorado School of Mines, Golden, Colorado, USA
| | - M Josebachuili
- Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - A Kääpä
- Bergische Universität Wuppertal, Fachbereich C - Physik, Wuppertal, Germany
| | - O Kambeitz
- Karlsruhe Institute of Technology, Institut für Experimentelle Kernphysik (IEKP), Karlsruhe, Germany
| | - K H Kampert
- Bergische Universität Wuppertal, Fachbereich C - Physik, Wuppertal, Germany
| | - P Kasper
- Fermilab, Batavia, Illinois, USA
| | - I Katkov
- Karlsruhe Institute of Technology, Institut für Experimentelle Kernphysik (IEKP), Karlsruhe, Germany
| | - B Keilhauer
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - E Kemp
- Universidade Estadual de Campinas, IFGW, Campinas, São Paulo, Brazil
| | - R M Kieckhafer
- Michigan Technological University, Houghton, Michigan, USA
| | - H O Klages
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - M Kleifges
- Karlsruhe Institute of Technology, Institut für Prozessdatenverarbeitung und Elektronik, Karlsruhe, Germany
| | | | - R Krause
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - N Krohm
- Bergische Universität Wuppertal, Fachbereich C - Physik, Wuppertal, Germany
| | - D Kuempel
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - G Kukec Mezek
- Laboratory for Astroparticle Physics, University of Nova Gorica, Nova Gorica, Slovenia
| | - N Kunka
- Karlsruhe Institute of Technology, Institut für Prozessdatenverarbeitung und Elektronik, Karlsruhe, Germany
| | - A W Kuotb Awad
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - D LaHurd
- Case Western Reserve University, Cleveland, Ohio, USA
| | - L Latronico
- Osservatorio Astrofisico di Torino (INAF), Università di Torino and Sezione INFN, Torino, Italy
| | - R Lauer
- University of New Mexico, Albuquerque, New Mexico, USA
| | - M Lauscher
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - P Lautridou
- SUBATECH, école des Mines de Nantes, CNRS-IN2P3, Université de Nantes, Nantes, France
| | - S Le Coz
- Laboratoire de Physique Subatomique et de Cosmologie (LPSC), Université Grenoble-Alpes, CNRS/IN2P3, Grenoble, France
| | - D Lebrun
- Laboratoire de Physique Subatomique et de Cosmologie (LPSC), Université Grenoble-Alpes, CNRS/IN2P3, Grenoble, France
| | - P Lebrun
- Fermilab, Batavia, Illinois, USA
| | | | - A Letessier-Selvon
- Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), Universités Paris 6 et Paris 7, CNRS-IN2P3, Paris, France
| | - I Lhenry-Yvon
- Institut de Physique Nucléaire d'Orsay (IPNO), Université Paris 11, CNRS-IN2P3, Orsay, France
| | - K Link
- Karlsruhe Institute of Technology, Institut für Experimentelle Kernphysik (IEKP), Karlsruhe, Germany
| | - L Lopes
- Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisboa, Portugal
| | - R López
- Benemérita Universidad Autónoma de Puebla, Puebla, Mexico
| | - A López Casado
- Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | - K Louedec
- Laboratoire de Physique Subatomique et de Cosmologie (LPSC), Université Grenoble-Alpes, CNRS/IN2P3, Grenoble, France
| | - A Lucero
- Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - M Malacari
- University of Adelaide, Adelaide, South Australia, Australia
| | - M Mallamaci
- Università di Milano and Sezione INFN, Milan, Italy
| | - J Maller
- SUBATECH, école des Mines de Nantes, CNRS-IN2P3, Université de Nantes, Nantes, France
| | - D Mandat
- Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | | | - A G Mariazzi
- IFLP, Universidad Nacional de La Plata and CONICET, La Plata, Argentina
| | - V Marin
- SUBATECH, école des Mines de Nantes, CNRS-IN2P3, Université de Nantes, Nantes, France
| | - I C Mariş
- Universidad de Granada and C.A.F.P.E., Granada, Spain
| | - G Marsella
- Dipartimento di Matematica e Fisica "E. De Giorgi" dell'Università del Salento and Sezione INFN, Lecce, Italy
| | - D Martello
- Dipartimento di Matematica e Fisica "E. De Giorgi" dell'Università del Salento and Sezione INFN, Lecce, Italy
| | - H Martinez
- Centro de Investigación y de Estudios Avanzados del IPN (CINVESTAV), México, Distrito Federal, Mexico
| | | | - D Martraire
- Institut de Physique Nucléaire d'Orsay (IPNO), Université Paris 11, CNRS-IN2P3, Orsay, France
| | - J J Masías Meza
- Departamento de Física, FCEyN, Universidad de Buenos Aires and CONICET, Buenos Aires, Argentina
| | - H J Mathes
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - S Mathys
- Bergische Universität Wuppertal, Fachbereich C - Physik, Wuppertal, Germany
| | - J Matthews
- Louisiana State University, Baton Rouge, Louisiana, USA
| | | | - G Matthiae
- Università di Roma II "Tor Vergata" and Sezione INFN, Roma, Italy
| | - D Maurizio
- Centro Brasileiro de Pesquisas Fisicas, Rio de Janeiro, Rio de Janeiro, Brazil
| | - E Mayotte
- Colorado School of Mines, Golden, Colorado, USA
| | | | - C Medina
- Colorado School of Mines, Golden, Colorado, USA
| | - G Medina-Tanco
- Universidad Nacional Autónoma de México, México, Distrito Federal, Mexico
| | - R Meissner
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - V B B Mello
- Universidade Federal do Rio de Janeiro, Instituto de Física, Rio de Janeiro, Rio de Janeiro, Brazil
| | - D Melo
- Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - A Menshikov
- Karlsruhe Institute of Technology, Institut für Prozessdatenverarbeitung und Elektronik, Karlsruhe, Germany
| | - S Messina
- KVI - Center for Advanced Radiation Technology, University of Groningen, Groningen, Netherlands
| | - M I Micheletti
- Instituto de Física de Rosario (IFIR) - CONICET/U.N.R. and Facultad de Ciencias Bioquímicas y Farmacéuticas U.N.R., Rosario, Argentina
| | - L Middendorf
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - I A Minaya
- Universidad Complutense de Madrid, Madrid, Spain
| | - L Miramonti
- Università di Milano and Sezione INFN, Milan, Italy
| | - B Mitrica
- "Horia Hulubei" National Institute for Physics and Nuclear Engineering, Bucharest-Magurele, Romania
| | | | - S Mollerach
- Centro Atómico Bariloche and Instituto Balseiro (CNEA-UNCuyo-CONICET), San Carlos de Bariloche, Argentina
| | - F Montanet
- Laboratoire de Physique Subatomique et de Cosmologie (LPSC), Université Grenoble-Alpes, CNRS/IN2P3, Grenoble, France
| | - C Morello
- Osservatorio Astrofisico di Torino (INAF), Università di Torino and Sezione INFN, Torino, Italy
| | - M Mostafá
- Pennsylvania State University, University Park, Pennsylvania, USA
| | - C A Moura
- Universidade Federal do ABC, Santo André, São Paulo, Brazil
| | - M A Muller
- Universidade Estadual de Campinas, IFGW, Campinas, São Paulo, Brazil
- Universidade Federal de Pelotas, Pelotas, Rio Grande do Sul, Brazil
| | - G Müller
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - S Müller
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - S Navas
- Universidad de Granada and C.A.F.P.E., Granada, Spain
| | - P Necesal
- Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - L Nellen
- Universidad Nacional Autónoma de México, México, Distrito Federal, Mexico
| | - A Nelles
- IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
- Nikhef, Science Park, Amsterdam, Netherlands
| | - J Neuser
- Bergische Universität Wuppertal, Fachbereich C - Physik, Wuppertal, Germany
| | - P H Nguyen
- University of Adelaide, Adelaide, South Australia, Australia
| | - M Niculescu-Oglinzanu
- "Horia Hulubei" National Institute for Physics and Nuclear Engineering, Bucharest-Magurele, Romania
| | - M Niechciol
- Universität Siegen, Fachbereich 7 Physik - Experimentelle Teilchenphysik, Siegen, Germany
| | - L Niemietz
- Bergische Universität Wuppertal, Fachbereich C - Physik, Wuppertal, Germany
| | - T Niggemann
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - D Nitz
- Michigan Technological University, Houghton, Michigan, USA
| | - D Nosek
- Charles University, Faculty of Mathematics and Physics, Institute of Particle and Nuclear Physics, Prague, Czech Republic
| | - V Novotny
- Charles University, Faculty of Mathematics and Physics, Institute of Particle and Nuclear Physics, Prague, Czech Republic
| | - L Nožka
- Palacky University, RCPTM, Olomouc, Czech Republic
| | - L A Núñez
- Universidad Industrial de Santander, Bucaramanga, Colombia
| | - L Ochilo
- Universität Siegen, Fachbereich 7 Physik - Experimentelle Teilchenphysik, Siegen, Germany
| | - F Oikonomou
- Pennsylvania State University, University Park, Pennsylvania, USA
| | - A Olinto
- University of Chicago, Enrico Fermi Institute, Chicago, Illinois, USA
| | - N Pacheco
- Universidad de Alcalá, Alcalá de Henares, Madrid, Spain
| | - D Pakk Selmi-Dei
- Universidade Estadual de Campinas, IFGW, Campinas, São Paulo, Brazil
| | - M Palatka
- Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - J Pallotta
- Centro de Investigaciones en Láseres y Aplicaciones, CITEDEF and CONICET, Villa Martelli, Argentina
| | - P Papenbreer
- Bergische Universität Wuppertal, Fachbereich C - Physik, Wuppertal, Germany
| | - G Parente
- Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | - A Parra
- Benemérita Universidad Autónoma de Puebla, Puebla, Mexico
| | - T Paul
- Department of Physics and Astronomy, Lehman College, City University of New York, Bronx, New York, USA
- Northeastern University, Boston, Massachusetts, USA
| | - M Pech
- Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - J Pȩkala
- Institute of Nuclear Physics PAN, Krakow, Poland
| | - R Pelayo
- Unidad Profesional Interdisciplinaria en Ingeniería y Tecnologías Avanzadas del Instituto Politécnico Nacional (UPIITA- IPN), México, Distrito Federal, Mexico
| | - I M Pepe
- Universidade Federal da Bahia, Salvador, BA, Brazil
| | - L Perrone
- Dipartimento di Matematica e Fisica "E. De Giorgi" dell'Università del Salento and Sezione INFN, Lecce, Italy
| | - E Petermann
- University of Nebraska, Lincoln, Nebraska, USA
| | - C Peters
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - S Petrera
- Dipartimento di Scienze Fisiche e Chimiche dell'Università dell'Aquila and INFN, L'Aquila, Italy
- Gran Sasso Science Institute (INFN), L'Aquila, Italy
| | - Y Petrov
- Colorado State University, Fort Collins, Colorado, USA
| | - J Phuntsok
- Pennsylvania State University, University Park, Pennsylvania, USA
| | - R Piegaia
- Departamento de Física, FCEyN, Universidad de Buenos Aires and CONICET, Buenos Aires, Argentina
| | - T Pierog
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - P Pieroni
- Departamento de Física, FCEyN, Universidad de Buenos Aires and CONICET, Buenos Aires, Argentina
| | - M Pimenta
- Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisboa, Portugal
| | - V Pirronello
- Università di Catania and Sezione INFN, Catania, Italy
| | - M Platino
- Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - M Plum
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - A Porcelli
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - C Porowski
- Institute of Nuclear Physics PAN, Krakow, Poland
| | - R R Prado
- Universidade de São Paulo, Instituto de Física de São Carlos, São Carlos, São Paulo, Brazil
| | - P Privitera
- University of Chicago, Enrico Fermi Institute, Chicago, Illinois, USA
| | - M Prouza
- Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - E J Quel
- Centro de Investigaciones en Láseres y Aplicaciones, CITEDEF and CONICET, Villa Martelli, Argentina
| | - S Querchfeld
- Bergische Universität Wuppertal, Fachbereich C - Physik, Wuppertal, Germany
| | - S Quinn
- Case Western Reserve University, Cleveland, Ohio, USA
| | - J Rautenberg
- Bergische Universität Wuppertal, Fachbereich C - Physik, Wuppertal, Germany
| | - O Ravel
- SUBATECH, école des Mines de Nantes, CNRS-IN2P3, Université de Nantes, Nantes, France
| | - D Ravignani
- Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - D Reinert
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - B Revenu
- SUBATECH, école des Mines de Nantes, CNRS-IN2P3, Université de Nantes, Nantes, France
| | - J Ridky
- Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - M Risse
- Universität Siegen, Fachbereich 7 Physik - Experimentelle Teilchenphysik, Siegen, Germany
| | - P Ristori
- Centro de Investigaciones en Láseres y Aplicaciones, CITEDEF and CONICET, Villa Martelli, Argentina
| | - V Rizi
- Dipartimento di Scienze Fisiche e Chimiche dell'Università dell'Aquila and INFN, L'Aquila, Italy
| | | | | | | | - D Rogozin
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - J Rosado
- Universidad Complutense de Madrid, Madrid, Spain
| | - M Roth
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - E Roulet
- Centro Atómico Bariloche and Instituto Balseiro (CNEA-UNCuyo-CONICET), San Carlos de Bariloche, Argentina
| | - A C Rovero
- Instituto de Astronomía y Física del Espacio (IAFE, CONICET-UBA), Buenos Aires, Argentina
| | - S J Saffi
- University of Adelaide, Adelaide, South Australia, Australia
| | - A Saftoiu
- "Horia Hulubei" National Institute for Physics and Nuclear Engineering, Bucharest-Magurele, Romania
| | - H Salazar
- Benemérita Universidad Autónoma de Puebla, Puebla, Mexico
| | - A Saleh
- Laboratory for Astroparticle Physics, University of Nova Gorica, Nova Gorica, Slovenia
| | - F Salesa Greus
- Pennsylvania State University, University Park, Pennsylvania, USA
| | - G Salina
- Università di Roma II "Tor Vergata" and Sezione INFN, Roma, Italy
| | | | - F Sánchez
- Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | | | - E Santos
- Universidade Estadual de Campinas, IFGW, Campinas, São Paulo, Brazil
| | - E M Santos
- Universidade de São Paulo, Instituto de Física, São Paulo, São Paulo, Brazil
| | - F Sarazin
- Colorado School of Mines, Golden, Colorado, USA
| | - B Sarkar
- Bergische Universität Wuppertal, Fachbereich C - Physik, Wuppertal, Germany
| | - R Sarmento
- Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisboa, Portugal
| | | | - R Sato
- Observatorio Pierre Auger, Malargüe, Argentina
| | - C Scarso
- Observatorio Pierre Auger, Malargüe, Argentina
| | - M Schauer
- Bergische Universität Wuppertal, Fachbereich C - Physik, Wuppertal, Germany
| | - V Scherini
- Dipartimento di Matematica e Fisica "E. De Giorgi" dell'Università del Salento and Sezione INFN, Lecce, Italy
| | - H Schieler
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - D Schmidt
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - O Scholten
- KVI - Center for Advanced Radiation Technology, University of Groningen, Groningen, Netherlands
- Vrije Universiteit Brussel, Brussels, Belgium
| | | | - P Schovánek
- Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - F G Schröder
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - A Schulz
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - J Schulz
- IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
| | - J Schumacher
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - S J Sciutto
- IFLP, Universidad Nacional de La Plata and CONICET, La Plata, Argentina
| | - A Segreto
- Istituto di Astrofisica Spaziale e Fisica Cosmica di Palermo (INAF), Palermo, Italy
| | - M Settimo
- Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), Universités Paris 6 et Paris 7, CNRS-IN2P3, Paris, France
| | - A Shadkam
- Louisiana State University, Baton Rouge, Louisiana, USA
| | - R C Shellard
- Centro Brasileiro de Pesquisas Fisicas, Rio de Janeiro, Rio de Janeiro, Brazil
| | - G Sigl
- Universität Hamburg, II. Institut für Theoretische Physik, Hamburg, Germany
| | - O Sima
- University of Bucharest, Physics Department, Bucharest, Romania
| | | | - R Šmída
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - G R Snow
- University of Nebraska, Lincoln, Nebraska, USA
| | - P Sommers
- Pennsylvania State University, University Park, Pennsylvania, USA
| | - S Sonntag
- Universität Siegen, Fachbereich 7 Physik - Experimentelle Teilchenphysik, Siegen, Germany
| | - J Sorokin
- University of Adelaide, Adelaide, South Australia, Australia
| | - R Squartini
- Observatorio Pierre Auger, Malargüe, Argentina
| | | | - D Stanca
- "Horia Hulubei" National Institute for Physics and Nuclear Engineering, Bucharest-Magurele, Romania
| | - S Stanič
- Laboratory for Astroparticle Physics, University of Nova Gorica, Nova Gorica, Slovenia
| | | | - J Stasielak
- Institute of Nuclear Physics PAN, Krakow, Poland
| | - M Stephan
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - A Stutz
- Laboratoire de Physique Subatomique et de Cosmologie (LPSC), Université Grenoble-Alpes, CNRS/IN2P3, Grenoble, France
| | - F Suarez
- Universidad Tecnológica Nacional - Facultad Regional Buenos Aires, Buenos Aires, Argentina
- Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - M Suarez Durán
- Universidad Industrial de Santander, Bucaramanga, Colombia
| | - T Suomijärvi
- Institut de Physique Nucléaire d'Orsay (IPNO), Université Paris 11, CNRS-IN2P3, Orsay, France
| | - A D Supanitsky
- Instituto de Astronomía y Física del Espacio (IAFE, CONICET-UBA), Buenos Aires, Argentina
| | | | - J Swain
- Northeastern University, Boston, Massachusetts, USA
| | | | - O A Taborda
- Centro Atómico Bariloche and Instituto Balseiro (CNEA-UNCuyo-CONICET), San Carlos de Bariloche, Argentina
| | - A Tapia
- Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - A Tepe
- Universität Siegen, Fachbereich 7 Physik - Experimentelle Teilchenphysik, Siegen, Germany
| | - V M Theodoro
- Universidade Estadual de Campinas, IFGW, Campinas, São Paulo, Brazil
| | - C Timmermans
- IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
- Nikhef, Science Park, Amsterdam, Netherlands
| | - C J Todero Peixoto
- Universidade de São Paulo, Escola de Engenharia de Lorena, Lorena, São Paulo, Brazil
| | - G Toma
- "Horia Hulubei" National Institute for Physics and Nuclear Engineering, Bucharest-Magurele, Romania
| | - L Tomankova
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - B Tomé
- Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisboa, Portugal
| | - A Tonachini
- Università di Torino and Sezione INFN, Torino, Italy
| | - G Torralba Elipe
- Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | - D Torres Machado
- Universidade Federal do Rio de Janeiro, Instituto de Física, Rio de Janeiro, Rio de Janeiro, Brazil
| | - P Travnicek
- Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - M Trini
- Laboratory for Astroparticle Physics, University of Nova Gorica, Nova Gorica, Slovenia
| | - R Ulrich
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - M Unger
- New York University, New York, New York, USA
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - M Urban
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - J F Valdés Galicia
- Universidad Nacional Autónoma de México, México, Distrito Federal, Mexico
| | - I Valiño
- Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | - L Valore
- Università di Napoli "Federico II" and Sezione INFN, Napoli, Italy
| | - G van Aar
- IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
| | - P van Bodegom
- University of Adelaide, Adelaide, South Australia, Australia
| | - A M van den Berg
- KVI - Center for Advanced Radiation Technology, University of Groningen, Groningen, Netherlands
| | - S van Velzen
- IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
| | - A van Vliet
- Universität Hamburg, II. Institut für Theoretische Physik, Hamburg, Germany
| | - E Varela
- Benemérita Universidad Autónoma de Puebla, Puebla, Mexico
| | - B Vargas Cárdenas
- Universidad Nacional Autónoma de México, México, Distrito Federal, Mexico
| | - G Varner
- University of Hawaii, Honolulu, Hawaii, USA
| | - R Vasquez
- Universidade Federal do Rio de Janeiro, Instituto de Física, Rio de Janeiro, Rio de Janeiro, Brazil
| | - J R Vázquez
- Universidad Complutense de Madrid, Madrid, Spain
| | - R A Vázquez
- Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | - D Veberič
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - V Verzi
- Università di Roma II "Tor Vergata" and Sezione INFN, Roma, Italy
| | - J Vicha
- Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - M Videla
- Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - L Villaseñor
- Universidad Michoacana de San Nicolás de Hidalgo, Morelia, Michoacán, Mexico
| | - B Vlcek
- Universidad de Alcalá, Alcalá de Henares, Madrid, Spain
| | - S Vorobiov
- Laboratory for Astroparticle Physics, University of Nova Gorica, Nova Gorica, Slovenia
| | - H Wahlberg
- IFLP, Universidad Nacional de La Plata and CONICET, La Plata, Argentina
| | - O Wainberg
- Universidad Tecnológica Nacional - Facultad Regional Buenos Aires, Buenos Aires, Argentina
- Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - D Walz
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - A A Watson
- School of Physics and Astronomy, University of Leeds, Leeds, United Kingdom
| | - M Weber
- Karlsruhe Institute of Technology, Institut für Prozessdatenverarbeitung und Elektronik, Karlsruhe, Germany
| | - K Weidenhaupt
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - A Weindl
- Karlsruhe Institute of Technology, Institut für Kernphysik, Karlsruhe, Germany
| | - C Welling
- RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - F Werner
- Karlsruhe Institute of Technology, Institut für Experimentelle Kernphysik (IEKP), Karlsruhe, Germany
| | - A Widom
- Northeastern University, Boston, Massachusetts, USA
| | - L Wiencke
- Colorado School of Mines, Golden, Colorado, USA
| | - H Wilczyński
- Institute of Nuclear Physics PAN, Krakow, Poland
| | - T Winchen
- Bergische Universität Wuppertal, Fachbereich C - Physik, Wuppertal, Germany
| | - D Wittkowski
- Bergische Universität Wuppertal, Fachbereich C - Physik, Wuppertal, Germany
| | - B Wundheiler
- Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - S Wykes
- IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
| | - L Yang
- Laboratory for Astroparticle Physics, University of Nova Gorica, Nova Gorica, Slovenia
| | - T Yapici
- Michigan Technological University, Houghton, Michigan, USA
| | - A Yushkov
- Universität Siegen, Fachbereich 7 Physik - Experimentelle Teilchenphysik, Siegen, Germany
| | - E Zas
- Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | - D Zavrtanik
- Experimental Particle Physics Department, J. Stefan Institute, Ljubljana, Slovenia
- Laboratory for Astroparticle Physics, University of Nova Gorica, Nova Gorica, Slovenia
| | - M Zavrtanik
- Experimental Particle Physics Department, J. Stefan Institute, Ljubljana, Slovenia
- Laboratory for Astroparticle Physics, University of Nova Gorica, Nova Gorica, Slovenia
| | - A Zepeda
- Centro de Investigación y de Estudios Avanzados del IPN (CINVESTAV), México, Distrito Federal, Mexico
| | - B Zimmermann
- Karlsruhe Institute of Technology, Institut für Prozessdatenverarbeitung und Elektronik, Karlsruhe, Germany
| | - M Ziolkowski
- Universität Siegen, Fachbereich 7 Physik - Experimentelle Teilchenphysik, Siegen, Germany
| | - F Zuccarello
- Università di Catania and Sezione INFN, Catania, Italy
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Werner F, Jung C, Hofmann M, Werner R, Salamon J, Säring D, Kaul MG, Them K, Weber OM, Mummert T, Adam G, Ittrich H, Knopp T. Geometry planning and image registration in magnetic particle imaging using bimodal fiducial markers. Med Phys 2016; 43:2884-2893. [DOI: 10.1118/1.4948998] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
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47
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Brenner P, Mayr T, Guethoff S, Buchholz S, Pöttinger T, Lutzmann I, Werner F, Bauer A, Klymiuk N, Wolf E, Reimann K, Mohiuddin M, Hermanns W, Ayares D, McGregor C, Lambris J, Hagl C, Reichart B, Abicht JM. Costimulation Blockade with CD40mAb in (Life-Supporting) Heterotopic and Orthotopic Cardiac Xenotransplantation of GalT-KO/hCD46/hTM Transgenic Pig Hearts in a Pig-to-Baboon Model. Thorac Cardiovasc Surg 2016. [DOI: 10.1055/s-0036-1571687] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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48
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Weber A, Werner F, Weizenecker J, Buzug TM, Knopp T. Artifact free reconstruction with the system matrix approach by overscanning the field-free-point trajectory in magnetic particle imaging. Phys Med Biol 2015; 61:475-87. [PMID: 26682648 DOI: 10.1088/0031-9155/61/2/475] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
Magnetic particle imaging is a tracer-based imaging method that utilizes the non-linear magnetization response of iron-oxide for determining their spatial distribution. The method is based on a sampling scheme where a sensitive spot is moved along a trajectory that captured a predefined field-of-view (FOV). However, particles outside the FOV also contribute to the measurement signal due to their rotation and the non-sharpness of the sensitive spot. In the present work we investigate artifacts that are induced by particles not covered by the FOV and show that the artifacts can be mitigated by using a system matrix that covers not only the region of interest but also a certain area around the FOV. The findings are especially relevant when using a multi-patch acquisition scheme where the boundaries of neighboring patches have to be handled.
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Affiliation(s)
- A Weber
- Bruker Biospin MRI GmbH, Rudolf-Plank-Str. 23, 76275 Ettlingen, Germany. Institute of Medical Engineering, University of Lübeck, Ratzeburger Allee 160, 23562 Lübeck, Germany
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49
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Aab A, Abreu P, Aglietta M, Ahn EJ, Samarai IA, Albuquerque IFM, Allekotte I, Allen J, Allison P, Almela A, Castillo JA, Alvarez-Muñiz J, Batista RA, Ambrosio M, Aminaei A, Anchordoqui L, Andringa S, Aramo C, Aranda VM, Arqueros F, Asorey H, Assis P, Aublin J, Ave M, Avenier M, Avila G, Awal N, Badescu AM, Barber KB, Bäuml J, Baus C, Beatty JJ, Becker KH, Bellido JA, Berat C, Bertaina ME, Bertou X, Biermann PL, Billoir P, Blaess S, Blanco M, Bleve C, Blümer H, Boháčová M, Boncioli D, Bonifazi C, Bonino R, Borodai N, Brack J, Brancus I, Bridgeman A, Brogueira P, Brown WC, Buchholz P, Bueno A, Buitink S, Buscemi M, Caballero-Mora KS, Caccianiga B, Caccianiga L, Candusso M, Caramete L, Caruso R, Castellina A, Cataldi G, Cazon L, Cester R, Chavez AG, Chiavassa A, Chinellato JA, Chudoba J, Cilmo M, Clay RW, Cocciolo G, Colalillo R, Coleman A, Collica L, Coluccia MR, Conceição R, Contreras F, Cooper MJ, Cordier A, Coutu S, Covault CE, Cronin J, Curutiu A, Dallier R, Daniel B, Dasso S, Daumiller K, Dawson BR, Almeida RMD, Domenico MD, Jong SJD, Neto JRTDM, Mitri ID, Oliveira JD, Souza VD, Peral LD, Deligny O, Dembinski H, Dhital N, Giulio CD, Matteo AD, Diaz JC, Castro MLD, Diogo F, Dobrigkeit C, Docters W, D’Olivo JC, Dorofeev A, Hasankiadeh QD, Dova MT, Ebr J, Engel R, Erdmann M, Erfani M, Escobar CO, Espadanal J, Etchegoyen A, Luis PFS, Falcke H, Fang K, Farrar G, Fauth AC, Fazzini N, Ferguson AP, Fernandes M, Fick B, Figueira JM, Filevich A, Filipčič A, Fox BD, Fratu O, Fröhlich U, Fuchs B, Fujii T, Gaior R, García B, Roca STG, Garcia-Gamez D, Garcia-Pinto D, Garilli G, Bravo AG, Gate F, Gemmeke H, Ghia PL, Giaccari U, Giammarchi M, Giller M, Glaser C, Glass H, Berisso MG, Vitale PFG, Gonçalves P, Gonzalez JG, González N, Gookin B, Gordon J, Gorgi A, Gorham P, Gouffon P, Grebe S, Griffith N, Grillo AF, Grubb TD, Guarino F, Guedes GP, Hampel MR, Hansen P, Harari D, Harrison TA, Hartmann S, Harton JL, Haungs A, Hebbeker T, Heck D, Heimann P, Herve AE, Hill GC, Hojvat C, Hollon N, Holt E, Homola P, Hörandel JR, Horvath P, Hrabovský M, Huber D, Huege T, Insolia A, Isar PG, Jandt I, Jansen S, Jarne C, Josebachuili M, Kääpä A, Kambeitz O, Kampert KH, Kasper P, Katkov I, Kégl B, Keilhauer B, Keivani A, Kemp E, Kieckhafer RM, Klages HO, Kleifges M, Kleinfeller J, Krause R, Krohm N, Krömer O, Kruppke-Hansen D, Kuempel D, Kunka N, LaHurd D, Latronico L, Lauer R, Lauscher M, Lautridou P, Coz SL, Leão MSAB, Lebrun D, Lebrun P, Oliveira MALD, Letessier-Selvon A, Lhenry-Yvon I, Link K, López R, Agüera AL, Louedec K, Bahilo JL, Lu L, Lucero A, Ludwig M, Malacari M, Maldera S, Mallamaci M, Maller J, Mandat D, Mantsch P, Mariazzi AG, Marin V, Mariş IC, Marsella G, Martello D, Martin L, Martinez H, Bravo OM, Martraire D, Meza JJM, Mathes HJ, Mathys S, Matthews J, Matthews JAJ, Matthiae G, Maurel D, Maurizio D, Mayotte E, Mazur PO, Medina C, Medina-Tanco G, Meissner R, Melissas M, Melo D, Menshikov A, Messina S, Meyhandan R, Mićanović S, Micheletti MI, Middendorf L, Minaya IA, Miramonti L, Mitrica B, Molina-Bueno L, Mollerach S, Monasor M, Ragaigne DM, Montanet F, Morello C, Mostafá M, Moura CA, Muller MA, Müller G, Müller S, Münchmeyer M, Mussa R, Navarra G, Navas S, Necesal P, Nellen L, Nelles A, Neuser J, Nguyen P, Niechciol M, Niemietz L, Niggemann T, Nitz D, Nosek D, Novotny V, Nožka L, Ochilo L, Olinto A, Oliveira M, Pacheco N, Selmi-Dei DP, Palatka M, Pallotta J, Palmieri N, Papenbreer P, Parente G, Parra A, Paul T, Pech M, Pȩkala J, Pelayo R, Pepe IM, Perrone L, Petermann E, Peters C, Petrera S, Petrov Y, Phuntsok J, Piegaia R, Pierog T, Pieroni P, Pimenta M, Pirronello V, Platino M, Plum M, Porcelli A, Porowski C, Prado RR, Privitera P, Prouza M, Purrello V, Quel EJ, Querchfeld S, Quinn S, Rautenberg J, Ravel O, Ravignani D, Revenu B, Ridky J, Riggi S, Risse M, Ristori P, Rizi V, Carvalho WRD, Cabo IR, Fernandez GR, Rojo JR, Rodríguez-Frías MD, Rogozin D, Ros G, Rosado J, Rossler T, Roth M, Roulet E, Rovero AC, Saffi SJ, Saftoiu A, Salamida F, Salazar H, Saleh A, Greus FS, Salina G, Sánchez F, Sanchez-Lucas P, Santo CE, Santos E, Santos EM, Sarazin F, Sarkar B, Sarmento R, Sato R, Scharf N, Scherini V, Schieler H, Schiffer P, Schmidt D, Schröder FG, Scholten O, Schoorlemmer H, Schovánek P, Schulz A, Schulz J, Schumacher J, Sciutto SJ, Segreto A, Settimo M, Shadkam A, Shellard RC, Sidelnik I, Sigl G, Sima O, kowski AŚ, Šmída R, Snow GR, Sommers P, Sorokin J, Squartini R, Srivastava YN, Stanič S, Stapleton J, Stasielak J, Stephan M, Stutz A, Suarez F, Suomijärvi T, Supanitsky AD, Sutherland MS, Swain J, Szadkowski Z, Szuba M, Taborda OA, Tapia A, Tartare M, Tepe A, Theodoro VM, Timmermans C, Peixoto CJT, Toma G, Tomankova L, Tomé B, Tonachini A, Elipe GT, Machado DT, Travnicek P, Trovato E, Tueros M, Ulrich R, Unger M, Urban M, Galicia JFV, Valiño I, Valore L, Aar GV, Bodegom PV, Berg AMVD, Velzen SV, Vliet AV, Varela E, Vargas Cárdenas B, Varner G, Vázquez JR, Vázquez RA, Veberič D, Verzi V, Vicha J, Videla M, Villaseñor L, Vlcek B, Vorobiov S, Wahlberg H, Wainberg O, Walz D, Watson AA, Weber M, Weidenhaupt K, Weindl A, Werner F, Widom A, Wiencke L, Wilczyńska B, Wilczyński H, Will M, Williams C, Winchen T, Wittkowski D, Wundheiler B, Wykes S, Yamamoto T, Yapici T, Yuan G, Yushkov A, Zamorano B, Zas E, Zavrtanik D, Zavrtanik M, Zaw I, Zepeda A, Zhou J, Zhu Y, Silva MZ, Ziolkowski M, Zuccarello F. Search for patterns by combining cosmic-ray energy and arrival directions at the Pierre Auger Observatory. Eur Phys J C Part Fields 2015; 75:269. [PMID: 26120280 PMCID: PMC4477714 DOI: 10.1140/epjc/s10052-015-3471-0] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/03/2014] [Accepted: 05/20/2015] [Indexed: 06/04/2023]
Abstract
Energy-dependent patterns in the arrival directions of cosmic rays are searched for using data of the Pierre Auger Observatory. We investigate local regions around the highest-energy cosmic rays with [Formula: see text] eV by analyzing cosmic rays with energies above [Formula: see text] eV arriving within an angular separation of approximately 15[Formula: see text]. We characterize the energy distributions inside these regions by two independent methods, one searching for angular dependence of energy-energy correlations and one searching for collimation of energy along the local system of principal axes of the energy distribution. No significant patterns are found with this analysis. The comparison of these measurements with astrophysical scenarios can therefore be used to obtain constraints on related model parameters such as strength of cosmic-ray deflection and density of point sources.
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Affiliation(s)
- A. Aab
- />Universität Siegen, Siegen, Germany
| | - P. Abreu
- />Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisbon, Portugal
| | - M. Aglietta
- />Osservatorio Astrofisico di Torino (INAF), Università di Torino and Sezione INFN, Torino, Italy
| | | | - I. Al Samarai
- />Institut de Physique Nucléaire d’Orsay (IPNO), Université Paris 11, CNRS-IN2P3, Orsay, France
| | | | - I. Allekotte
- />Centro Atómico Bariloche and Instituto Balseiro (CNEA-UNCuyo-CONICET), San Carlos de Bariloche, Argentina
| | - J. Allen
- />New York University, New York, NY USA
| | - P. Allison
- />Ohio State University, Columbus, OH USA
| | - A. Almela
- />Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
- />Universidad Tecnológica Nacional - Facultad Regional Buenos Aires, Buenos Aires, Argentina
| | | | - J. Alvarez-Muñiz
- />Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | | | - M. Ambrosio
- />Università di Napoli “Federico II” and Sezione INFN, Napoli, Italy
| | - A. Aminaei
- />IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
| | - L. Anchordoqui
- />Department of Physics and Astronomy, City University of New York, New York, USA
| | - S. Andringa
- />Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisbon, Portugal
| | - C. Aramo
- />Università di Napoli “Federico II” and Sezione INFN, Napoli, Italy
| | - V. M. Aranda
- />Universidad Complutense de Madrid, Madrid, Spain
| | - F. Arqueros
- />Universidad Complutense de Madrid, Madrid, Spain
| | - H. Asorey
- />Centro Atómico Bariloche and Instituto Balseiro (CNEA-UNCuyo-CONICET), San Carlos de Bariloche, Argentina
| | - P. Assis
- />Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisbon, Portugal
| | - J. Aublin
- />Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), Universités Paris 6 et Paris 7, CNRS-IN2P3, Paris, France
| | - M. Ave
- />Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | - M. Avenier
- />Laboratoire de Physique Subatomique et de Cosmologie (LPSC), Université Grenoble-Alpes, CNRS/IN2P3, Grenoble, France
| | - G. Avila
- />Observatorio Pierre Auger and Comisión Nacional de Energía Atómica, Malargüe, Argentina
| | - N. Awal
- />New York University, New York, NY USA
| | - A. M. Badescu
- />University Politehnica of Bucharest, Bucharest, Romania
| | - K. B. Barber
- />University of Adelaide, Adelaide, SA Australia
| | - J. Bäuml
- />Karlsruhe Institute of Technology - Campus South - Institut für Experimentelle, Kernphysik (IEKP), Karlsruhe, Germany
| | - C. Baus
- />Karlsruhe Institute of Technology - Campus South - Institut für Experimentelle, Kernphysik (IEKP), Karlsruhe, Germany
| | | | - K. H. Becker
- />Bergische Universität Wuppertal, Wuppertal, Germany
| | | | - C. Berat
- />Laboratoire de Physique Subatomique et de Cosmologie (LPSC), Université Grenoble-Alpes, CNRS/IN2P3, Grenoble, France
| | - M. E. Bertaina
- />Osservatorio Astrofisico di Torino (INAF), Università di Torino and Sezione INFN, Torino, Italy
| | - X. Bertou
- />Centro Atómico Bariloche and Instituto Balseiro (CNEA-UNCuyo-CONICET), San Carlos de Bariloche, Argentina
| | - P. L. Biermann
- />Max-Planck-Institut für Radioastronomie, Bonn, Germany
| | - P. Billoir
- />Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), Universités Paris 6 et Paris 7, CNRS-IN2P3, Paris, France
| | - S. Blaess
- />University of Adelaide, Adelaide, SA Australia
| | - M. Blanco
- />Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), Universités Paris 6 et Paris 7, CNRS-IN2P3, Paris, France
| | - C. Bleve
- />Dipartimento di Matematica e Fisica “E. De Giorgi” dell’Università del Salento and Sezione INFN, Lecce, Italy
| | - H. Blümer
- />Karlsruhe Institute of Technology - Campus South - Institut für Experimentelle, Kernphysik (IEKP), Karlsruhe, Germany
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - M. Boháčová
- />Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - D. Boncioli
- />INFN, Laboratori Nazionali del Gran Sasso, Assergi, L’Aquila Italy
| | - C. Bonifazi
- />Instituto de Física, Universidade Federal do Rio de Janeiro, Rio de Janeiro, RJ Brazil
| | - R. Bonino
- />Osservatorio Astrofisico di Torino (INAF), Università di Torino and Sezione INFN, Torino, Italy
| | - N. Borodai
- />Institute of Nuclear Physics PAN, Krakow, Poland
| | - J. Brack
- />Colorado State University, Fort Collins, CO USA
| | - I. Brancus
- />’Horia Hulubei’ National Institute for Physics and Nuclear Engineering, Bucharest-Magurele, Romania
| | - A. Bridgeman
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - P. Brogueira
- />Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisbon, Portugal
| | | | | | - A. Bueno
- />Universidad de Granada and C.A.F.P.E., Granada, Spain
| | - S. Buitink
- />IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
| | - M. Buscemi
- />Università di Napoli “Federico II” and Sezione INFN, Napoli, Italy
| | - K. S. Caballero-Mora
- />Centro de Investigación y de Estudios Avanzados del IPN (CINVESTAV), Mexico, Mexico
| | - B. Caccianiga
- />Università di Milano and Sezione INFN, Milan, Italy
| | - L. Caccianiga
- />Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), Universités Paris 6 et Paris 7, CNRS-IN2P3, Paris, France
| | - M. Candusso
- />Università di Roma II “Tor Vergata” and Sezione INFN, Roma, Italy
| | - L. Caramete
- />Max-Planck-Institut für Radioastronomie, Bonn, Germany
| | - R. Caruso
- />Università di Catania and Sezione INFN, Catania, Italy
| | - A. Castellina
- />Osservatorio Astrofisico di Torino (INAF), Università di Torino and Sezione INFN, Torino, Italy
| | - G. Cataldi
- />Dipartimento di Matematica e Fisica “E. De Giorgi” dell’Università del Salento and Sezione INFN, Lecce, Italy
| | - L. Cazon
- />Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisbon, Portugal
| | - R. Cester
- />Università di Torino and Sezione INFN, Torino, Italy
| | - A. G. Chavez
- />Universidad Michoacana de San Nicolas de Hidalgo, Morelia, Michoacan Mexico
| | - A. Chiavassa
- />Osservatorio Astrofisico di Torino (INAF), Università di Torino and Sezione INFN, Torino, Italy
| | | | - J. Chudoba
- />Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - M. Cilmo
- />Università di Napoli “Federico II” and Sezione INFN, Napoli, Italy
| | - R. W. Clay
- />University of Adelaide, Adelaide, SA Australia
| | - G. Cocciolo
- />Dipartimento di Matematica e Fisica “E. De Giorgi” dell’Università del Salento and Sezione INFN, Lecce, Italy
| | - R. Colalillo
- />Università di Napoli “Federico II” and Sezione INFN, Napoli, Italy
| | - A. Coleman
- />Pennsylvania State University, University Park, PA USA
| | - L. Collica
- />Università di Milano and Sezione INFN, Milan, Italy
| | - M. R. Coluccia
- />Dipartimento di Matematica e Fisica “E. De Giorgi” dell’Università del Salento and Sezione INFN, Lecce, Italy
| | - R. Conceição
- />Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisbon, Portugal
| | - F. Contreras
- />Observatorio Pierre Auger, Malargüe, Argentina
| | - M. J. Cooper
- />University of Adelaide, Adelaide, SA Australia
| | - A. Cordier
- />Laboratoire de l’Accélérateur Linéaire (LAL), Université Paris 11, CNRS-IN2P3, Orsay, France
| | - S. Coutu
- />Pennsylvania State University, University Park, PA USA
| | - C. E. Covault
- />Case Western Reserve University, Cleveland, OH USA
| | - J. Cronin
- />Enrico Fermi Institute, University of Chicago, Chicago, IL USA
| | - A. Curutiu
- />Max-Planck-Institut für Radioastronomie, Bonn, Germany
| | - R. Dallier
- />Station de Radioastronomie de Nançay, Observatoire de Paris, CNRS/INSU, Nançay, France
- />SUBATECH, École des Mines de Nantes, CNRS-IN2P3, Université de Nantes, Nantes, France
| | - B. Daniel
- />Universidade Estadual de Campinas, IFGW, Campinas, SP Brazil
| | - S. Dasso
- />Departamento de Física, FCEyN Universidad de Buenos Aires y CONICET, Buenos Aires, Argentina
- />Instituto de Astronomía y Física del Espacio (CONICET-UBA), Buenos Aires, Argentina
| | - K. Daumiller
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - B. R. Dawson
- />University of Adelaide, Adelaide, SA Australia
| | - R. M. de Almeida
- />Universidade Federal Fluminense, EEIMVR, Volta Redonda, RJ Brazil
| | - M. De Domenico
- />Università di Catania and Sezione INFN, Catania, Italy
| | - S. J. de Jong
- />IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
- />Nikhef, Science Park, Amsterdam, Netherlands
| | - J. R. T. de Mello Neto
- />Instituto de Física, Universidade Federal do Rio de Janeiro, Rio de Janeiro, RJ Brazil
| | - I. De Mitri
- />Dipartimento di Matematica e Fisica “E. De Giorgi” dell’Università del Salento and Sezione INFN, Lecce, Italy
| | - J. de Oliveira
- />Universidade Federal Fluminense, EEIMVR, Volta Redonda, RJ Brazil
| | - V. de Souza
- />Instituto de Física de São Carlos, Universidade de São Paulo, São Carlos, SP Brazil
| | - L. del Peral
- />Universidad de Alcalá, Alcalá de Henares, Madrid Spain
| | - O. Deligny
- />Institut de Physique Nucléaire d’Orsay (IPNO), Université Paris 11, CNRS-IN2P3, Orsay, France
| | - H. Dembinski
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - N. Dhital
- />Michigan Technological University, Houghton, MI USA
| | - C. Di Giulio
- />Università di Roma II “Tor Vergata” and Sezione INFN, Roma, Italy
| | - A. Di Matteo
- />Dipartimento di Scienze Fisiche e Chimiche dell’Università dell’Aquila and INFN, L’Aquila, Italy
| | - J. C. Diaz
- />Michigan Technological University, Houghton, MI USA
| | | | - F. Diogo
- />Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisbon, Portugal
| | - C. Dobrigkeit
- />Universidade Estadual de Campinas, IFGW, Campinas, SP Brazil
| | - W. Docters
- />KVI - Center for Advanced Radiation Technology, University of Groningen, Groningen, Netherlands
| | - J. C. D’Olivo
- />Universidad Nacional Autonoma de Mexico, Mexico, D.F., Mexico
| | - A. Dorofeev
- />Colorado State University, Fort Collins, CO USA
| | - Q. Dorosti Hasankiadeh
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - M. T. Dova
- />IFLP, Universidad Nacional de La Plata and CONICET, La Plata, Argentina
| | - J. Ebr
- />Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - R. Engel
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - M. Erdmann
- />RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - M. Erfani
- />Universität Siegen, Siegen, Germany
| | - C. O. Escobar
- />Universidade Estadual de Campinas, IFGW, Campinas, SP Brazil
- />Fermilab, Batavia, IL USA
| | - J. Espadanal
- />Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisbon, Portugal
| | - A. Etchegoyen
- />Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
- />Universidad Tecnológica Nacional - Facultad Regional Buenos Aires, Buenos Aires, Argentina
| | | | - H. Falcke
- />IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
- />Nikhef, Science Park, Amsterdam, Netherlands
- />ASTRON, Dwingeloo, Netherlands
| | - K. Fang
- />Enrico Fermi Institute, University of Chicago, Chicago, IL USA
| | - G. Farrar
- />New York University, New York, NY USA
| | - A. C. Fauth
- />Universidade Estadual de Campinas, IFGW, Campinas, SP Brazil
| | | | | | - M. Fernandes
- />Instituto de Física, Universidade Federal do Rio de Janeiro, Rio de Janeiro, RJ Brazil
| | - B. Fick
- />Michigan Technological University, Houghton, MI USA
| | - J. M. Figueira
- />Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - A. Filevich
- />Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - A. Filipčič
- />Experimental Particle Physics Department, J. Stefan Institute, Ljubljana, Slovenia
- />Laboratory for Astroparticle Physics, University of Nova Gorica, Nova Gorica, Slovenia
| | - B. D. Fox
- />University of Hawaii, Honolulu, HI USA
| | - O. Fratu
- />University Politehnica of Bucharest, Bucharest, Romania
| | | | - B. Fuchs
- />Karlsruhe Institute of Technology - Campus South - Institut für Experimentelle, Kernphysik (IEKP), Karlsruhe, Germany
| | - T. Fujii
- />Enrico Fermi Institute, University of Chicago, Chicago, IL USA
| | - R. Gaior
- />Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), Universités Paris 6 et Paris 7, CNRS-IN2P3, Paris, France
| | - B. García
- />Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM) and National Technological University, Faculty Mendoza (CONICET/CNEA), Mendoza, Argentina
| | - S. T. Garcia Roca
- />Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | - D. Garcia-Gamez
- />Laboratoire de l’Accélérateur Linéaire (LAL), Université Paris 11, CNRS-IN2P3, Orsay, France
| | | | - G. Garilli
- />Università di Catania and Sezione INFN, Catania, Italy
| | | | - F. Gate
- />SUBATECH, École des Mines de Nantes, CNRS-IN2P3, Université de Nantes, Nantes, France
| | - H. Gemmeke
- />Karlsruhe Institute of Technology - Campus North - Institut für Prozessdatenverarbeitung und Elektronik, Karlsruhe, Germany
| | - P. L. Ghia
- />Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), Universités Paris 6 et Paris 7, CNRS-IN2P3, Paris, France
| | - U. Giaccari
- />Instituto de Física, Universidade Federal do Rio de Janeiro, Rio de Janeiro, RJ Brazil
| | - M. Giammarchi
- />Università di Milano and Sezione INFN, Milan, Italy
| | | | - C. Glaser
- />RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | | | - M. Gómez Berisso
- />Centro Atómico Bariloche and Instituto Balseiro (CNEA-UNCuyo-CONICET), San Carlos de Bariloche, Argentina
| | - P. F. Gómez Vitale
- />Observatorio Pierre Auger and Comisión Nacional de Energía Atómica, Malargüe, Argentina
| | - P. Gonçalves
- />Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisbon, Portugal
| | - J. G. Gonzalez
- />Karlsruhe Institute of Technology - Campus South - Institut für Experimentelle, Kernphysik (IEKP), Karlsruhe, Germany
| | - N. González
- />Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - B. Gookin
- />Colorado State University, Fort Collins, CO USA
| | - J. Gordon
- />Ohio State University, Columbus, OH USA
| | - A. Gorgi
- />Osservatorio Astrofisico di Torino (INAF), Università di Torino and Sezione INFN, Torino, Italy
| | - P. Gorham
- />University of Hawaii, Honolulu, HI USA
| | - P. Gouffon
- />Instituto de Física, Universidade de São Paulo, São Paulo, SP Brazil
| | - S. Grebe
- />IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
- />Nikhef, Science Park, Amsterdam, Netherlands
| | | | - A. F. Grillo
- />INFN, Laboratori Nazionali del Gran Sasso, Assergi, L’Aquila Italy
| | - T. D. Grubb
- />University of Adelaide, Adelaide, SA Australia
| | - F. Guarino
- />Università di Napoli “Federico II” and Sezione INFN, Napoli, Italy
| | - G. P. Guedes
- />Universidade Estadual de Feira de Santana, Feira de Santana, Brazil
| | - M. R. Hampel
- />Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - P. Hansen
- />IFLP, Universidad Nacional de La Plata and CONICET, La Plata, Argentina
| | - D. Harari
- />Centro Atómico Bariloche and Instituto Balseiro (CNEA-UNCuyo-CONICET), San Carlos de Bariloche, Argentina
| | | | - S. Hartmann
- />RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - J. L. Harton
- />Colorado State University, Fort Collins, CO USA
| | - A. Haungs
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - T. Hebbeker
- />RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - D. Heck
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | | | - A. E. Herve
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - G. C. Hill
- />University of Adelaide, Adelaide, SA Australia
| | | | - N. Hollon
- />Enrico Fermi Institute, University of Chicago, Chicago, IL USA
| | - E. Holt
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - P. Homola
- />Bergische Universität Wuppertal, Wuppertal, Germany
| | - J. R. Hörandel
- />IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
- />Nikhef, Science Park, Amsterdam, Netherlands
| | - P. Horvath
- />Palacky University, RCPTM, Olomouc, Czech Republic
| | - M. Hrabovský
- />Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
- />Palacky University, RCPTM, Olomouc, Czech Republic
| | - D. Huber
- />Karlsruhe Institute of Technology - Campus South - Institut für Experimentelle, Kernphysik (IEKP), Karlsruhe, Germany
| | - T. Huege
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - A. Insolia
- />Università di Catania and Sezione INFN, Catania, Italy
| | - P. G. Isar
- />Institute of Space Sciences, Bucharest-Magurele, Romania
| | - I. Jandt
- />Bergische Universität Wuppertal, Wuppertal, Germany
| | - S. Jansen
- />IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
- />Nikhef, Science Park, Amsterdam, Netherlands
| | - C. Jarne
- />IFLP, Universidad Nacional de La Plata and CONICET, La Plata, Argentina
| | - M. Josebachuili
- />Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - A. Kääpä
- />Bergische Universität Wuppertal, Wuppertal, Germany
| | - O. Kambeitz
- />Karlsruhe Institute of Technology - Campus South - Institut für Experimentelle, Kernphysik (IEKP), Karlsruhe, Germany
| | - K. H. Kampert
- />Bergische Universität Wuppertal, Wuppertal, Germany
| | | | - I. Katkov
- />Karlsruhe Institute of Technology - Campus South - Institut für Experimentelle, Kernphysik (IEKP), Karlsruhe, Germany
| | - B. Kégl
- />Laboratoire de l’Accélérateur Linéaire (LAL), Université Paris 11, CNRS-IN2P3, Orsay, France
| | - B. Keilhauer
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - A. Keivani
- />Pennsylvania State University, University Park, PA USA
| | - E. Kemp
- />Universidade Estadual de Campinas, IFGW, Campinas, SP Brazil
| | | | - H. O. Klages
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - M. Kleifges
- />Karlsruhe Institute of Technology - Campus North - Institut für Prozessdatenverarbeitung und Elektronik, Karlsruhe, Germany
| | | | - R. Krause
- />RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - N. Krohm
- />Bergische Universität Wuppertal, Wuppertal, Germany
| | - O. Krömer
- />Karlsruhe Institute of Technology - Campus North - Institut für Prozessdatenverarbeitung und Elektronik, Karlsruhe, Germany
| | | | - D. Kuempel
- />RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - N. Kunka
- />Karlsruhe Institute of Technology - Campus North - Institut für Prozessdatenverarbeitung und Elektronik, Karlsruhe, Germany
| | - D. LaHurd
- />Case Western Reserve University, Cleveland, OH USA
| | - L. Latronico
- />Osservatorio Astrofisico di Torino (INAF), Università di Torino and Sezione INFN, Torino, Italy
| | - R. Lauer
- />University of New Mexico, Albuquerque, NM USA
| | - M. Lauscher
- />RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - P. Lautridou
- />SUBATECH, École des Mines de Nantes, CNRS-IN2P3, Université de Nantes, Nantes, France
| | - S. Le Coz
- />Laboratoire de Physique Subatomique et de Cosmologie (LPSC), Université Grenoble-Alpes, CNRS/IN2P3, Grenoble, France
| | - M. S. A. B. Leão
- />Faculdade Independente do Nordeste, Vitória da Conquista, Brazil
| | - D. Lebrun
- />Laboratoire de Physique Subatomique et de Cosmologie (LPSC), Université Grenoble-Alpes, CNRS/IN2P3, Grenoble, France
| | | | | | - A. Letessier-Selvon
- />Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), Universités Paris 6 et Paris 7, CNRS-IN2P3, Paris, France
| | - I. Lhenry-Yvon
- />Institut de Physique Nucléaire d’Orsay (IPNO), Université Paris 11, CNRS-IN2P3, Orsay, France
| | - K. Link
- />Karlsruhe Institute of Technology - Campus South - Institut für Experimentelle, Kernphysik (IEKP), Karlsruhe, Germany
| | - R. López
- />Benemérita Universidad Autónoma de Puebla, Puebla, Mexico
| | - A. Lopez Agüera
- />Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | - K. Louedec
- />Laboratoire de Physique Subatomique et de Cosmologie (LPSC), Université Grenoble-Alpes, CNRS/IN2P3, Grenoble, France
| | | | - L. Lu
- />Bergische Universität Wuppertal, Wuppertal, Germany
- />School of Physics and Astronomy, University of Leeds, Leeds, UK
| | - A. Lucero
- />Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - M. Ludwig
- />Karlsruhe Institute of Technology - Campus South - Institut für Experimentelle, Kernphysik (IEKP), Karlsruhe, Germany
| | - M. Malacari
- />University of Adelaide, Adelaide, SA Australia
| | - S. Maldera
- />Osservatorio Astrofisico di Torino (INAF), Università di Torino and Sezione INFN, Torino, Italy
| | - M. Mallamaci
- />Università di Milano and Sezione INFN, Milan, Italy
| | - J. Maller
- />SUBATECH, École des Mines de Nantes, CNRS-IN2P3, Université de Nantes, Nantes, France
| | - D. Mandat
- />Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | | | - A. G. Mariazzi
- />IFLP, Universidad Nacional de La Plata and CONICET, La Plata, Argentina
| | - V. Marin
- />SUBATECH, École des Mines de Nantes, CNRS-IN2P3, Université de Nantes, Nantes, France
| | - I. C. Mariş
- />Universidad de Granada and C.A.F.P.E., Granada, Spain
| | - G. Marsella
- />Dipartimento di Matematica e Fisica “E. De Giorgi” dell’Università del Salento and Sezione INFN, Lecce, Italy
| | - D. Martello
- />Dipartimento di Matematica e Fisica “E. De Giorgi” dell’Università del Salento and Sezione INFN, Lecce, Italy
| | - L. Martin
- />Station de Radioastronomie de Nançay, Observatoire de Paris, CNRS/INSU, Nançay, France
- />SUBATECH, École des Mines de Nantes, CNRS-IN2P3, Université de Nantes, Nantes, France
| | - H. Martinez
- />Centro de Investigación y de Estudios Avanzados del IPN (CINVESTAV), Mexico, Mexico
| | | | - D. Martraire
- />Institut de Physique Nucléaire d’Orsay (IPNO), Université Paris 11, CNRS-IN2P3, Orsay, France
| | - J. J. Masías Meza
- />Departamento de Física, FCEyN Universidad de Buenos Aires y CONICET, Buenos Aires, Argentina
| | - H. J. Mathes
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - S. Mathys
- />Bergische Universität Wuppertal, Wuppertal, Germany
| | - J. Matthews
- />Louisiana State University, Baton Rouge, LA USA
| | | | - G. Matthiae
- />Università di Roma II “Tor Vergata” and Sezione INFN, Roma, Italy
| | - D. Maurel
- />Karlsruhe Institute of Technology - Campus South - Institut für Experimentelle, Kernphysik (IEKP), Karlsruhe, Germany
| | - D. Maurizio
- />Centro Brasileiro de Pesquisas Fisicas, Rio de Janeiro, RJ Brazil
| | - E. Mayotte
- />Colorado School of Mines, Golden, CO USA
| | | | - C. Medina
- />Colorado School of Mines, Golden, CO USA
| | - G. Medina-Tanco
- />Universidad Nacional Autonoma de Mexico, Mexico, D.F., Mexico
| | - R. Meissner
- />RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - M. Melissas
- />Karlsruhe Institute of Technology - Campus South - Institut für Experimentelle, Kernphysik (IEKP), Karlsruhe, Germany
| | - D. Melo
- />Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - A. Menshikov
- />Karlsruhe Institute of Technology - Campus North - Institut für Prozessdatenverarbeitung und Elektronik, Karlsruhe, Germany
| | - S. Messina
- />KVI - Center for Advanced Radiation Technology, University of Groningen, Groningen, Netherlands
| | | | - S. Mićanović
- />Rudjer Bošković Institute, 10000 Zagreb, Croatia
| | - M. I. Micheletti
- />Instituto de Física de Rosario (IFIR), CONICET/U.N.R. and Facultad de Ciencias Bioquímicas y Farmacéuticas U.N.R., Rosario, Argentina
| | - L. Middendorf
- />RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - I. A. Minaya
- />Universidad Complutense de Madrid, Madrid, Spain
| | - L. Miramonti
- />Università di Milano and Sezione INFN, Milan, Italy
| | - B. Mitrica
- />’Horia Hulubei’ National Institute for Physics and Nuclear Engineering, Bucharest-Magurele, Romania
| | | | - S. Mollerach
- />Centro Atómico Bariloche and Instituto Balseiro (CNEA-UNCuyo-CONICET), San Carlos de Bariloche, Argentina
| | - M. Monasor
- />Enrico Fermi Institute, University of Chicago, Chicago, IL USA
| | - D. Monnier Ragaigne
- />Laboratoire de l’Accélérateur Linéaire (LAL), Université Paris 11, CNRS-IN2P3, Orsay, France
| | - F. Montanet
- />Laboratoire de Physique Subatomique et de Cosmologie (LPSC), Université Grenoble-Alpes, CNRS/IN2P3, Grenoble, France
| | - C. Morello
- />Osservatorio Astrofisico di Torino (INAF), Università di Torino and Sezione INFN, Torino, Italy
| | - M. Mostafá
- />Pennsylvania State University, University Park, PA USA
| | - C. A. Moura
- />Universidade Federal do ABC, Santo André, SP Brazil
| | - M. A. Muller
- />Universidade Estadual de Campinas, IFGW, Campinas, SP Brazil
- />Universidade Federal de Pelotas, Pelotas, RS Brazil
| | - G. Müller
- />RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - S. Müller
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - M. Münchmeyer
- />Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), Universités Paris 6 et Paris 7, CNRS-IN2P3, Paris, France
| | - R. Mussa
- />Università di Torino and Sezione INFN, Torino, Italy
| | - G. Navarra
- />Osservatorio Astrofisico di Torino (INAF), Università di Torino and Sezione INFN, Torino, Italy
| | - S. Navas
- />Universidad de Granada and C.A.F.P.E., Granada, Spain
| | - P. Necesal
- />Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - L. Nellen
- />Universidad Nacional Autonoma de Mexico, Mexico, D.F., Mexico
| | - A. Nelles
- />IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
- />Nikhef, Science Park, Amsterdam, Netherlands
| | - J. Neuser
- />Bergische Universität Wuppertal, Wuppertal, Germany
| | - P. Nguyen
- />University of Adelaide, Adelaide, SA Australia
| | | | - L. Niemietz
- />Bergische Universität Wuppertal, Wuppertal, Germany
| | - T. Niggemann
- />RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - D. Nitz
- />Michigan Technological University, Houghton, MI USA
| | - D. Nosek
- />Faculty of Mathematics and Physics, Institute of Particle and Nuclear Physics, Charles University, Prague, Czech Republic
| | - V. Novotny
- />Faculty of Mathematics and Physics, Institute of Particle and Nuclear Physics, Charles University, Prague, Czech Republic
| | - L. Nožka
- />Palacky University, RCPTM, Olomouc, Czech Republic
| | - L. Ochilo
- />Universität Siegen, Siegen, Germany
| | - A. Olinto
- />Enrico Fermi Institute, University of Chicago, Chicago, IL USA
| | - M. Oliveira
- />Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisbon, Portugal
| | - N. Pacheco
- />Universidad de Alcalá, Alcalá de Henares, Madrid Spain
| | | | - M. Palatka
- />Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - J. Pallotta
- />Centro de Investigaciones en Láseres y Aplicaciones, CITEDEF and CONICET, Villa Martelli, Buenos Aires, Argentina
| | - N. Palmieri
- />Karlsruhe Institute of Technology - Campus South - Institut für Experimentelle, Kernphysik (IEKP), Karlsruhe, Germany
| | - P. Papenbreer
- />Bergische Universität Wuppertal, Wuppertal, Germany
| | - G. Parente
- />Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | - A. Parra
- />Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | - T. Paul
- />Department of Physics and Astronomy, City University of New York, New York, USA
- />Northeastern University, Boston, MA USA
| | - M. Pech
- />Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - J. Pȩkala
- />Institute of Nuclear Physics PAN, Krakow, Poland
| | - R. Pelayo
- />Benemérita Universidad Autónoma de Puebla, Puebla, Mexico
| | - I. M. Pepe
- />Universidade Federal da Bahia, Salvador, BA Brazil
| | - L. Perrone
- />Dipartimento di Matematica e Fisica “E. De Giorgi” dell’Università del Salento and Sezione INFN, Lecce, Italy
| | | | - C. Peters
- />RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - S. Petrera
- />Dipartimento di Scienze Fisiche e Chimiche dell’Università dell’Aquila and INFN, L’Aquila, Italy
- />Gran Sasso Science Institute (INFN), L’Aquila, Italy
| | - Y. Petrov
- />Colorado State University, Fort Collins, CO USA
| | - J. Phuntsok
- />Pennsylvania State University, University Park, PA USA
| | - R. Piegaia
- />Departamento de Física, FCEyN Universidad de Buenos Aires y CONICET, Buenos Aires, Argentina
| | - T. Pierog
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - P. Pieroni
- />Departamento de Física, FCEyN Universidad de Buenos Aires y CONICET, Buenos Aires, Argentina
| | - M. Pimenta
- />Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisbon, Portugal
| | - V. Pirronello
- />Università di Catania and Sezione INFN, Catania, Italy
| | - M. Platino
- />Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - M. Plum
- />RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - A. Porcelli
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - C. Porowski
- />Institute of Nuclear Physics PAN, Krakow, Poland
| | - R. R. Prado
- />Instituto de Física de São Carlos, Universidade de São Paulo, São Carlos, SP Brazil
| | - P. Privitera
- />Enrico Fermi Institute, University of Chicago, Chicago, IL USA
| | - M. Prouza
- />Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - V. Purrello
- />Centro Atómico Bariloche and Instituto Balseiro (CNEA-UNCuyo-CONICET), San Carlos de Bariloche, Argentina
| | - E. J. Quel
- />Centro de Investigaciones en Láseres y Aplicaciones, CITEDEF and CONICET, Villa Martelli, Buenos Aires, Argentina
| | - S. Querchfeld
- />Bergische Universität Wuppertal, Wuppertal, Germany
| | - S. Quinn
- />Case Western Reserve University, Cleveland, OH USA
| | - J. Rautenberg
- />Bergische Universität Wuppertal, Wuppertal, Germany
| | - O. Ravel
- />SUBATECH, École des Mines de Nantes, CNRS-IN2P3, Université de Nantes, Nantes, France
| | - D. Ravignani
- />Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - B. Revenu
- />SUBATECH, École des Mines de Nantes, CNRS-IN2P3, Université de Nantes, Nantes, France
| | - J. Ridky
- />Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - S. Riggi
- />Istituto di Astrofisica Spaziale e Fisica Cosmica di Palermo (INAF), Palermo, Italy
- />Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | - M. Risse
- />Universität Siegen, Siegen, Germany
| | - P. Ristori
- />Centro de Investigaciones en Láseres y Aplicaciones, CITEDEF and CONICET, Villa Martelli, Buenos Aires, Argentina
| | - V. Rizi
- />Dipartimento di Scienze Fisiche e Chimiche dell’Università dell’Aquila and INFN, L’Aquila, Italy
| | | | - I. Rodriguez Cabo
- />Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | - G. Rodriguez Fernandez
- />Università di Roma II “Tor Vergata” and Sezione INFN, Roma, Italy
- />Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | | | | | - D. Rogozin
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - G. Ros
- />Universidad de Alcalá, Alcalá de Henares, Madrid Spain
| | - J. Rosado
- />Universidad Complutense de Madrid, Madrid, Spain
| | - T. Rossler
- />Palacky University, RCPTM, Olomouc, Czech Republic
| | - M. Roth
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - E. Roulet
- />Centro Atómico Bariloche and Instituto Balseiro (CNEA-UNCuyo-CONICET), San Carlos de Bariloche, Argentina
| | - A. C. Rovero
- />Instituto de Astronomía y Física del Espacio (CONICET-UBA), Buenos Aires, Argentina
| | - S. J. Saffi
- />University of Adelaide, Adelaide, SA Australia
| | - A. Saftoiu
- />’Horia Hulubei’ National Institute for Physics and Nuclear Engineering, Bucharest-Magurele, Romania
| | - F. Salamida
- />Institut de Physique Nucléaire d’Orsay (IPNO), Université Paris 11, CNRS-IN2P3, Orsay, France
| | - H. Salazar
- />Benemérita Universidad Autónoma de Puebla, Puebla, Mexico
| | - A. Saleh
- />Laboratory for Astroparticle Physics, University of Nova Gorica, Nova Gorica, Slovenia
| | | | - G. Salina
- />Università di Roma II “Tor Vergata” and Sezione INFN, Roma, Italy
| | - F. Sánchez
- />Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | | | - C. E. Santo
- />Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisbon, Portugal
| | - E. Santos
- />Universidade Estadual de Campinas, IFGW, Campinas, SP Brazil
| | - E. M. Santos
- />Instituto de Física, Universidade de São Paulo, São Paulo, SP Brazil
| | - F. Sarazin
- />Colorado School of Mines, Golden, CO USA
| | - B. Sarkar
- />Bergische Universität Wuppertal, Wuppertal, Germany
| | - R. Sarmento
- />Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisbon, Portugal
| | - R. Sato
- />Observatorio Pierre Auger, Malargüe, Argentina
| | - N. Scharf
- />RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - V. Scherini
- />Dipartimento di Matematica e Fisica “E. De Giorgi” dell’Università del Salento and Sezione INFN, Lecce, Italy
| | - H. Schieler
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | | | - D. Schmidt
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - F. G. Schröder
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - O. Scholten
- />KVI - Center for Advanced Radiation Technology, University of Groningen, Groningen, Netherlands
| | - H. Schoorlemmer
- />IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
- />Nikhef, Science Park, Amsterdam, Netherlands
- />University of Hawaii, Honolulu, HI USA
| | - P. Schovánek
- />Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - A. Schulz
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - J. Schulz
- />IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
| | - J. Schumacher
- />RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - S. J. Sciutto
- />IFLP, Universidad Nacional de La Plata and CONICET, La Plata, Argentina
| | - A. Segreto
- />Istituto di Astrofisica Spaziale e Fisica Cosmica di Palermo (INAF), Palermo, Italy
| | - M. Settimo
- />Laboratoire de Physique Nucléaire et de Hautes Energies (LPNHE), Universités Paris 6 et Paris 7, CNRS-IN2P3, Paris, France
| | - A. Shadkam
- />Louisiana State University, Baton Rouge, LA USA
| | - R. C. Shellard
- />Centro Brasileiro de Pesquisas Fisicas, Rio de Janeiro, RJ Brazil
| | - I. Sidelnik
- />Centro Atómico Bariloche and Instituto Balseiro (CNEA-UNCuyo-CONICET), San Carlos de Bariloche, Argentina
| | - G. Sigl
- />Universität Hamburg, Hamburg, Germany
| | - O. Sima
- />Physics Department, University of Bucharest, Bucharest, Romania
| | | | - R. Šmída
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - G. R. Snow
- />University of Nebraska, Lincoln, NE USA
| | - P. Sommers
- />Pennsylvania State University, University Park, PA USA
| | - J. Sorokin
- />University of Adelaide, Adelaide, SA Australia
| | - R. Squartini
- />Observatorio Pierre Auger, Malargüe, Argentina
| | | | - S. Stanič
- />Laboratory for Astroparticle Physics, University of Nova Gorica, Nova Gorica, Slovenia
| | | | - J. Stasielak
- />Institute of Nuclear Physics PAN, Krakow, Poland
| | - M. Stephan
- />RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - A. Stutz
- />Laboratoire de Physique Subatomique et de Cosmologie (LPSC), Université Grenoble-Alpes, CNRS/IN2P3, Grenoble, France
| | - F. Suarez
- />Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - T. Suomijärvi
- />Institut de Physique Nucléaire d’Orsay (IPNO), Université Paris 11, CNRS-IN2P3, Orsay, France
| | - A. D. Supanitsky
- />Instituto de Astronomía y Física del Espacio (CONICET-UBA), Buenos Aires, Argentina
| | | | - J. Swain
- />Northeastern University, Boston, MA USA
| | | | - M. Szuba
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - O. A. Taborda
- />Centro Atómico Bariloche and Instituto Balseiro (CNEA-UNCuyo-CONICET), San Carlos de Bariloche, Argentina
| | - A. Tapia
- />Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - M. Tartare
- />Laboratoire de Physique Subatomique et de Cosmologie (LPSC), Université Grenoble-Alpes, CNRS/IN2P3, Grenoble, France
| | - A. Tepe
- />Universität Siegen, Siegen, Germany
| | - V. M. Theodoro
- />Universidade Estadual de Campinas, IFGW, Campinas, SP Brazil
| | - C. Timmermans
- />IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
- />Nikhef, Science Park, Amsterdam, Netherlands
| | | | - G. Toma
- />’Horia Hulubei’ National Institute for Physics and Nuclear Engineering, Bucharest-Magurele, Romania
| | - L. Tomankova
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - B. Tomé
- />Laboratório de Instrumentação e Física Experimental de Partículas - LIP and Instituto Superior Técnico - IST, Universidade de Lisboa - UL, Lisbon, Portugal
| | - A. Tonachini
- />Università di Torino and Sezione INFN, Torino, Italy
| | - G. Torralba Elipe
- />Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | - D. Torres Machado
- />Instituto de Física, Universidade Federal do Rio de Janeiro, Rio de Janeiro, RJ Brazil
| | - P. Travnicek
- />Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - E. Trovato
- />Università di Catania and Sezione INFN, Catania, Italy
| | - M. Tueros
- />Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | - R. Ulrich
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - M. Unger
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - M. Urban
- />RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | | | - I. Valiño
- />Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | - L. Valore
- />Università di Napoli “Federico II” and Sezione INFN, Napoli, Italy
| | - G. van Aar
- />IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
| | | | - A. M. van den Berg
- />KVI - Center for Advanced Radiation Technology, University of Groningen, Groningen, Netherlands
| | - S. van Velzen
- />IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
| | | | - E. Varela
- />Benemérita Universidad Autónoma de Puebla, Puebla, Mexico
| | | | - G. Varner
- />University of Hawaii, Honolulu, HI USA
| | | | - R. A. Vázquez
- />Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | - D. Veberič
- />Laboratoire de l’Accélérateur Linéaire (LAL), Université Paris 11, CNRS-IN2P3, Orsay, France
| | - V. Verzi
- />Università di Roma II “Tor Vergata” and Sezione INFN, Roma, Italy
| | - J. Vicha
- />Institute of Physics of the Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - M. Videla
- />Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - L. Villaseñor
- />Universidad Michoacana de San Nicolas de Hidalgo, Morelia, Michoacan Mexico
| | - B. Vlcek
- />Universidad de Alcalá, Alcalá de Henares, Madrid Spain
| | - S. Vorobiov
- />Laboratory for Astroparticle Physics, University of Nova Gorica, Nova Gorica, Slovenia
| | - H. Wahlberg
- />IFLP, Universidad Nacional de La Plata and CONICET, La Plata, Argentina
| | - O. Wainberg
- />Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
- />Universidad Tecnológica Nacional - Facultad Regional Buenos Aires, Buenos Aires, Argentina
| | - D. Walz
- />RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - A. A. Watson
- />School of Physics and Astronomy, University of Leeds, Leeds, UK
| | - M. Weber
- />Karlsruhe Institute of Technology - Campus North - Institut für Prozessdatenverarbeitung und Elektronik, Karlsruhe, Germany
| | - K. Weidenhaupt
- />RWTH Aachen University, III. Physikalisches Institut A, Aachen, Germany
| | - A. Weindl
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - F. Werner
- />Karlsruhe Institute of Technology - Campus South - Institut für Experimentelle, Kernphysik (IEKP), Karlsruhe, Germany
| | - A. Widom
- />Northeastern University, Boston, MA USA
| | - L. Wiencke
- />Colorado School of Mines, Golden, CO USA
| | | | | | - M. Will
- />Karlsruhe Institute of Technology - Campus North - Institut für Kernphysik, Karlsruhe, Germany
| | - C. Williams
- />Enrico Fermi Institute, University of Chicago, Chicago, IL USA
| | - T. Winchen
- />Bergische Universität Wuppertal, Wuppertal, Germany
| | - D. Wittkowski
- />Bergische Universität Wuppertal, Wuppertal, Germany
| | - B. Wundheiler
- />Instituto de Tecnologías en Detección y Astropartículas (CNEA, CONICET, UNSAM), Buenos Aires, Argentina
| | - S. Wykes
- />IMAPP, Radboud University Nijmegen, Nijmegen, Netherlands
| | - T. Yamamoto
- />Enrico Fermi Institute, University of Chicago, Chicago, IL USA
| | - T. Yapici
- />Michigan Technological University, Houghton, MI USA
| | - G. Yuan
- />Louisiana State University, Baton Rouge, LA USA
| | | | - B. Zamorano
- />Universidad de Granada and C.A.F.P.E., Granada, Spain
| | - E. Zas
- />Universidad de Santiago de Compostela, Santiago de Compostela, Spain
| | - D. Zavrtanik
- />Experimental Particle Physics Department, J. Stefan Institute, Ljubljana, Slovenia
- />Laboratory for Astroparticle Physics, University of Nova Gorica, Nova Gorica, Slovenia
| | - M. Zavrtanik
- />Experimental Particle Physics Department, J. Stefan Institute, Ljubljana, Slovenia
- />Laboratory for Astroparticle Physics, University of Nova Gorica, Nova Gorica, Slovenia
| | - I. Zaw
- />New York University, New York, NY USA
| | - A. Zepeda
- />Centro de Investigación y de Estudios Avanzados del IPN (CINVESTAV), Mexico, Mexico
| | - J. Zhou
- />Enrico Fermi Institute, University of Chicago, Chicago, IL USA
| | - Y. Zhu
- />Karlsruhe Institute of Technology - Campus North - Institut für Prozessdatenverarbeitung und Elektronik, Karlsruhe, Germany
| | | | | | - F. Zuccarello
- />Università di Catania and Sezione INFN, Catania, Italy
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Blombach F, Salvadori E, Fouqueau T, Yan J, Reimann J, Sheppard C, Smollett KL, Albers SV, Kay CWM, Thalassinos K, Werner F. Archaeal TFEα/β is a hybrid of TFIIE and the RNA polymerase III subcomplex hRPC62/39. eLife 2015; 4:e08378. [PMID: 26067235 PMCID: PMC4495717 DOI: 10.7554/elife.08378] [Citation(s) in RCA: 42] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2015] [Accepted: 06/11/2015] [Indexed: 01/01/2023] Open
Abstract
Transcription initiation of archaeal RNA polymerase (RNAP) and eukaryotic RNAPII is assisted by conserved basal transcription factors. The eukaryotic transcription factor TFIIE consists of α and β subunits. Here we have identified and characterised the function of the TFIIEβ homologue in archaea that on the primary sequence level is related to the RNAPIII subunit hRPC39. Both archaeal TFEβ and hRPC39 harbour a cubane 4Fe-4S cluster, which is crucial for heterodimerization of TFEα/β and its engagement with the RNAP clamp. TFEα/β stabilises the preinitiation complex, enhances DNA melting, and stimulates abortive and productive transcription. These activities are strictly dependent on the β subunit and the promoter sequence. Our results suggest that archaeal TFEα/β is likely to represent the evolutionary ancestor of TFIIE-like factors in extant eukaryotes.
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Affiliation(s)
- Fabian Blombach
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, London, United Kingdom
| | - Enrico Salvadori
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, London, United Kingdom
| | - Thomas Fouqueau
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, London, United Kingdom
| | - Jun Yan
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, London, United Kingdom
| | - Julia Reimann
- Molecular Biology of Archaea Group, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany
| | - Carol Sheppard
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, London, United Kingdom
| | - Katherine L Smollett
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, London, United Kingdom
| | - Sonja V Albers
- Molecular Biology of Archaea Group, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany
| | - Christopher W M Kay
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, London, United Kingdom
| | - Konstantinos Thalassinos
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, London, United Kingdom
| | - Finn Werner
- Institute for Structural and Molecular Biology, Division of Biosciences, University College London, London, United Kingdom
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