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Williams LM, McCann FE, Cabrita MA, Layton T, Cribbs A, Knezevic B, Fang H, Knight J, Zhang M, Fischer R, Bonham S, Steenbeek LM, Yang N, Sood M, Bainbridge C, Warwick D, Harry L, Davidson D, Xie W, Sundstrӧm M, Feldmann M, Nanchahal J. Identifying collagen VI as a target of fibrotic diseases regulated by CREBBP/EP300. Proc Natl Acad Sci U S A 2020; 117:20753-20763. [PMID: 32759223 PMCID: PMC7456151 DOI: 10.1073/pnas.2004281117] [Citation(s) in RCA: 41] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023] Open
Abstract
Fibrotic diseases remain a major cause of morbidity and mortality, yet there are few effective therapies. The underlying pathology of all fibrotic conditions is the activity of myofibroblasts. Using cells from freshly excised disease tissue from patients with Dupuytren's disease (DD), a localized fibrotic disorder of the palm, we sought to identify new therapeutic targets for fibrotic disease. We hypothesized that the persistent activity of myofibroblasts in fibrotic diseases might involve epigenetic modifications. Using a validated genetics-led target prioritization algorithm (Pi) of genome wide association studies (GWAS) data and a broad screen of epigenetic inhibitors, we found that the acetyltransferase CREBBP/EP300 is a major regulator of contractility and extracellular matrix production via control of H3K27 acetylation at the profibrotic genes, ACTA2 and COL1A1 Genomic analysis revealed that EP300 is highly enriched at enhancers associated with genes involved in multiple profibrotic pathways, and broad transcriptomic and proteomic profiling of CREBBP/EP300 inhibition by the chemical probe SGC-CBP30 identified collagen VI (Col VI) as a prominent downstream regulator of myofibroblast activity. Targeted Col VI knockdown results in significant decrease in profibrotic functions, including myofibroblast contractile force, extracellular matrix (ECM) production, chemotaxis, and wound healing. Further evidence for Col VI as a major determinant of fibrosis is its abundant expression within Dupuytren's nodules and also in the fibrotic foci of idiopathic pulmonary fibrosis (IPF). Thus, Col VI may represent a tractable therapeutic target across a range of fibrotic disorders.
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Thompson AG, Gray E, Mäger I, Thézénas ML, Charles PD, Talbot K, Fischer R, Kessler BM, Wood M, Turner MR. CSF extracellular vesicle proteomics demonstrates altered protein homeostasis in amyotrophic lateral sclerosis. Clin Proteomics 2020; 17:31. [PMID: 32821252 PMCID: PMC7433176 DOI: 10.1186/s12014-020-09294-7] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2020] [Accepted: 08/07/2020] [Indexed: 02/06/2023] Open
Abstract
Background Extracellular vesicles (EVs) released by neurons and glia reach the cerebrospinal fluid (CSF). Studying the proteome of CSF-derived EVs offers a novel perspective on the key intracellular processes associated with the pathogenesis of the neurodegenerative disease amyotrophic lateral sclerosis (ALS) and a potential source from which to develop biomarkers. Methods CSF EVs were extracted using ultrafiltration liquid chromatography from ALS patients and controls. EV size distribution and concentration was measured using nanoparticle tracking analysis and liquid chromatography-tandem mass spectrometry proteomic analysis performed. Results CSF EV concentration and size distribution did not differ between ALS and control groups, nor between a sub-group of ALS patients with or without an associated hexanucleotide repeat expansion (HRE) in C9orf72. Univariate proteomic analysis identified downregulation of the pentameric proteasome-like protein Bleomycin hydrolase in ALS patients, whilst Gene Ontology enrichment analysis demonstrated downregulation of proteasome core complex proteins (8/8 proteins, normalized enrichment ratio -1.77, FDR-adjusted p = 0.057) in the ALS group. The sub-group of ALS patients associated with the C9orf72 HRE showed upregulation in Ubiquitin-like modifying-activating protein 1 (UBA1) compared to non-C9orf72 cases. Conclusions Proteomic analysis of CSF EVs in ALS detects intracellular alterations in protein homeostatic mechanisms, previously only identified in pathological tissues. This supports the wider use of CSF EVs as a source of novel biomarkers reflecting key and potentially druggable pathological intracellular pathway alterations in ALS.
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MS, Triossi A, Willmott C, Albajar C, de Trocóniz JF, Cuevas J, Erice C, Menendez JF, Folgueras S, Caballero IG, Fernández JRG, Cortezon EP, Bouza VR, Cruz SS, Cabrillo IJ, Calderon A, Quero BC, Campderros JD, Fernandez M, Manteca PJF, Alonso AG, Gomez G, Rivero CM, del Arbol PMR, Matorras F, Gomez JP, Prieels C, Rodrigo T, Ruiz-Jimeno A, Scodellaro L, Trevisani N, Vila I, Garcia JMV, Sonnadara DUJ, Dharmaratna WGD, Wickramage N, Abbaneo D, Akgun B, Auffray E, Auzinger G, Baechler J, Baillon P, Ball AH, Barney D, Bendavid J, Bianco M, Bocci A, Bossini E, Botta C, Brondolin E, Camporesi T, Caratelli A, Cerminara G, Chapon E, Cucciati G, d’Enterria D, Dabrowski A, Daci N, Daponte V, David A, De Roeck A, Deelen N, Deile M, Dobson M, Dünser M, Dupont N, Elliott-Peisert A, Fallavollita F, Fasanella D, Franzoni G, Fulcher J, Funk W, Giani S, Gigi D, Gilbert A, Gill K, Glege F, Gruchala M, Guilbaud M, Gulhan D, Hegeman J, Heidegger C, Iiyama Y, Innocente V, Jafari A, Janot P, Karacheban O, Kaspar J, Kieseler J, Krammer M, Lange C, Lecoq P, Lourenço C, Malgeri L, Mannelli M, Massironi A, Meijers F, Merlin JA, Mersi S, Meschi E, Moortgat F, Mulders M, Ngadiuba J, Nourbakhsh S, Orfanelli S, Orsini L, Pantaleo F, Pape L, Perez E, Peruzzi M, Petrilli A, Petrucciani G, Pfeiffer A, Pierini M, Pitters FM, Quinto M, Rabady D, Racz A, Rovere M, Sakulin H, Schäfer C, Schwick C, Selvaggi M, Sharma A, Silva P, Snoeys W, Sphicas P, Steggemann J, Tavolaro VR, Treille D, Tsirou A, Vartak A, Verzetti M, Zeuner WD, Caminada L, Deiters K, Erdmann W, Horisberger R, Ingram Q, Kaestli HC, Kotlinski D, Langenegger U, Rohe T, Wiederkehr SA, Backhaus M, Berger P, Chernyavskaya N, Dissertori G, Dittmar M, Donegà M, Dorfer C, Gómez Espinosa TA, Grab C, Hits D, Klijnsma T, Lustermann W, Manzoni RA, Marionneau M, Meinhard MT, Micheli F, Musella P, Nessi-Tedaldi F, Pauss F, Perrin G, Perrozzi L, Pigazzini S, Reichmann M, Reissel C, Reitenspiess T, Ruini D, Becerra DAS, Schönenberger M, Shchutska L, Olsson MLV, Wallny R, Zhu DH, Aarrestad TK, Amsler C, Brzhechko D, Canelli MF, De Cosa A, Del Burgo R, Donato S, Galloni C, Kilminster B, Leontsinis S, Mikuni VM, Neutelings I, Rauco G, Robmann P, Salerno D, Schweiger K, Seitz C, Takahashi Y, Wertz S, Zucchetta A, Doan TH, Kuo CM, Lin W, Yu SS, Chang P, Chao Y, Chen KF, Chen PH, Hou WS, Li YY, Lu RS, Paganis E, Psallidas A, Steen A, Asavapibhop B, Srimanobhas N, Suwonjandee N, Bakirci MN, Bat A, Boran F, Damarseckin S, Demiroglu ZS, Dolek F, Dozen C, Dumanoglu I, Girgis S, Gokbulut G, Guler E, Guler Y, Hos I, Isik C, Kangal EE, Kara O, Topaksu AK, Kiminsu U, Oglakci M, Onengut G, Ozdemir K, Simsek AE, Cerci DS, Tok UG, Turkcapar S, Zorbakir IS, Zorbilmez C, Isildak B, Karapinar G, Yalvac M, Atakisi IO, Gülmez E, Kaya M, Kaya O, Kaynak B, Özçelik Ö, Ozkorucuklu S, Tekten S, Yetkin EA, Cakir A, Cankocak K, Komurcu Y, Sen S, Grynyov B, Levchuk L, Ball F, Bhal E, Bologna S, Brooke JJ, Burns D, Clement E, Cussans D, Davignon O, Flacher H, Goldstein J, Heath GP, Heath HF, Kreczko L, Paramesvaran S, Penning B, Sakuma T, Nasr-Storey SSE, Smith D, Smith VJ, Taylor J, Titterton A, Bell KW, Belyaev A, Brew C, Brown RM, Cieri D, Cockerill DJA, Coughlan JA, Harder K, Harper S, Linacre J, Manolopoulos K, Newbold DM, Olaiya E, Petyt D, Reis T, Schuh T, Shepherd-Themistocleous CH, Thea A, Tomalin IR, Williams T, Womersley WJ, Bainbridge R, Bloch P, Borg J, Breeze S, Buchmuller O, Bundock A, CHAHAL G, Colling D, Dauncey P, Davies G, Della Negra M, Di Maria R, Everaerts P, Hall G, Iles G, James T, Komm M, Laner C, Lyons L, Magnan AM, Malik S, Martelli A, Milosevic V, Nash J, Palladino V, Pesaresi M, Raymond DM, Richards A, Rose A, Scott E, Seez C, Shtipliyski A, Stoye M, Strebler T, Summers S, Tapper A, Uchida K, Virdee T, Wardle N, Winterbottom D, Wright J, Zecchinelli AG, Zenz SC, Cole JE, Hobson PR, Khan A, Kyberd P, Mackay CK, Morton A, Reid ID, Teodorescu L, Zahid S, Call K, Dittmann J, Hatakeyama K, Madrid C, McMaster B, Pastika N, Smith C, Bartek R, Dominguez A, Uniyal R, Buccilli A, Cooper SI, Henderson C, Rumerio P, West C, Arcaro D, Bose T, Demiragli Z, Gastler D, Girgis S, Pinna D, Richardson C, Rohlf J, Sperka D, Suarez I, Sulak L, Zou D, Benelli G, Burkle B, Coubez X, Cutts D, Hadley M, Hakala J, Heintz U, Hogan JM, Kwok KHM, Laird E, Landsberg G, Lee J, Mao Z, Narain M, Sagir S, Syarif R, Usai E, Yu D, Band R, Brainerd C, Breedon R, De La Barca Sanchez MC, Chertok M, Conway J, Conway R, Cox PT, Erbacher R, Flores C, Funk G, Jensen F, Ko W, Kukral O, Lander R, Mulhearn M, Pellett D, Pilot J, Shi M, Stolp D, Taylor D, Tos K, Tripathi M, Wang Z, Zhang F, Bachtis M, Bravo C, Cousins R, Dasgupta A, Florent A, Hauser J, Ignatenko M, Mccoll N, Regnard S, Saltzberg D, Schnaible C, Valuev V, Burt K, Clare R, Gary JW, Shirazi SMAG, Hanson G, Karapostoli G, Kennedy E, Long OR, Negrete MO, Paneva MI, Si W, Wang L, Wei H, Wimpenny S, Yates BR, Zhang Y, Branson JG, Chang P, Cittolin S, Derdzinski M, Gerosa R, Gilbert D, Hashemi B, Klein D, Krutelyov V, Letts J, Masciovecchio M, May S, Padhi S, Pieri M, Sharma V, Tadel M, Würthwein F, Yagil A, Della Porta GZ, Amin N, Bhandari R, Campagnari C, Citron M, Dutta V, Sevilla MF, Gouskos L, Incandela J, Marsh B, Mei H, Ovcharova A, Qu H, Richman J, Sarica U, Stuart D, Wang S, Yoo J, Anderson D, Bornheim A, Lawhorn JM, Lu N, Newman HB, Nguyen TQ, Pata J, Spiropulu M, Vlimant JR, Xie S, Zhang Z, Zhu RY, Andrews MB, Ferguson T, Mudholkar T, Paulini M, Sun M, Vorobiev I, Weinberg M, Cumalat JP, Ford WT, Johnson A, MacDonald E, Mulholland T, Patel R, Perloff A, Stenson K, Ulmer KA, Wagner SR, Alexander J, Chaves J, Cheng Y, Chu J, Datta A, Frankenthal A, Mcdermott K, Mirman N, Patterson JR, Quach D, Rinkevicius A, Ryd A, Tan SM, Tao Z, Thom J, Wittich P, Zientek M, Abdullin S, Albrow M, Alyari M, Apollinari G, Apresyan A, Apyan A, Banerjee S, Bauerdick LAT, Beretvas A, Berryhill J, Bhat PC, Burkett K, Butler JN, Canepa A, Cerati GB, Cheung HWK, Chlebana F, Cremonesi M, Duarte J, Elvira VD, Freeman J, Gecse Z, Gottschalk E, Gray L, Green D, Grünendahl S, Gutsche O, Hall A, Hanlon J, Harris RM, Hasegawa S, Heller R, Hirschauer J, Jayatilaka B, Jindariani S, Johnson M, Joshi U, Klima B, Kortelainen MJ, Kreis B, Lammel S, Lewis J, Lincoln D, Lipton R, Liu M, Liu T, Lykken J, Maeshima K, Marraffino JM, Mason D, McBride P, Merkel P, Mrenna S, Nahn S, O’Dell V, Papadimitriou V, Pedro K, Pena C, Rakness G, Ravera F, Ristori L, Schneider B, Sexton-Kennedy E, Smith N, Soha A, Spalding WJ, Spiegel L, Stoynev S, Strait J, Strobbe N, Taylor L, Tkaczyk S, Tran NV, Uplegger L, Vaandering EW, Vernieri C, Verzocchi M, Vidal R, Wang M, Weber HA, Acosta D, Avery P, Bortignon P, Bourilkov D, Brinkerhoff A, Cadamuro L, Carnes A, Cherepanov V, Curry D, Errico F, Field RD, Gleyzer SV, Joshi BM, Kim M, Konigsberg J, Korytov A, Lo KH, Ma P, Matchev K, Menendez N, Mitselmakher G, Rosenzweig D, Shi K, Wang J, Wang S, Zuo X, Joshi YR, Adams T, Askew A, Hagopian S, Hagopian V, Johnson KF, Khurana R, Kolberg T, Martinez G, Perry T, Prosper H, Schiber C, Yohay R, Zhang J, Baarmand MM, Bhopatkar V, Butalla S, Hohlmann M, Noonan D, Rahmani M, Saunders M, Yumiceva F, Adams MR, Apanasevich L, Berry D, Betts RR, Cavanaugh R, Chen X, Dittmer S, Evdokimov O, Gerber CE, Hangal DA, Hofman DJ, Jung K, Mills C, Roy T, Tonjes MB, Varelas N, Wang H, Wang X, Wu Z, Alhusseini M, Bilki B, Clarida W, Dilsiz K, Durgut S, Gandrajula RP, Haytmyradov M, Khristenko V, Köseyan OK, Merlo JP, Mestvirishvili A, Moeller A, Nachtman J, Ogul H, Onel Y, Ozok F, Penzo A, Snyder C, Tiras E, Wetzel J, Blumenfeld B, Cocoros A, Eminizer N, Fehling D, Feng L, Gritsan AV, Hung WT, Maksimovic P, Roskes J, Swartz M, Xiao M, Barrera CB, Baringer P, Bean A, Boren S, Bowen J, Bylinkin A, Isidori T, Khalil S, King J, Kropivnitskaya A, Lindsey C, Majumder D, Mcbrayer W, Minafra N, Murray M, Rogan C, Royon C, Sanders S, Schmitz E, Takaki JDT, Wang Q, Williams J, Duric S, Ivanov A, Kaadze K, Kim D, Maravin Y, Mendis DR, Mitchell T, Modak A, Mohammadi A, Rebassoo F, Wright D, Baden A, Baron O, Belloni A, Eno SC, Feng Y, Hadley NJ, Jabeen S, Jeng GY, Kellogg RG, Kunkle J, Mignerey AC, Nabili S, Ricci-Tam F, Seidel M, Shin YH, Skuja A, Tonwar SC, Wong K, Abercrombie D, Allen B, Baty A, Bi R, Brandt S, Busza W, Cali IA, D’Alfonso M, Ceballos GG, Goncharov M, Harris P, Hsu D, Hu M, Klute M, Kovalskyi D, Lee YJ, Luckey PD, Maier B, Marini AC, Mcginn C, Mironov C, Narayanan S, Niu X, Paus C, Rankin D, Roland C, Roland G, Shi Z, Stephans GSF, Sumorok K, Tatar K, Velicanu D, Wang J, Wang TW, Wyslouch B, Benvenuti AC, Chatterjee RM, Evans A, Guts S, Hansen P, Hiltbrand J, Jain S, Kalafut S, Kubota Y, Lesko Z, Mans J, Rusack R, Wadud MA, Acosta JG, Oliveros S, Bloom K, Claes DR, Fangmeier C, Finco L, Golf F, Suarez RG, Kamalieddin R, Kravchenko I, Siado JE, Snow GR, Stieger B, Harrington C, Iashvili I, Kharchilava A, Mclean C, Nguyen D, Parker A, Rappoccio S, Roozbahani B, Alverson G, Barberis E, Freer C, Haddad Y, Hortiangtham A, Madigan G, Morse DM, Orimoto T, Skinnari L, Tishelman-Charny A, Wamorkar T, Wang B, Wisecarver A, Wood D, Bhattacharya S, Bueghly J, Gunter T, Hahn KA, Odell N, Schmitt MH, Sung K, Trovato M, Velasco M, Bucci R, Dev N, Goldouzian R, Hildreth M, Anampa KH, Jessop C, Karmgard DJ, Lannon K, Li W, Loukas N, Marinelli N, Mcalister I, Meng F, Mueller C, Musienko Y, Planer M, Ruchti R, Siddireddy P, Smith G, Taroni S, Wayne M, Wightman A, Wolf M, Woodard A, Alimena J, Bylsma B, Durkin LS, Flowers S, Francis B, Hill C, Ji W, Lefeld A, Ling TY, Winer BL, Cooperstein S, Dezoort G, Elmer P, Hardenbrook J, Haubrich N, Higginbotham S, Kalogeropoulos A, Kwan S, Lange D, Lucchini MT, Luo J, Marlow D, Mei K, Ojalvo I, Olsen J, Palmer C, Piroué P, Salfeld-Nebgen J, Stickland D, Tully C, Wang Z, Malik S, Norberg S, Barker A, Barnes VE, Das S, Gutay L, Jones M, Jung AW, Khatiwada A, Mahakud B, Miller DH, Negro G, Neumeister N, Peng CC, Piperov S, Qiu H, Schulte JF, Sun J, Wang F, Xiao R, Xie W, Cheng T, Dolen J, Parashar N, Ecklund KM, Freed S, Geurts FJM, Kilpatrick M, Kumar A, Li W, Padley BP, Redjimi R, Roberts J, Rorie J, Shi W, Leiton AGS, Tu Z, Zhang A, Bodek A, de Barbaro P, Demina R, Duh YT, Dulemba JL, Fallon C, Galanti M, Garcia-Bellido A, Han J, Hindrichs O, Khukhunaishvili A, Ranken E, Tan P, Taus R, Ciesielski R, Chiarito B, Chou JP, Gandrakota A, Gershtein Y, Halkiadakis E, Hart A, Heindl M, Hughes E, Kaplan S, Kyriacou S, Laflotte I, Lath A, Montalvo R, Nash K, Osherson M, Saka H, Salur S, Schnetzer S, Sheffield D, Somalwar S, Stone R, Thomas S, Thomassen P, Acharya H, Delannoy AG, Heideman J, Riley G, Spanier S, Bouhali O, Celik A, Dalchenko M, De Mattia M, Delgado A, Dildick S, Eusebi R, Gilmore J, Huang T, Kamon T, Luo S, Marley D, Mueller R, Overton D, Perniè L, Rathjens D, Safonov A, Akchurin N, Damgov J, De Guio F, Kunori S, Lamichhane K, Lee SW, Mengke T, Muthumuni S, Peltola T, Undleeb S, Volobouev I, Wang Z, Whitbeck A, Greene S, Gurrola A, Janjam R, Johns W, Maguire C, Melo A, Ni H, Padeken K, Romeo F, Sheldon P, Tuo S, Velkovska J, Verweij M, Arenton MW, Barria P, Cox B, Cummings G, Hirosky R, Joyce M, Ledovskoy A, Neu C, Tannenwald B, Wang Y, Wolfe E, Xia F, Harr R, Karchin PE, Poudyal N, Sturdy J, Thapa P, Zaleski S, Buchanan J, Caillol C, Carlsmith D, Dasu S, De Bruyn I, Dodd L, Gomber B, Herndon M, Hervé A, Hussain U, Klabbers P, Lanaro A, Loeliger A, Long K, Loveless R, Sreekala JM, Ruggles T, Savin A, Sharma V, Smith WH, Teague D, Trembath-reichert S, Woods N. Study of central exclusive production in proton-proton collisions at s = 5.02 and 13TeV. THE EUROPEAN PHYSICAL JOURNAL. C, PARTICLES AND FIELDS 2020; 80:718. [PMID: 32834020 PMCID: PMC7418521 DOI: 10.1140/epjc/s10052-020-8166-5] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/05/2020] [Accepted: 06/17/2020] [Indexed: 06/11/2023]
Abstract
Central exclusive and semiexclusive production of pairs is measured with the CMS detector in proton-proton collisions at the LHC at center-of-mass energies of 5.02 and 13TeV. The theoretical description of these nonperturbative processes, which have not yet been measured in detail at the LHC, poses a significant challenge to models. The two pions are measured and identified in the CMS silicon tracker based on specific energy loss, whereas the absence of other particles is ensured by calorimeter information. The total and differential cross sections of exclusive and semiexclusive central production are measured as functions of invariant mass, transverse momentum, and rapidity of the system in the fiducial region defined as transverse momentum and pseudorapidity . The production cross sections for the four resonant channels , , , and are extracted using a simple model. These results represent the first measurement of this process at the LHC collision energies of 5.02 and 13TeV.
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Grants
- Austrian Federal Ministry of Education, Science, and Research
- Austrian Science Fund
- Belgian Fonds de la Recherche Scientifique
- Belgian Fonds voor Wetenschappelijk Onderzoek
- CNPq
- CAPES
- FAPERJ
- FAPERGS
- FAPESP
- Bulgarian Ministry of Education and Science
- CERN
- Chinese Academy of Sciences
- Ministry of Science and Technology
- Chinese National Natural Science Foundation of China
- Colombian Funding Agency (COLCIENCIAS)
- Croatian Ministry of Science, Education and Sport
- Croatian Science Foundation
- Research Promotion Foundation
- SENESCYT
- Ministry of Education and Research
- Estonian Research Council via PRG780, PRG803, and PRG445
- European Regional Development Fund
- Academy of Finland
- Finnish Ministry of Education and Culture
- Helsinki Institute of Physics
- Institut National de Physique Nucléaire et de Physique des Particules
- Centre National de la Recherche Scientifique
- Commissariat à l’Énergie Atomique et aux Énergies Alternatives
- Bundesministerium für Bildung und Forschung
- Deutsche Forschungsgemeinschaft
- Helmholtz-Gemeinschaft Deutscher Forschungszentren
- General Secretariat for Research and Technology
- National Research, Development and Innovation Fund
- Department of Atomic Energy
- Department of Science and Technology
- Institute for Research in Fundamental Studies
- Science Foundation
- Istituto Nazionale di Fisica Nucleare
- Korean Ministry of Education, Science and Technology
- National Research Foundation of Korea (NRF)
- MES
- Lithuanian Academy of Sciences
- Ministry of Education
- University of Malaya
- BUAP
- CINVESTAV
- CONACYT
- LNS
- SEP
- UASLP
- MOS
- Ministry of Business, Innovation and Employment
- Pakistan Atomic Energy Commission
- Ministry of Science and Higher Education
- National Science Centre
- Fundação para a Ciência e a Tecnologia
- JINR, Dubna
- Ministry of Education and Science of the Russian Federation
- Federal Agency of Atomic Energy of the Russian Federation
- Russian Academy of Sciences
- Russian Foundation for Basic Research
- National Research Center “Kurchatov Institute"
- Ministry of Education, Science and Technological Development of Serbia
- Secretaría de Estado de Investigación, Desarrollo e Innovación
- Programa Consolider-Ingenio 2010
- Plan de Ciencia, Tecnología e Innovación 2017-2020 del Principado de Asturias research project IDI-2018-000174
- Fondo Europeo de Desarrollo Regional, Spain
- MOSTR
- ETH Board
- ETH Zurich
- PSI
- SNF
- UniZH
- Canton Zurich
- SER
- Ministry of Science and Technology
- Thailand Center of Excellence in Physics
- Institute for the Promotion of Teaching Science and Technology of Thailand
- Special Task Force for Activating Research
- National Science and Technology Development Agency of Thailand
- Scientific and Technical Research Council of Turkey
- Turkish Atomic Energy Authority
- National Academy of Sciences of Ukraine
- Science and Technology Facilities Council
- US Department of Energy
- US National Science Foundation
- Marie-Curie programme
- European Research Council and EPLANET (European Union)
- Horizon 2020 Grant, contract Nos. 675440, 752730, and 765710 (European Union)
- Leventis Foundation
- Alfred P. Sloan Foundation
- Alexander von Humboldt Foundation
- Belgian Federal Science Policy Office
- Fonds pour la Formation à la Recherche dans l’Industrie et dans l’Agriculture (FRIA-Belgium)
- Agentschap voor Innovatie door Wetenschap en Technologie (IWT-Belgium)
- Belgian Fonds de la Recherche Scientifique, "Excellence of Science - EOS" - be.h project n. 30820817
- Belgian Fonds voor Wetenschappelijk Onderzoek, "Excellence of Science - EOS" - be.h project n. 30820817
- Beijing Municipal Science & Technology Commission No. Z181100004218003
- Ministry of Education, Youth and Sports (MEYS) of the Czech Republic
- Deutsche Forschungsgemeinschaft (DFG) under Germany’s Excellence Strategy - EXC 2121 “Quantum Universe” – 390833306
- Lendúlet ("Momentum") Programme and the János Bolyai Research Scholarship of the Hungarian Academy of Sciences
- New National Excellence Program ÚNKP, the NKFIA research grants 123842, 123959, 124845, 124850and, 125105, 128713, 128786, and 129058
- Council of Scientific and Industrial Research, India
- HOMING PLUS programme of Foundation for Polish Science, cofinanced from European Union, Regional Development Fund
- National Science Center, contracts Harmonia 2014/14/M/ST2/00428, Opus 2014/13/B/ST2/02543, 2014/15/B/ST2/03998, and 2015/19/B/ST2/02861, Sonata-bis 2012/07/E/ST2/01406
- National Priorities Research Program by Qatar National Research Fund
- Ministry of Science and Education, grant no. 14.W03.31.0026
- Tomsk Polytechnic University Competitiveness Enhancement Program and “Nauka" Project FSWW-2020-0008
- Programa Estatal de Fomento de la Investigación Científica y Técnica de Excelencia María de Maeztu, grant MDM-2015-0509
- Programa Severo Ochoa del Principado de Asturias
- Thalis and Aristeia programmes cofinanced by EU-ESF and the Greek NSRF
- Rachadapisek Sompot Fund for Postdoctoral Fellowship, Chulalongkorn University (Thailand)
- CUAASC
- Kavli Foundation
- Nvidia Corporation
- Welch Foundation, contract C-1845
- Weston Havens Foundation
- See spreadsheet included with submission
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van de Weijer ML, Krshnan L, Liberatori S, Guerrero EN, Robson-Tull J, Hahn L, Lebbink RJ, Wiertz EJHJ, Fischer R, Ebner D, Carvalho P. Quality Control of ER Membrane Proteins by the RNF185/Membralin Ubiquitin Ligase Complex. Mol Cell 2020; 79:768-781.e7. [PMID: 32738194 PMCID: PMC7482433 DOI: 10.1016/j.molcel.2020.07.009] [Citation(s) in RCA: 35] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2019] [Revised: 05/06/2020] [Accepted: 07/07/2020] [Indexed: 12/16/2022]
Abstract
Misfolded proteins in the endoplasmic reticulum (ER) are degraded by ER-associated degradation (ERAD). Although ERAD components involved in degradation of luminal substrates are well characterized, much less is known about quality control of membrane proteins. Here, we analyzed the degradation pathways of two short-lived ER membrane model proteins in mammalian cells. Using a CRISPR-Cas9 genome-wide library screen, we identified an ERAD branch required for quality control of a subset of membrane proteins. Using biochemical and mass spectrometry approaches, we showed that this ERAD branch is defined by an ER membrane complex consisting of the ubiquitin ligase RNF185, the ubiquitin-like domain containing proteins TMUB1/2 and TMEM259/Membralin, a poorly characterized protein. This complex cooperates with cytosolic ubiquitin ligase UBE3C and p97 ATPase in degrading their membrane substrates. Our data reveal that ERAD branches have remarkable specificity for their membrane substrates, suggesting that multiple, perhaps combinatorial, determinants are involved in substrate selection. The RNF185 ubiquitin ligase, Membralin, and TMUB1/2 assemble into an ERAD complex RNF185/Membralin complex targets membrane proteins, including CYP51A1 and TMUB2 RNF185/Membralin and TEB4 ERAD complexes recognize distinct substrate features TEB4 ERAD complex recognizes substrates through their transmembrane domain
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105
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Sepil I, Hopkins BR, Dean R, Bath E, Friedman S, Swanson B, Ostridge HJ, Harper L, Buehner NA, Wolfner MF, Konietzny R, Thézénas ML, Sandham E, Charles PD, Fischer R, Steinhauer J, Kessler BM, Wigby S. Male reproductive aging arises via multifaceted mating-dependent sperm and seminal proteome declines, but is postponable in Drosophila. Proc Natl Acad Sci U S A 2020; 117:17094-17103. [PMID: 32611817 PMCID: PMC7382285 DOI: 10.1073/pnas.2009053117] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022] Open
Abstract
Declining ejaculate performance with male age is taxonomically widespread and has broad fitness consequences. Ejaculate success requires fully functional germline (sperm) and soma (seminal fluid) components. However, some aging theories predict that resources should be preferentially diverted to the germline at the expense of the soma, suggesting differential impacts of aging on sperm and seminal fluid and trade-offs between them or, more broadly, between reproduction and lifespan. While harmful effects of male age on sperm are well known, we do not know how much seminal fluid deteriorates in comparison. Moreover, given the predicted trade-offs, it remains unclear whether systemic lifespan-extending interventions could ameliorate the declining performance of the ejaculate as a whole. Here, we address these problems using Drosophila melanogaster. We demonstrate that seminal fluid deterioration contributes to male reproductive decline via mating-dependent mechanisms that include posttranslational modifications to seminal proteins and altered seminal proteome composition and transfer. Additionally, we find that sperm production declines chronologically with age, invariant to mating activity such that older multiply mated males become infertile principally via reduced sperm transfer and viability. Our data, therefore, support the idea that both germline and soma components of the ejaculate contribute to male reproductive aging but reveal a mismatch in their aging patterns. Our data do not generally support the idea that the germline is prioritized over soma, at least, within the ejaculate. Moreover, we find that lifespan-extending systemic down-regulation of insulin signaling results in improved late-life ejaculate performance, indicating simultaneous amelioration of both somatic and reproductive aging.
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106
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Thanh TT, Casals-Pascual C, Ny NTH, Ngoc NM, Geskus R, Nhu LNT, Hong NTT, Duc DT, Thu DDA, Uyen PN, Ngoc VB, Chau LTM, Quynh VX, Hanh NHH, Thuong NTT, Diem LT, Hanh BTB, Hang VTT, Oanh PKN, Fischer R, Phu NH, Nghia HDT, Chau NVV, Hoa NT, Kessler BM, Thwaites G, Tan LV. Value of lipocalin 2 as a potential biomarker for bacterial meningitis. Clin Microbiol Infect 2020; 27:S1198-743X(20)30408-0. [PMID: 32659386 PMCID: PMC8128987 DOI: 10.1016/j.cmi.2020.07.006] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2020] [Revised: 06/30/2020] [Accepted: 07/04/2020] [Indexed: 12/16/2022]
Abstract
OBJECTIVES Central nervous system (CNS) infections are common causes of morbidity and mortality worldwide. We aimed to discover protein biomarkers that could rapidly and accurately identify the likely cause of the infections, essential for clinical management and improving outcome. METHODS We applied liquid chromatography tandem mass spectrometry on 45 cerebrospinal fluid (CSF) samples from a cohort of adults with and without CNS infections to discover potential diagnostic biomarkers. We then validated the diagnostic performance of a selected biomarker candidate in an independent cohort of 364 consecutively treated adults with CNS infections admitted to a referral hospital in Vietnam. RESULTS In the discovery cohort, we identified lipocalin 2 (LCN2) as a potential biomarker of bacterial meningitis (BM) other than tuberculous meningitis. The analysis of the validation cohort showed that LCN2 could discriminate BM from other CNS infections (including tuberculous meningitis, cryptococcal meningitis and virus/antibody-mediated encephalitis), with sensitivity of 0.88 (95% confident interval (CI), 0.77-0.94), specificity of 0.91 (95% CI, 0.88-0.94) and diagnostic odds ratio of 73.8 (95% CI, 31.8-171.4). LCN2 outperformed other CSF markers (leukocytes, glucose, protein and lactate) commonly used in routine care worldwide. The combination of LCN2, CSF leukocytes, glucose, protein and lactate resulted in the highest diagnostic performance for BM (area under the receiver operating characteristics curve, 0.96; 95% CI, 0.93-0.99). Data are available via ProteomeXchange with identifier PXD020510. CONCLUSIONS LCN2 is a sensitive and specific biomarker for discriminating BM from a broad spectrum of other CNS infections. A prospective study is needed to assess the diagnostic utility of LCN2 in the diagnosis and management of CNS infections.
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Fenech EJ, Lari F, Charles PD, Fischer R, Laétitia-Thézénas M, Bagola K, Paton AW, Paton JC, Gyrd-Hansen M, Kessler BM, Christianson JC. Interaction mapping of endoplasmic reticulum ubiquitin ligases identifies modulators of innate immune signalling. eLife 2020; 9:e57306. [PMID: 32614325 PMCID: PMC7332293 DOI: 10.7554/elife.57306] [Citation(s) in RCA: 51] [Impact Index Per Article: 12.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2020] [Accepted: 06/11/2020] [Indexed: 12/25/2022] Open
Abstract
Ubiquitin ligases (E3s) embedded in the endoplasmic reticulum (ER) membrane regulate essential cellular activities including protein quality control, calcium flux, and sterol homeostasis. At least 25 different, transmembrane domain (TMD)-containing E3s are predicted to be ER-localised, but for most their organisation and cellular roles remain poorly defined. Using a comparative proteomic workflow, we mapped over 450 protein-protein interactions for 21 stably expressed, full-length E3s. Bioinformatic analysis linked ER-E3s and their interactors to multiple homeostatic, regulatory, and metabolic pathways. Among these were four membrane-embedded interactors of RNF26, a polytopic E3 whose abundance is auto-regulated by ubiquitin-proteasome dependent degradation. RNF26 co-assembles with TMEM43, ENDOD1, TMEM33 and TMED1 to form a complex capable of modulating innate immune signalling through the cGAS-STING pathway. This RNF26 complex represents a new modulatory axis of STING and innate immune signalling at the ER membrane. Collectively, these data reveal the broad scope of regulation and differential functionalities mediated by ER-E3s for both membrane-tethered and cytoplasmic processes.
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Salerno D, Schweiger K, Seitz C, Takahashi Y, Wertz S, Zucchetta A, Doan TH, Kuo CM, Lin W, Roy A, Yu SS, Chang P, Chao Y, Chen KF, Chen PH, Hou WS, Li YY, Lu RS, Paganis E, Psallidas A, Steen A, Asavapibhop B, Asawatangtrakuldee C, Srimanobhas N, Suwonjandee N, Bat A, Boran F, Celik A, Cerci S, Damarseckin S, Demiroglu ZS, Dolek F, Dozen C, Dumanoglu I, Gokbulut G, Guler EG, Guler Y, Hos I, Isik C, Kangal EE, Kara O, Topaksu AK, Kiminsu U, Oglakci M, Onengut G, Ozdemir K, Ozturk S, Simsek AE, Sunar Cerci D, Tok UG, Turkcapar S, Zorbakir IS, Zorbilmez C, Isildak B, Karapinar G, Yalvac M, Atakisi IO, Gülmez E, Kaya M, Kaya O, Kaynak B, Özçelik Ö, Tekten S, Yetkin EA, Cakir A, Cankocak K, Komurcu Y, Sen S, Ozkorucuklu S, Grynyov B, Levchuk L, Ball F, Bhal E, Bologna S, Brooke JJ, Burns D, Clement E, Cussans D, Flacher H, Goldstein J, Heath GP, Heath HF, Kreczko L, Paramesvaran S, Penning B, Sakuma T, Seif El Nasr-Storey S, Smith D, Smith VJ, Taylor J, Titterton A, Bell KW, Belyaev A, Brew C, Brown RM, Cieri D, Cockerill DJA, Coughlan JA, Harder K, Harper S, Linacre J, Manolopoulos K, Newbold DM, Olaiya E, Petyt D, Reis T, Schuh T, Shepherd-Themistocleous CH, Thea A, Tomalin IR, Williams T, Womersley WJ, Bainbridge R, Bloch P, Borg J, Breeze S, Buchmuller O, Bundock A, Chahal GS, Colling D, Dauncey P, Davies G, Della Negra M, Di Maria R, Everaerts P, Hall G, Iles G, James T, Komm M, Laner C, Lyons L, Magnan AM, Malik S, Martelli A, Milosevic V, Nash J, Palladino V, Pesaresi M, Raymond DM, Richards A, Rose A, Scott E, Seez C, Shtipliyski A, Stoye M, Strebler T, Tapper A, Uchida K, Virdee T, Wardle N, Winterbottom D, Wright J, Zecchinelli AG, Zenz SC, Cole JE, Hobson PR, Khan A, Kyberd P, Mackay CK, Morton A, Reid ID, Teodorescu L, Zahid S, Call K, Dittmann J, Hatakeyama K, Madrid C, McMaster B, Pastika N, Smith C, Bartek R, Dominguez A, Uniyal R, Buccilli A, Cooper SI, Henderson C, Rumerio P, West C, Arcaro D, Demiragli Z, Gastler D, Girgis S, Pinna D, Richardson C, Rohlf J, Sperka D, Suarez I, Sulak L, Zou D, Benelli G, Burkle B, Coubez X, Cutts D, Duh YT, Hadley M, Hakala J, Heintz U, Hogan JM, Kwok KHM, Laird E, Landsberg G, Lee J, Mao Z, Narain M, Sagir S, Syarif R, Usai E, Yu D, Zhang W, Band R, Brainerd C, Breedon R, Calderon De La Barca Sanchez M, Chertok M, Conway J, Conway R, Cox PT, Erbacher R, Flores C, Funk G, Jensen F, Ko W, Kukral O, Lander R, Mulhearn M, Pellett D, Pilot J, Shi M, Taylor D, Tos K, Tripathi M, Wang Z, Zhang F, Bachtis M, Bravo C, Cousins R, Dasgupta A, Florent A, Hauser J, Ignatenko M, Mccoll N, Nash WA, Regnard S, Saltzberg D, Schnaible C, Stone B, Valuev V, Burt K, Chen Y, Clare R, Gary JW, Ghiasi Shirazi SMA, Hanson G, Karapostoli G, Kennedy E, Long OR, Olmedo Negrete M, Paneva MI, Si W, Wang L, Wei H, Wimpenny S, Yates BR, Zhang Y, Branson JG, Chang P, Cittolin S, Derdzinski M, Gerosa R, Gilbert D, Hashemi B, Klein D, Krutelyov V, Letts J, Masciovecchio M, May S, Padhi S, Pieri M, Sharma V, Tadel M, Würthwein F, Yagil A, Zevi Della Porta G, Amin N, Bhandari R, Campagnari C, Citron M, Dutta V, Franco Sevilla M, Gouskos L, Incandela J, Marsh B, Mei H, Ovcharova A, Qu H, Richman J, Sarica U, Stuart D, Wang S, Anderson D, Bornheim A, Cerri O, Dutta I, Lawhorn JM, Lu N, Mao J, Newman HB, Nguyen TQ, Pata J, Spiropulu M, Vlimant JR, Xie S, Zhang Z, Zhu RY, Andrews MB, Ferguson T, Mudholkar T, Paulini M, Sun M, Vorobiev I, Weinberg M, Cumalat JP, Ford WT, Johnson A, MacDonald E, Mulholland T, Patel R, Perloff A, Stenson K, Ulmer KA, Wagner SR, Alexander J, Chaves J, Cheng Y, Chu J, Datta A, Frankenthal A, Mcdermott K, Patterson JR, Quach D, Rinkevicius A, Ryd A, Tan SM, Tao Z, Thom J, Wittich P, Zientek M, Abdullin S, Albrow M, Alyari M, Apollinari G, Apresyan A, Apyan A, Banerjee S, Bauerdick LAT, Beretvas A, Berryhill J, Bhat PC, Burkett K, Butler JN, Canepa A, Cerati GB, Cheung HWK, Chlebana F, Cremonesi M, Duarte J, Elvira VD, Freeman J, Gecse Z, Gottschalk E, Gray L, Green D, Grünendahl S, Gutsche O, Hall AR, Hanlon J, Harris RM, Hasegawa S, Heller R, Hirschauer J, Jayatilaka B, Jindariani S, Johnson M, Joshi U, Klima B, Kortelainen MJ, Kreis B, Lammel S, Lewis J, Lincoln D, Lipton R, Liu M, Liu T, Lykken J, Maeshima K, Marraffino JM, Mason D, McBride P, Merkel P, Mrenna S, Nahn S, O’Dell V, Papadimitriou V, Pedro K, Pena C, Rakness G, Ravera F, Ristori L, Schneider B, Sexton-Kennedy E, Smith N, Soha A, Spalding WJ, Spiegel L, Stoynev S, Strait J, Strobbe N, Taylor L, Tkaczyk S, Tran NV, Uplegger L, Vaandering EW, Vernieri C, Verzocchi M, Vidal R, Wang M, Weber HA, Acosta D, Avery P, Bourilkov D, Brinkerhoff A, Cadamuro L, Carnes A, Cherepanov V, Curry D, Errico F, Field RD, Gleyzer SV, Joshi BM, Kim M, Konigsberg J, Korytov A, Lo KH, Ma P, Matchev K, Menendez N, Mitselmakher G, Rosenzweig D, Shi K, Wang J, Wang S, Zuo X, Joshi YR, Adams T, Askew A, Hagopian S, Hagopian V, Johnson KF, Khurana R, Kolberg T, Martinez G, Perry T, Prosper H, Schiber C, Yohay R, Zhang J, Baarmand MM, Bhopatkar V, Hohlmann M, Noonan D, Rahmani M, Saunders M, Yumiceva F, Adams MR, Apanasevich L, Berry D, Betts RR, Cavanaugh R, Chen X, Dittmer S, Evdokimov O, Gerber CE, Hangal DA, Hofman DJ, Jung K, Mills C, Roy T, Tonjes MB, Varelas N, Viinikainen J, Wang H, Wang X, Wu Z, Alhusseini M, Bilki B, Clarida W, Dilsiz K, Durgut S, Gandrajula RP, Haytmyradov M, Khristenko V, Köseyan OK, Merlo JP, Mestvirishvili A, Moeller A, Nachtman J, Ogul H, Onel Y, Ozok F, Penzo A, Snyder C, Tiras E, Wetzel J, Blumenfeld B, Cocoros A, Eminizer N, Fehling D, Feng L, Gritsan AV, Hung WT, Maksimovic P, Roskes J, Swartz M, Xiao M, Baldenegro Barrera C, Baringer P, Bean A, Boren S, Bowen J, Bylinkin A, Isidori T, Khalil S, King J, Krintiras G, Kropivnitskaya A, Lindsey C, Majumder D, Mcbrayer W, Minafra N, Murray M, Rogan C, Royon C, Sanders S, Schmitz E, Tapia Takaki JD, Wang Q, Williams J, Wilson G, Duric S, Ivanov A, Kaadze K, Kim D, Maravin Y, Mendis DR, Mitchell T, Modak A, Mohammadi A, Rebassoo F, Wright D, Baden A, Baron O, Belloni A, Eno SC, Feng Y, Hadley NJ, Jabeen S, Jeng GY, Kellogg RG, Kunkle J, Mignerey AC, Nabili S, Ricci-Tam F, Seidel M, Shin YH, Skuja A, Tonwar SC, Wong K, Abercrombie D, Allen B, Baty A, Bi R, Brandt S, Busza W, Cali IA, D’Alfonso M, Gomez Ceballos G, Goncharov M, Harris P, Hsu D, Hu M, Klute M, Kovalskyi D, Lee YJ, Luckey PD, Maier B, Marini AC, Mcginn C, Mironov C, Narayanan S, Niu X, Paus C, Rankin D, Roland C, Roland G, Shi Z, Stephans GSF, Sumorok K, Tatar K, Velicanu D, Wang J, Wang TW, Wyslouch B, Benvenuti AC, Chatterjee RM, Evans A, Guts S, Hansen P, Hiltbrand J, Jain S, Kubota Y, Lesko Z, Mans J, Rusack R, Wadud MA, Acosta JG, Oliveros S, Bloom K, Claes DR, Fangmeier C, Finco L, Golf F, Gonzalez Suarez R, Kamalieddin R, Kravchenko I, Siado JE, Snow GR, Stieger B, Tabb W, Agarwal G, Harrington C, Iashvili I, Kharchilava A, McLean C, Nguyen D, Parker A, Pekkanen J, Rappoccio S, Roozbahani B, Alverson G, Barberis E, Freer C, Haddad Y, Hortiangtham A, Madigan G, Morse DM, Orimoto T, Skinnari L, Tishelman-Charny A, Wamorkar T, Wang B, Wisecarver A, Wood D, Bhattacharya S, Bueghly J, Gunter T, Hahn KA, Odell N, Schmitt MH, Sung K, Trovato M, Velasco M, Bucci R, Dev N, Goldouzian R, Hildreth M, Hurtado Anampa K, Jessop C, Karmgard DJ, Lannon K, Li W, Loukas N, Marinelli N, Mcalister I, Meng F, Mueller C, Musienko Y, Planer M, Ruchti R, Siddireddy P, Smith G, Taroni S, Wayne M, Wightman A, Wolf M, Woodard A, Alimena J, Bylsma B, Durkin LS, Flowers S, Francis B, Hill C, Ji W, Lefeld A, Ling TY, Winer BL, Cooperstein S, Dezoort G, Elmer P, Hardenbrook J, Haubrich N, Higginbotham S, Kalogeropoulos A, Kwan S, Lange D, Lucchini MT, Luo J, Marlow D, Mei K, Ojalvo I, Olsen J, Palmer C, Piroué P, Salfeld-Nebgen J, Stickland D, Tully C, Wang Z, Malik S, Norberg S, Barker A, Barnes VE, Das S, Gutay L, Jones M, Jung AW, Khatiwada A, Mahakud B, Miller DH, Negro G, Neumeister N, Peng CC, Piperov S, Qiu H, Schulte JF, Sun J, Wang F, Xiao R, Xie W, Cheng T, Dolen J, Parashar N, Ecklund KM, Freed S, Geurts FJM, Kilpatrick M, Kumar A, Li W, Padley BP, Redjimi R, Roberts J, Rorie J, Shi W, Stahl Leiton AG, Tu Z, Zhang A, Bodek A, de Barbaro P, Demina R, Dulemba JL, Fallon C, Ferbel T, Galanti M, Garcia-Bellido A, Han J, Hindrichs O, Khukhunaishvili A, Ranken E, Tan P, Taus R, Chiarito B, Chou JP, Gandrakota A, Gershtein Y, Halkiadakis E, Hart A, Heindl M, Hughes E, Kaplan S, Kyriacou S, Laflotte I, Lath A, Montalvo R, Nash K, Osherson M, Saka H, Salur S, Schnetzer S, Sheffield D, Somalwar S, Stone R, Thomas S, Thomassen P, Acharya H, Delannoy AG, Riley G, Spanier S, Bouhali O, Celik A, Dalchenko M, De Mattia M, Delgado A, Dildick S, Eusebi R, Gilmore J, Huang T, Kamon T, Luo S, Marley D, Mueller R, Overton D, Perniè L, Rathjens D, Safonov A, Akchurin N, Damgov J, De Guio F, Kunori S, Lamichhane K, Lee SW, Mengke T, Muthumuni S, Peltola T, Undleeb S, Volobouev I, Wang Z, Whitbeck A, Greene S, Gurrola A, Janjam R, Johns W, Maguire C, Melo A, Ni H, Padeken K, Romeo F, Sheldon P, Tuo S, Velkovska J, Verweij M, Arenton MW, Barria P, Cox B, Cummings G, Hirosky R, Joyce M, Ledovskoy A, Neu C, Tannenwald B, Wang Y, Wolfe E, Xia F, Harr R, Karchin PE, Poudyal N, Sturdy J, Thapa P, Bose T, Buchanan J, Caillol C, Carlsmith D, Dasu S, De Bruyn I, Dodd L, Fiori F, Galloni C, Gomber B, He H, Herndon M, Hervé A, Hussain U, Klabbers P, Lanaro A, Loeliger A, Long K, Loveless R, Madhusudanan Sreekala J, Ruggles T, Savin A, Sharma V, Smith WH, Teague D, Trembath-reichert S, Woods N. Mixed higher-order anisotropic flow and nonlinear response coefficients of charged particles in PbPb collisions at s NN = 2.76 and 5.02 TeV. THE EUROPEAN PHYSICAL JOURNAL. C, PARTICLES AND FIELDS 2020; 80:534. [PMID: 32589167 PMCID: PMC7307424 DOI: 10.1140/epjc/s10052-020-7834-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/19/2019] [Accepted: 03/14/2020] [Indexed: 06/11/2023]
Abstract
Anisotropies in the initial energy density distribution of the quark-gluon plasma created in high energy heavy ion collisions lead to anisotropies in the azimuthal distributions of the final-state particles known as collective anisotropic flow. Fourier harmonic decomposition is used to quantify these anisotropies. The higher-order harmonics can be induced by the same order anisotropies (linear response) or by the combined influence of several lower order anisotropies (nonlinear response) in the initial state. The mixed higher-order anisotropic flow and nonlinear response coefficients of charged particles are measured as functions of transverse momentum and centrality in PbPb collisions at nucleon-nucleon center-of-mass energies s NN = 2.76 and 5.02 TeV with the CMS detector. The results are compared with viscous hydrodynamic calculations using several different initial conditions, as well as microscopic transport model calculations. None of the models provides a simultaneous description of the mixed higher-order flow harmonics and nonlinear response coefficients.
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Grants
- Austrian Federal Ministry of Education, Science, and Research
- Austrian Science Fund
- Belgian Fonds de la Recherche Scientifique
- Belgian Fonds voor Wetenschappelijk Onderzoek
- CNPq
- CAPES
- FAPERJ
- FAPERGS
- FAPESP
- Bulgarian Ministry of Education and Science
- CERN
- Chinese Academy of Sciences
- Ministry of Science and Technology
- Chinese National Natural Science Foundation of China
- Colombian Funding Agency (COLCIENCIAS)
- Croatian Ministry of Science, Education and Sport
- Croatian Science Foundation
- Research Promotion Foundation
- SENESCYT
- Ministry of Education and Research
- Estonian Research Council via IUT23-4, IUT23-6, and PRG445
- European Regional Development Fund
- Academy of Finland
- Finnish Ministry of Education and Culture
- Helsinki Institute of Physics
- Institut National de Physique Nucléaire et de Physique des Particules
- Centre National de la Recherche Scientifique
- Commissariat à l’Énergie Atomique et aux Énergies Alternatives
- Bundesministerium für Bildung und Forschung
- Deutsche Forschungsgemeinschaft
- Helmholtz-Gemeinschaft Deutscher Forschungszentren
- General Secretariat for Research and Technology
- National Research, Development and Innovation Fund
- Department of Atomic Energy
- Department of Science and Technology
- Institute for Research in Fundamental Studies
- Science Foundation
- Istituto Nazionale di Fisica Nucleare
- Korean Ministry of Education, Science and Technology
- National Research Foundation of Korea (NRF)
- MES
- Lithuanian Academy of Sciences
- Ministry of Education
- University of Malaya
- BUAP
- CINVESTAV
- CONACYT
- LNS
- SEP
- UASLP
- MOS
- Ministry of Business, Innovation and Employment
- Pakistan Atomic Energy Commission
- Ministry of Science and Higher Education
- National Science Centre
- Fundação para a Ciência e a Tecnologia
- JINR, Dubna
- Ministry of Education and Science of the Russian Federation
- Federal Agency of Atomic Energy of the Russian Federation
- Russian Academy of Sciences
- Russian Foundation for Basic Research
- National Research Center “Kurchatov Institute"
- Ministry of Education, Science and Technological Development of Serbia
- Secretaría de Estado de Investigación, Desarrollo e Innovación
- Programa Consolider-Ingenio 2010
- Plan de Ciencia, Tecnología e Innovación 2017-2020 del Principado de Asturias research project IDI-2018-000174
- Fondo Europeo de Desarrollo Regional, Spain
- MOSTR
- ETH Board
- ETH Zurich
- PSI
- SNF
- UniZH
- Canton Zurich
- SER
- Ministry of Science and Technology
- Thailand Center of Excellence in Physics
- Institute for the Promotion of Teaching Science and Technology of Thailand
- Special Task Force for Activating Research
- National Science and Technology Development Agency of Thailand
- Scientific and Technical Research Council of Turkey
- Turkish Atomic Energy Authority
- National Academy of Sciences of Ukraine
- Science and Technology Facilities Council
- US Department of Energy
- US National Science Foundation
- Marie-Curie programme
- European Research Council and EPLANET (European Union)
- Horizon 2020 Grant, contract Nos. 675440, 752730, and 765710 (European Union)
- Leventis Foundation
- Alfred P. Sloan Foundation
- Alexander von Humboldt Foundation
- Belgian Federal Science Policy Office
- Fonds pour la Formation à la Recherche dans l’Industrie et dans l’Agriculture (FRIA-Belgium)
- Agentschap voor Innovatie door Wetenschap en Technologie (IWT-Belgium)
- Belgian Fonds de la Recherche Scientifique, "Excellence of Science - EOS" - be.h project n. 30820817
- Belgian Fonds voor Wetenschappelijk Onderzoek, "Excellence of Science - EOS" - be.h project n. 30820817
- Beijing Municipal Science & Technology Commission No. Z181100004218003
- Ministry of Education, Youth and Sports (MEYS) of the Czech Republic
- Lendúlet ("Momentum") Programme and the János Bolyai Research Scholarship of the Hungarian Academy of Sciences
- New National Excellence Program ÚNKP, the NKFIA research grants 123842, 123959, 124845, 124850, 125105, 128713, 128786, and 129058
- Council of Scientific and Industrial Research, India
- HOMING PLUS programme of Foundation for Polish Science, cofinanced from European Union, Regional Development Fund
- National Science Center, contracts Harmonia 2014/14/M/ST2/00428, Opus 2014/13/B/ST2/02543, 2014/15/B/ST2/03998, and 2015/19/B/ST2/02861, Sonata-bis 2012/07/E/ST2/01406
- National Priorities Research Program by Qatar National Research Fund
- Ministry of Science and Education, grant no. 3.2989.2017
- Programa Estatal de Fomento de la Investigación Científica y Técnica de Excelencia María de Maeztu, grant MDM-2015-0509
- Programa Severo Ochoa del Principado de Asturias
- Thalis and Aristeia programmes cofinanced by EU-ESF and the Greek NSRF
- Rachadapisek Sompot Fund for Postdoctoral Fellowship, Chulalongkorn University (Thailand)
- CUAASC
- Nvidia Corporation
- Welch Foundation, contract C-1845
- Weston Havens Foundation
- Corresponds to version r145 of the written acknowledgments
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Prianichnikov N, Koch H, Koch S, Lubeck M, Heilig R, Brehmer S, Fischer R, Cox J. MaxQuant Software for Ion Mobility Enhanced Shotgun Proteomics. Mol Cell Proteomics 2020; 19:1058-1069. [PMID: 32156793 PMCID: PMC7261821 DOI: 10.1074/mcp.tir119.001720] [Citation(s) in RCA: 100] [Impact Index Per Article: 25.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2019] [Revised: 01/31/2020] [Indexed: 01/08/2023] Open
Abstract
Ion mobility can add a dimension to LC-MS based shotgun proteomics which has the potential to boost proteome coverage, quantification accuracy and dynamic range. Required for this is suitable software that extracts the information contained in the four-dimensional (4D) data space spanned by m/z, retention time, ion mobility and signal intensity. Here we describe the ion mobility enhanced MaxQuant software, which utilizes the added data dimension. It offers an end to end computational workflow for the identification and quantification of peptides and proteins in LC-IMS-MS/MS shotgun proteomics data. We apply it to trapped ion mobility spectrometry (TIMS) coupled to a quadrupole time-of-flight (QTOF) analyzer. A highly parallelizable 4D feature detection algorithm extracts peaks which are assembled to isotope patterns. Masses are recalibrated with a non-linear m/z, retention time, ion mobility and signal intensity dependent model, based on peptides from the sample. A new matching between runs (MBR) algorithm that utilizes collisional cross section (CCS) values of MS1 features in the matching process significantly gains specificity from the extra dimension. Prerequisite for using CCS values in MBR is a relative alignment of the ion mobility values between the runs. The missing value problem in protein quantification over many samples is greatly reduced by CCS aware MBR.MS1 level label-free quantification is also implemented which proves to be highly precise and accurate on a benchmark dataset with known ground truth. MaxQuant for LC-IMS-MS/MS is part of the basic MaxQuant release and can be downloaded from http://maxquant.org.
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Fischer R, Kontermann RE, Pfizenmaier K. Selective Targeting of TNF Receptors as a Novel Therapeutic Approach. Front Cell Dev Biol 2020; 8:401. [PMID: 32528961 PMCID: PMC7264106 DOI: 10.3389/fcell.2020.00401] [Citation(s) in RCA: 123] [Impact Index Per Article: 30.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2020] [Accepted: 05/01/2020] [Indexed: 12/14/2022] Open
Abstract
Tumor necrosis factor (TNF) is a central regulator of immunity. Due to its dominant pro-inflammatory effects, drugs that neutralize TNF were developed and are clinically used to treat inflammatory and autoimmune diseases, such as rheumatoid arthritis, inflammatory bowel disease and psoriasis. However, despite their clinical success the use of anti-TNF drugs is limited, in part due to unwanted, severe side effects and in some diseases its use even is contraindicative. With gaining knowledge about the signaling mechanisms of TNF and the differential role of the two TNF receptors (TNFR), alternative therapeutic concepts based on receptor selective intervention have led to the development of novel protein therapeutics targeting TNFR1 with antagonists and TNFR2 with agonists. These antibodies and bio-engineered ligands are currently in preclinical and early clinical stages of development. Preclinical data obtained in different disease models show that selective targeting of TNFRs has therapeutic potential and may be superior to global TNF blockade in several disease indications.
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Zurli V, Montecchi T, Heilig R, Poschke I, Volkmar M, Wimmer G, Boncompagni G, Turacchio G, D'Elios MM, Campoccia G, Resta N, Offringa R, Fischer R, Acuto O, Baldari CT, Kabanova A. Phosphoproteomics of CD2 signaling reveals AMPK-dependent regulation of lytic granule polarization in cytotoxic T cells. Sci Signal 2020; 13:13/631/eaaz1965. [PMID: 32398348 DOI: 10.1126/scisignal.aaz1965] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Understanding the costimulatory signaling that enhances the activity of cytotoxic T cells (CTLs) could identify potential targets for immunotherapy. Here, we report that CD2 costimulation plays a critical role in target cell killing by freshly isolated human CD8+ T cells, which represent a challenging but valuable model to gain insight into CTL biology. We found that CD2 stimulation critically enhanced signaling by the T cell receptor in the formation of functional immune synapses by promoting the polarization of lytic granules toward the microtubule-organizing center (MTOC). To gain insight into the underlying mechanism, we explored the CD2 signaling network by phosphoproteomics, which revealed 616 CD2-regulated phosphorylation events in 373 proteins implicated in the regulation of vesicular trafficking, cytoskeletal organization, autophagy, and metabolism. Signaling by the master metabolic regulator AMP-activated protein kinase (AMPK) was a critical node in the CD2 network, which promoted granule polarization toward the MTOC in CD8+ T cells. Granule trafficking was driven by active AMPK enriched on adjacent lysosomes, revealing previously uncharacterized signaling cross-talk between vesicular compartments in CD8+ T cells. Our results thus establish CD2 signaling as key for mediating cytotoxic killing and granule polarization in freshly isolated CD8+ T cells and strengthen the rationale to choose CD2 and AMPK as therapeutic targets to enhance CTL activity.
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Bálint Š, Müller S, Fischer R, Kessler BM, Harkiolaki M, Valitutti S, Dustin ML. Supramolecular attack particles are autonomous killing entities released from cytotoxic T cells. Science 2020; 368:897-901. [PMID: 32381591 DOI: 10.1126/science.aay9207] [Citation(s) in RCA: 89] [Impact Index Per Article: 22.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2019] [Revised: 01/28/2020] [Accepted: 04/09/2020] [Indexed: 12/15/2022]
Abstract
Cytotoxic T lymphocytes (CTLs) kill infected and cancerous cells. We detected transfer of cytotoxic multiprotein complexes, called supramolecular attack particles (SMAPs), from CTLs to target cells. SMAPs were rapidly released from CTLs and were autonomously cytotoxic. Mass spectrometry, immunochemical analysis, and CRISPR editing identified a carboxyl-terminal fragment of thrombospondin-1 as an unexpected SMAP component that contributed to target killing. Direct stochastic optical reconstruction microscopy resolved a cytotoxic core surrounded by a thrombospondin-1 shell of ~120 nanometer diameter. Cryo-soft x-ray tomography analysis revealed that SMAPs had a carbon-dense shell and were stored in multicore granules. We propose that SMAPs are autonomous extracellular killing entities that deliver cytotoxic cargo targeted by the specificity of shell components.
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Lidrych J, Lipka K, Lohmann W, Mankel R, Melzer-Pellmann IA, Meyer AB, Meyer M, Missiroli M, Mittag G, Mnich J, Mussgiller A, Myronenko V, Adán DP, Pflitsch SK, Pitzl D, Raspereza A, Saibel A, Savitskyi M, Scheurer V, Schütze P, Schwanenberger C, Shevchenko R, Singh A, Tholen H, Turkot O, Vagnerini A, Van De Klundert M, Van Onsem GP, Walsh R, Wen Y, Wichmann K, Wissing C, Zenaiev O, Zlebcik R, Aggleton R, Bein S, Benato L, Benecke A, Blobel V, Dreyer T, Ebrahimi A, Fröhlich A, Garbers C, Garutti E, Gonzalez D, Gunnellini P, Haller J, Hinzmann A, Karavdina A, Kasieczka G, Klanner R, Kogler R, Kovalchuk N, Kurz S, Kutzner V, Lange J, Lange T, Malara A, Marconi D, Multhaup J, Niedziela M, Niemeyer CEN, Nowatschin D, Perieanu A, Reimers A, Rieger O, Scharf C, Schleper P, Schumann S, Schwandt J, Sonneveld J, Stadie H, Steinbrück G, Stober FM, Stöver M, Vormwald B, Zoi I, Akbiyik M, Barth C, Baselga M, Baur S, Berger T, Butz E, Caspart R, Chwalek T, De Boer W, Dierlamm A, El Morabit K, 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Yates BR, Zhang Y, Branson JG, Chang P, Cittolin S, Derdzinski M, Gerosa R, Gilbert D, Hashemi B, Klein D, Krutelyov V, Letts J, Masciovecchio M, May S, Padhi S, Pieri M, Sharma V, Tadel M, Würthwein F, Yagil A, Della Porta GZ, Amin N, Bhandari R, Campagnari C, Citron M, Dutta V, Sevilla MF, Gouskos L, Incandela J, Marsh B, Mei H, Ovcharova A, Qu H, Richman J, Sarica U, Stuart D, Wang S, Yoo J, Anderson D, Bornheim A, Cerri O, Dutta I, Lawhorn JM, Lu N, Mao J, Newman HB, Nguyen TQ, Pata J, Spiropulu M, Vlimant JR, Xie S, Zhang Z, Zhu RY, Andrews MB, Ferguson T, Mudholkar T, Paulini M, Sun M, Vorobiev I, Weinberg M, Cumalat JP, Ford WT, Johnson A, MacDonald E, Mulholland T, Patel R, Perloff A, Stenson K, Ulmer KA, Wagner SR, Alexander J, Chaves J, Cheng Y, Chu J, Datta A, Frankenthal A, Mcdermott K, Mirman N, Patterson JR, Quach D, Rinkevicius A, Ryd A, Tan SM, Tao Z, Thom J, Wittich P, Zientek M, Abdullin S, Albrow M, Alyari M, Apollinari G, Apresyan A, Apyan A, Banerjee S, Bauerdick LAT, Beretvas A, Berryhill J, Bhat PC, Burkett K, Butler JN, Canepa A, Cerati GB, Cheung HWK, Chlebana F, Cremonesi M, Duarte J, Elvira VD, Freeman J, Gecse Z, Gottschalk E, Gray L, Green D, Grünendahl S, Gutsche O, Hall A, Hanlon J, Harris RM, Hasegawa S, Heller R, Hirschauer J, Jayatilaka B, Jindariani S, Johnson M, Joshi U, Klima B, Kortelainen MJ, Kreis B, Lammel S, Lewis J, Lincoln D, Lipton R, Liu M, Liu T, Lykken J, Maeshima K, Marraffino JM, Mason D, McBride P, Merkel P, Mrenna S, Nahn S, O’Dell V, Papadimitriou V, Pedro K, Pena C, Rakness G, Ravera F, Ristori L, Schneider B, Sexton-Kennedy E, Smith N, Soha A, Spalding WJ, Spiegel L, Stoynev S, Strait J, Strobbe N, Taylor L, Tkaczyk S, Tran NV, Uplegger L, Vaandering EW, Vernieri C, Verzocchi M, Vidal R, Wang M, Weber HA, Acosta D, Avery P, Bortignon P, Bourilkov D, Brinkerhoff A, Cadamuro L, Carnes A, Cherepanov V, Curry D, Errico F, Field RD, Gleyzer SV, Joshi BM, Kim M, Konigsberg J, Korytov A, Lo KH, Ma P, Matchev K, Menendez N, Mitselmakher G, Rosenzweig D, Shi K, Wang J, Wang S, Zuo X, Joshi YR, Adams T, Askew A, Hagopian S, Hagopian V, Johnson KF, Khurana R, Kolberg T, Martinez G, Perry T, Prosper H, Schiber C, Yohay R, Zhang J, Baarmand MM, Bhopatkar V, Hohlmann M, Noonan D, Rahmani M, Saunders M, Yumiceva F, Adams MR, Apanasevich L, Berry D, Betts RR, Cavanaugh R, Chen X, Dittmer S, Evdokimov O, Gerber CE, Hangal DA, Hofman DJ, Jung K, Mills C, Roy T, Tonjes MB, Varelas N, Wang H, Wang X, Wu Z, Alhusseini M, Bilki B, Clarida W, Dilsiz K, Durgut S, Gandrajula RP, Haytmyradov M, Khristenko V, Köseyan OK, Merlo JP, Mestvirishvili A, Moeller A, Nachtman J, Ogul H, Onel Y, Ozok F, Penzo A, Snyder C, Tiras E, Wetzel J, Blumenfeld B, Cocoros A, Eminizer N, Fehling D, Feng L, Gritsan AV, Hung WT, Maksimovic P, Roskes J, Swartz M, Xiao M, Barrera CB, Baringer P, Bean A, Boren S, Bowen J, Bylinkin A, Isidori T, Khalil S, King J, Krintiras G, Kropivnitskaya A, Lindsey C, Majumder D, Mcbrayer W, Minafra N, Murray M, Rogan C, Royon C, Sanders S, Schmitz E, Takaki JDT, Wang Q, Williams J, Wilson G, Duric S, Ivanov A, Kaadze K, Kim D, Maravin Y, Mendis DR, Mitchell T, Modak A, Mohammadi A, Rebassoo F, Wright D, Baden A, Baron O, Belloni A, Eno SC, Feng Y, Hadley NJ, Jabeen S, Jeng GY, Kellogg RG, Kunkle J, Mignerey AC, Nabili S, Ricci-Tam F, Seidel M, Shin YH, Skuja A, Tonwar SC, Wong K, Abercrombie D, Allen B, Baty A, Bi R, Brandt S, Busza W, Cali IA, D’Alfonso M, Ceballos GG, Goncharov M, Harris P, Hsu D, Hu M, Klute M, Kovalskyi D, Lee YJ, Luckey PD, Maier B, Marini AC, Mcginn C, Mironov C, Narayanan S, Niu X, Paus C, Rankin D, Roland C, Roland G, Shi Z, Stephans GSF, Sumorok K, Tatar K, Velicanu D, Wang J, Wang TW, Wyslouch B, Benvenuti AC, Chatterjee RM, Evans A, Guts S, Hansen P, Hiltbrand J, Jain S, Kalafut S, Kubota Y, Lesko Z, Mans J, Rusack R, Wadud MA, Acosta JG, Oliveros S, Bloom K, Claes DR, Fangmeier C, Finco L, Golf F, Suarez RG, Kamalieddin R, Kravchenko I, Siado JE, Snow GR, Stieger B, Agarwal G, Harrington C, Iashvili I, Kharchilava A, Mclean C, Nguyen D, Parker A, Pekkanen J, Rappoccio S, Roozbahani B, Alverson G, Barberis E, Freer C, Haddad Y, Hortiangtham A, Madigan G, Morse DM, Orimoto T, Skinnari L, Tishelman-Charny A, Wamorkar T, Wang B, Wisecarver A, Wood D, Bhattacharya S, Bueghly J, Gunter T, Hahn KA, Odell N, Schmitt MH, Sung K, Trovato M, Velasco M, Bucci R, Dev N, Goldouzian R, Hildreth M, Anampa KH, Jessop C, Karmgard DJ, Lannon K, Li W, Loukas N, Marinelli N, Mcalister I, Meng F, Mueller C, Musienko Y, Planer M, Ruchti R, Siddireddy P, Smith G, Taroni S, Wayne M, Wightman A, Wolf M, Woodard A, Alimena J, Bylsma B, Durkin LS, Flowers S, Francis B, Hill C, Ji W, Lefeld A, Ling TY, Winer BL, Cooperstein S, Dezoort G, Elmer P, Hardenbrook J, Haubrich N, Higginbotham S, Kalogeropoulos A, Kwan S, Lange D, Lucchini MT, Luo J, Marlow D, Mei K, Ojalvo I, Olsen J, Palmer C, Piroué P, Salfeld-Nebgen J, Stickland D, Tully C, Wang Z, Malik S, Norberg S, Barker A, Barnes VE, Das S, Gutay L, Jones M, Jung AW, Khatiwada A, Mahakud B, Miller DH, Negro G, Neumeister N, Peng CC, Piperov S, Qiu H, Schulte JF, Sun J, Wang F, Xiao R, Xie W, Cheng T, Dolen J, Parashar N, Ecklund KM, Freed S, Geurts FJM, Kilpatrick M, Kumar A, Li W, Padley BP, Redjimi R, Roberts J, Rorie J, Shi W, Leiton AGS, Tu Z, Zhang A, Bodek A, de Barbaro P, Demina R, Dulemba JL, Fallon C, Ferbel T, Galanti M, Garcia-Bellido A, Han J, Hindrichs O, Khukhunaishvili A, Ranken E, Tan P, Taus R, Chiarito B, Chou JP, Gandrakota A, Gershtein Y, Halkiadakis E, Hart A, Heindl M, Hughes E, Kaplan S, Kyriacou S, Laflotte I, Lath A, Montalvo R, Nash K, Osherson M, Saka H, Salur S, Schnetzer S, Sheffield D, Somalwar S, Stone R, Thomas S, Thomassen P, Acharya H, Delannoy AG, Heideman J, Riley G, Spanier S, Bouhali O, Celik A, Dalchenko M, De Mattia M, Delgado A, Dildick S, Eusebi R, Gilmore J, Huang T, Kamon T, Luo S, Marley D, Mueller R, Overton D, Perniè L, Rathjens D, Safonov A, Akchurin N, Damgov J, De Guio F, Kunori S, Lamichhane K, Lee SW, Mengke T, Muthumuni S, Peltola T, Undleeb S, Volobouev I, Wang Z, Whitbeck A, Greene S, Gurrola A, Janjam R, Johns W, Maguire C, Melo A, Ni H, Padeken K, Romeo F, Sheldon P, Tuo S, Velkovska J, Verweij M, Arenton MW, Barria P, Cox B, Cummings G, Hirosky R, Joyce M, Ledovskoy A, Neu C, Tannenwald B, Wang Y, Wolfe E, Xia F, Harr R, Karchin PE, Poudyal N, Sturdy J, Thapa P, Zaleski S, Buchanan J, Caillol C, Carlsmith D, Dasu S, De Bruyn I, Dodd L, Fiori F, Galloni C, Gomber B, Herndon M, Hervé A, Hussain U, Klabbers P, Lanaro A, Loeliger A, Long K, Loveless R, Sreekala JM, Ruggles T, Savin A, Sharma V, Smith WH, Teague D, Trembath-reichert S, Woods N. Measurement of differential cross sections and charge ratios for t-channel single top quark production in proton-proton collisions at s = 13 Te . THE EUROPEAN PHYSICAL JOURNAL. C, PARTICLES AND FIELDS 2020; 80:370. [PMID: 32633732 PMCID: PMC7319297 DOI: 10.1140/epjc/s10052-020-7858-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/18/2019] [Accepted: 03/19/2020] [Indexed: 06/11/2023]
Abstract
A measurement is presented of differential cross sections for t-channel single top quark and antiquark production in proton-proton collisions at a centre-of-mass energy of 13Te by the CMS experiment at the LHC. From a data set corresponding to an integrated luminosity of 35.9fb - 1 , events containing one muon or electron and two or three jets are analysed. The cross section is measured as a function of the top quark transverse momentum ( p T ), rapidity, and polarisation angle, the charged lepton p T and rapidity, and the p T of the W boson from the top quark decay. In addition, the charge ratio is measured differentially as a function of the top quark, charged lepton, and W boson kinematic observables. The results are found to be in agreement with standard model predictions using various next-to-leading-order event generators and sets of parton distribution functions. Additionally, the spin asymmetry, sensitive to the top quark polarisation, is determined from the differential distribution of the polarisation angle at parton level to be 0.440 ± 0.070 , in agreement with the standard model prediction.
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Grants
- Austrian Federal Ministry of Education, Science, and Research
- Austrian Science Fund
- Belgian Fonds de la Recherche Scientifique
- Belgian Fonds voor Wetenschappelijk Onderzoek
- CNPq
- CAPES
- FAPERJ
- FAPERGS
- FAPESP
- Bulgarian Ministry of Education and Science
- CERN
- Chinese Academy of Sciences
- Ministry of Science and Technology
- Chinese National Natural Science Foundation of China
- Colombian Funding Agency (COLCIENCIAS)
- Croatian Ministry of Science, Education and Sport
- Croatian Science Foundation
- Research Promotion Foundation
- SENESCYT
- Ministry of Education and Research
- Estonian Research Council via IUT23-4, IUT23-6, and PRG445
- European Regional Development Fund
- Academy of Finland
- Finnish Ministry of Education and Culture
- Helsinki Institute of Physics
- Institut National de Physique Nucléaire et de Physique des Particules
- Centre National de la Recherche Scientifique
- Commissariat à l’Énergie Atomique et aux Énergies Alternatives
- Bundesministerium für Bildung und Forschung
- Deutsche Forschungsgemeinschaft
- Helmholtz-Gemeinschaft Deutscher Forschungszentren
- General Secretariat for Research and Technology
- National Research, Development and Innovation Fund
- Department of Atomic Energy
- Department of Science and Technology
- Institute for Research in Fundamental Studies
- Science Foundation
- Istituto Nazionale di Fisica Nucleare
- Korean Ministry of Education, Science and Technology
- National Research Foundation of Korea (NRF)
- MES
- Lithuanian Academy of Sciences
- Ministry of Education
- University of Malaya
- BUAP
- CINVESTAV
- CONACYT
- LNS
- SEP
- UASLP
- MOS
- Ministry of Business, Innovation and Employment
- Pakistan Atomic Energy Commission
- Ministry of Science and Higher Education
- National Science Centre
- Fundação para a Ciência e a Tecnologia
- JINR, Dubna
- Ministry of Education and Science of the Russian Federation
- Federal Agency of Atomic Energy of the Russian Federation
- Russian Academy of Sciences
- Russian Foundation for Basic Research
- National Research Center “Kurchatov Institute"
- Ministry of Education, Science and Technological Development of Serbia
- Secretaría de Estado de Investigación, Desarrollo e Innovación
- Programa Consolider-Ingenio 2010
- Plan de Ciencia, Tecnología e Innovación 2017-2020 del Principado de Asturias research project IDI-2018-000174
- Fondo Europeo de Desarrollo Regional, Spain
- MOSTR
- ETH Board
- ETH Zurich
- PSI
- SNF
- UniZH
- Canton Zurich
- SER
- Ministry of Science and Technology
- Thailand Center of Excellence in Physics
- Institute for the Promotion of Teaching Science and Technology of Thailand
- Special Task Force for Activating Research
- National Science and Technology Development Agency of Thailand
- Scientific and Technical Research Council of Turkey
- Turkish Atomic Energy Authority
- National Academy of Sciences of Ukraine
- State Fund for Fundamental Researches
- Science and Technology Facilities Council
- US Department of Energy
- US National Science Foundation
- Marie-Curie programme
- European Research Council and EPLANET (European Union)
- Horizon 2020 Grant, contract Nos. 675440, 752730, and 765710 (European Union)
- Leventis Foundation
- Alfred P. Sloan Foundation
- Alexander von Humboldt Foundation
- Belgian Federal Science Policy Office
- Fonds pour la Formation à la Recherche dans l’Industrie et dans l’Agriculture (FRIA-Belgium)
- Agentschap voor Innovatie door Wetenschap en Technologie (IWT-Belgium)
- Belgian Fonds de la Recherche Scientifique, "Excellence of Science - EOS" - be.h project n. 30820817
- Belgian Fonds voor Wetenschappelijk Onderzoek, "Excellence of Science - EOS" - be.h project n. 30820817
- Beijing Municipal Science & Technology Commission No. Z181100004218003
- Ministry of Education, Youth and Sports (MEYS) of the Czech Republic
- Lendúlet (“Momentum”) Programme and the János Bolyai Research Scholarship of the Hungarian Academy of Sciences
- New National Excellence Program ÚNKP, the NKFIA research Grants 123842, 123959, 124845, 124850and, 125105, 128713, 128786, and 129058
- Council of Scientific and Industrial Research, India
- HOMING PLUS programme of Foundation for Polish Science, cofinanced from European Union, Regional Development Fund
- National Science Center, contracts Harmonia 2014/14/M/ST2/00428, Opus 2014/13/B/ST2/02543, 2014/15/B/ST2/03998, and 2015/19/B/ST2/02861, Sonata-bis 2012/07/E/ST2/01406
- National Priorities Research Program by Qatar National Research Fund
- Ministry of Science and Education, Grant no. 3.2989.2017
- Programa Estatal de Fomento de la Investigación Científica y Técnica de Excelencia María de Maeztu, Grant MDM-2015-0509
- Programa Severo Ochoa del Principado de Asturias
- Thalis and Aristeia programmes cofinanced by EU-ESF and the Greek NSRF
- Rachadapisek Sompot Fund for Postdoctoral Fellowship, Chulalongkorn University (Thailand)
- CUAASC
- Welch Foundation, contract C-1845
- Weston Havens Foundation
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Wandrer F, Liebig S, Marhenke S, Vogel A, John K, Manns MP, Teufel A, Itzel T, Longerich T, Maier O, Fischer R, Kontermann RE, Pfizenmaier K, Schulze-Osthoff K, Bantel H. TNF-Receptor-1 inhibition reduces liver steatosis, hepatocellular injury and fibrosis in NAFLD mice. Cell Death Dis 2020; 11:212. [PMID: 32235829 PMCID: PMC7109108 DOI: 10.1038/s41419-020-2411-6] [Citation(s) in RCA: 77] [Impact Index Per Article: 19.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2019] [Revised: 02/06/2020] [Accepted: 02/06/2020] [Indexed: 12/12/2022]
Abstract
Non-alcoholic fatty liver disease (NAFLD) shows an increasing prevalence and is associated with the development of liver fibrosis and cirrhosis as the major risk factors of liver-related mortality in this disease. The therapeutic possibilities are limited and restricted to life style intervention, since specific drugs for NAFLD are unavailable so far. TNFα has been implicated as a major pathogenic driver of NAFLD. TNFα-mediated liver injury occurs mainly via TNF-receptor-1 (TNFR1) signaling, whereas TNFR2 mediates protective pathways. In this study, we analyzed the therapeutic effects of a novel antibody, which selectively inhibits TNFR1 while retaining protective TNFR2 signaling in a high-fat diet (HFD) mouse model of NAFLD. Mice were fed with HFD for 32 weeks and treated with anti-TNFR1-antibody or control-antibody for the last 8 weeks. We then investigated the mechanisms of TNFR1 inhibition on liver steatosis, inflammatory liver injury, insulin resistance and fibrosis. Compared to control-antibody treatment, TNFR1 inhibition significantly reduced liver steatosis and triglyceride content, which was accompanied by reduced expression and activation of the transcription factor SREBP1 and downstream target genes of lipogenesis. Furthermore, inhibition of TNFR1 resulted in reduced activation of the MAP kinase MKK7 and its downstream target JNK, which was associated with significant improvement of insulin resistance. Apoptotic liver injury, NAFLD activity and alanine aminotransferase (ALT) levels, as well as liver fibrosis significantly decreased by anti-TNFR1 compared to control-antibody treatment. Thus, our results suggest selective TNFR1 inhibition as a promising approach for NAFLD treatment.
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115
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Sirunyan AM, Tumasyan A, Adam W, Ambrogi F, Bergauer T, Brandstetter J, Dragicevic M, Erö J, Del Valle AE, Flechl M, Frühwirth R, Jeitler M, Krammer N, Krätschmer I, Liko D, Madlener T, Mikulec I, Rad N, Schieck J, Schöfbeck R, Spanring M, Spitzbart D, Waltenberger W, Wulz CE, Zarucki M, Drugakov V, Mossolov V, Gonzalez JS, Darwish MR, De Wolf EA, Di Croce D, Janssen X, Lauwers J, Lelek A, Pieters M, Sfar HR, Van Haevermaet H, Van Mechelen P, Van Putte S, Van Remortel N, Blekman F, Bols ES, Chhibra SS, D’Hondt J, De Clercq J, Lontkovskyi D, Lowette S, Marchesini I, Moortgat S, Moreels L, Python Q, Skovpen K, Tavernier S, Van Doninck W, Van Mulders P, Van Parijs I, Beghin D, Bilin B, Brun H, Clerbaux B, De Lentdecker G, Delannoy H, Dorney B, Favart L, Grebenyuk A, Kalsi AK, Luetic J, Popov A, Postiau N, Starling E, Thomas L, Velde CV, Vanlaer P, Vannerom D, Cornelis T, Dobur D, Khvastunov I, Niedziela M, Roskas C, Trocino D, Tytgat M, Verbeke W, Vermassen B, Vit M, Zaganidis N, Bondu O, 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GB, Cheung HWK, Chlebana F, Cremonesi M, Duarte J, Elvira VD, Freeman J, Gecse Z, Gottschalk E, Gray L, Green D, Grünendahl S, Gutsche O, Hall A, Hanlon J, Harris RM, Hasegawa S, Heller R, Hirschauer J, Jayatilaka B, Jindariani S, Johnson M, Joshi U, Klima B, Kortelainen MJ, Kreis B, Lammel S, Lewis J, Lincoln D, Lipton R, Liu M, Liu T, Lykken J, Maeshima K, Marraffino JM, Mason D, McBride P, Merkel P, Mrenna S, Nahn S, O’Dell V, Papadimitriou V, Pedro K, Pena C, Rakness G, Ravera F, Ristori L, Schneider B, Sexton-Kennedy E, Smith N, Soha A, Spalding WJ, Spiegel L, Stoynev S, Strait J, Strobbe N, Taylor L, Tkaczyk S, Tran NV, Uplegger L, Vaandering EW, Vernieri C, Verzocchi M, Vidal R, Wang M, Weber HA, Acosta D, Avery P, Bortignon P, Bourilkov D, Brinkerhoff A, Cadamuro L, Carnes A, Cherepanov V, Curry D, Errico F, Field RD, Gleyzer SV, Joshi BM, Kim M, Konigsberg J, Korytov A, Lo KH, Ma P, Matchev K, Menendez N, Mitselmakher G, Rosenzweig D, Shi K, Wang J, Wang S, Zuo X, Joshi YR, Adams T, Askew A, Hagopian S, Hagopian V, Johnson KF, Khurana R, Kolberg T, Martinez G, Perry T, Prosper H, Schiber C, Yohay R, Zhang J, Baarmand MM, Bhopatkar V, Hohlmann M, Noonan D, Rahmani M, Saunders M, Yumiceva F, Adams MR, Apanasevich L, Berry D, Betts RR, Cavanaugh R, Chen X, Dittmer S, Evdokimov O, Gerber CE, Hangal DA, Hofman DJ, Jung K, Mills C, Roy T, Tonjes MB, Varelas N, Wang H, Wang X, Wu Z, Alhusseini M, Bilki B, Clarida W, Dilsiz K, Durgut S, Gandrajula RP, Haytmyradov M, Khristenko V, Köseyan OK, Merlo JP, Mestvirishvili A, Moeller A, Nachtman J, Ogul H, Onel Y, Ozok F, Penzo A, Snyder C, Tiras E, Wetzel J, Blumenfeld B, Cocoros A, Eminizer N, Fehling D, Feng L, Gritsan AV, Hung WT, Maksimovic P, Roskes J, Swartz M, Xiao M, Barrera CB, Baringer P, Bean A, Boren S, Bowen J, Bylinkin A, Isidori T, Khalil S, King J, Krintiras G, Kropivnitskaya A, Lindsey C, Majumder D, Mcbrayer W, Minafra N, Murray M, Rogan C, Royon C, Sanders S, Schmitz E, Takaki JDT, Wang Q, Williams J, Wilson G, Duric S, Ivanov A, Kaadze K, Kim D, Maravin Y, Mendis DR, Mitchell T, Modak A, Mohammadi A, Rebassoo F, Wright D, Baden A, Baron O, Belloni A, Eno SC, Feng Y, Hadley NJ, Jabeen S, Jeng GY, Kellogg RG, Kunkle J, Mignerey AC, Nabili S, Ricci-Tam F, Seidel M, Shin YH, Skuja A, Tonwar SC, Wong K, Abercrombie D, Allen B, Baty A, Bi R, Brandt S, Busza W, Cali IA, D’Alfonso M, Ceballos GG, Goncharov M, Harris P, Hsu D, Hu M, Klute M, Kovalskyi D, Lee YJ, Luckey PD, Maier B, Marini AC, Mcginn C, Mironov C, Narayanan S, Niu X, Paus C, Rankin D, Roland C, Roland G, Shi Z, Stephans GSF, Sumorok K, Tatar K, Velicanu D, Wang J, Wang TW, Wyslouch B, Benvenuti AC, Chatterjee RM, Evans A, Guts S, Hansen P, Hiltbrand J, Jain S, Kalafut S, Kubota Y, Lesko Z, Mans J, Rusack R, Wadud MA, Acosta JG, Oliveros S, Bloom K, Claes DR, Fangmeier C, Finco L, Golf F, Suarez RG, Kamalieddin R, Kravchenko I, Siado JE, Snow GR, Stieger B, Agarwal G, Harrington C, Iashvili I, Kharchilava A, Mclean C, Nguyen D, Parker A, Pekkanen J, Rappoccio S, Roozbahani B, Alverson G, Barberis E, Freer C, Haddad Y, Hortiangtham A, Madigan G, Morse DM, Orimoto T, Skinnari L, Tishelman-Charny A, Wamorkar T, Wang B, Wisecarver A, Wood D, Bhattacharya S, Bueghly J, Gunter T, Hahn KA, Odell N, Schmitt MH, Sung K, Trovato M, Velasco M, Bucci R, Dev N, Goldouzian R, Hildreth M, Anampa KH, Jessop C, Karmgard DJ, Lannon K, Li W, Loukas N, Marinelli N, Mcalister I, Meng F, Mueller C, Musienko Y, Planer M, Ruchti R, Siddireddy P, Smith G, Taroni S, Wayne M, Wightman A, Wolf M, Woodard A, Alimena J, Bylsma B, Durkin LS, Flowers S, Francis B, Hill C, Ji W, Lefeld A, Ling TY, Winer BL, Cooperstein S, Dezoort G, Elmer P, Hardenbrook J, Haubrich N, Higginbotham S, Kalogeropoulos A, Kwan S, Lange D, Lucchini MT, Luo J, Marlow D, Mei K, Ojalvo I, Olsen J, Palmer C, Piroué P, Salfeld-Nebgen J, Stickland D, Tully C, Wang Z, Malik S, Norberg S, Barker A, Barnes VE, Das S, Gutay L, Jones M, Jung AW, Khatiwada A, Mahakud B, Miller DH, Negro G, Neumeister N, Peng CC, Piperov S, Qiu H, Schulte JF, Sun J, Wang F, Xiao R, Xie W, Cheng T, Dolen J, Parashar N, Ecklund KM, Freed S, Geurts FJM, Kilpatrick M, Kumar A, Li W, Padley BP, Redjimi R, Roberts J, Rorie J, Shi W, Leiton AGS, Tu Z, Zhang A, Bodek A, de Barbaro P, Demina R, Dulemba JL, Fallon C, Ferbel T, Galanti M, Garcia-Bellido A, Han J, Hindrichs O, Khukhunaishvili A, Ranken E, Tan P, Taus R, Chiarito B, Chou JP, Gandrakota A, Gershtein Y, Halkiadakis E, Hart A, Heindl M, Hughes E, Kaplan S, Kyriacou S, Laflotte I, Lath A, Montalvo R, Nash K, Osherson M, Saka H, Salur S, Schnetzer S, Sheffield D, Somalwar S, Stone R, Thomas S, Thomassen P, Acharya H, Delannoy AG, Heideman J, Riley G, Spanier S, Bouhali O, Celik A, Dalchenko M, De Mattia M, Delgado A, Dildick S, Eusebi R, Gilmore J, Huang T, Kamon T, Luo S, Marley D, Mueller R, Overton D, Perniè L, Rathjens D, Safonov A, Akchurin N, Damgov J, De Guio F, Kunori S, Lamichhane K, Lee SW, Mengke T, Muthumuni S, Peltola T, Undleeb S, Volobouev I, Wang Z, Whitbeck A, Greene S, Gurrola A, Janjam R, Johns W, Maguire C, Melo A, Ni H, Padeken K, Romeo F, Sheldon P, Tuo S, Velkovska J, Verweij M, Arenton MW, Barria P, Cox B, Cummings G, Hirosky R, Joyce M, Ledovskoy A, Neu C, Tannenwald B, Wang Y, Wolfe E, Xia F, Harr R, Karchin PE, Poudyal N, Sturdy J, Thapa P, Zaleski S, Buchanan J, Caillol C, Carlsmith D, Dasu S, De Bruyn I, Dodd L, Fiori F, Galloni C, Gomber B, Herndon M, Hervé A, Hussain U, Klabbers P, Lanaro A, Loeliger A, Long K, Loveless R, Sreekala JM, Ruggles T, Savin A, Sharma V, Smith WH, Teague D, Trembath-reichert S, Woods N. A multi-dimensional search for new heavy resonances decaying to boosted W W , W Z , or Z Z boson pairs in the dijet final state at 13 Te . THE EUROPEAN PHYSICAL JOURNAL. C, PARTICLES AND FIELDS 2020; 80:237. [PMID: 32215380 PMCID: PMC7081666 DOI: 10.1140/epjc/s10052-020-7773-5] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/13/2019] [Accepted: 02/24/2020] [Indexed: 05/25/2023]
Abstract
A search in an all-jet final state for new massive resonances decaying to W W , W Z , or Z Z boson pairs using a novel analysis method is presented. The analysis is performed on data corresponding to an integrated luminosity of 77.3 fb - 1 recorded with the CMS experiment at the LHC at a centre-of-mass energy of 13 Te . The search is focussed on potential narrow-width resonances with masses above 1.2 Te , where the decay products of each W or Z boson are expected to be collimated into a single, large-radius jet. The signal is extracted using a three-dimensional maximum likelihood fit of the two jet masses and the dijet invariant mass, yielding an improvement in sensitivity of up to 30% relative to previous search methods. No excess is observed above the estimated standard model background. In a heavy vector triplet model, spin-1 Z ' and W ' resonances with masses below 3.5 and 3.8 Te , respectively, are excluded at 95% confidence level. In a bulk graviton model, upper limits on cross sections are set between 27 and 0.2 fb for resonance masses between 1.2 and 5.2 Te , respectively. The limits presented in this paper are the best to date in the dijet final state.
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Grants
- Austrian Federal Ministry of Education, Science, and Research
- Austrian Science Fund
- Belgian Fonds de la Recherche Scientifique
- Belgian Fonds voor Wetenschappelijk Onderzoek
- CNPq
- CAPES
- FAPERJ
- FAPERGS
- FAPESP
- Bulgarian Ministry of Education and Science
- CERN
- Chinese Academy of Sciences
- Ministry of Science and Technology
- Chinese National Natural Science Foundation of China
- Colombian Funding Agency (COLCIENCIAS)
- Croatian Ministry of Science, Education and Sport
- Croatian Science Foundation
- Research Promotion Foundation
- SENESCYT
- Ministry of Education and Research
- Estonian Research Council via IUT23-4, IUT23-6, and PRG445
- European Regional Development Fund
- Academy of Finland
- Finnish Ministry of Education and Culture
- Helsinki Institute of Physics
- Institut National de Physique Nucléaire et de Physique des Particules
- Centre National de la Recherche Scientifique
- Commissariat à l’Énergie Atomique et aux Énergies Alternatives
- Bundesministerium für Bildung und Forschung
- Deutsche Forschungsgemeinschaft
- Helmholtz-Gemeinschaft Deutscher Forschungszentren
- General Secretariat for Research and Technology
- National Research, Development and Innovation Fund
- Department of Atomic Energy
- Department of Science and Technology
- Institute for Research in Fundamental Studies
- Science Foundation
- Istituto Nazionale di Fisica Nucleare
- Korean Ministry of Education, Science and Technology
- National Research Foundation of Korea (NRF)
- MES
- Lithuanian Academy of Sciences
- Ministry of Education
- University of Malaya
- BUAP
- CINVESTAV
- CONACYT
- LNS
- SEP
- UASLP
- MOS
- Ministry of Business, Innovation and Employment
- Pakistan Atomic Energy Commission
- Ministry of Science and Higher Education
- National Science Centre
- Fundação para a Ciência e a Tecnologia
- JINR, Dubna
- Ministry of Education and Science of the Russian Federation
- Federal Agency of Atomic Energy of the Russian Federation
- Russian Academy of Sciences
- Russian Foundation for Basic Research
- National Research Center “Kurchatov Institute"
- Ministry of Education, Science and Technological Development of Serbia
- Secretaría de Estado de Investigación, Desarrollo e Innovación
- Programa Consolider-Ingenio 2010
- Plan de Ciencia, Tecnología e Innovación 2017-2020 del Principado de Asturias research project IDI-2018-000174
- Fondo Europeo de Desarrollo Regional, Spain
- MOSTR
- ETH Board
- ETH Zurich
- PSI
- SNF
- UniZH
- Canton Zurich
- SER
- Ministry of Science and Technology
- Thailand Center of Excellence in Physics
- Institute for the Promotion of Teaching Science and Technology of Thailand
- Special Task Force for Activating Research
- National Science and Technology Development Agency of Thailand
- Scientific and Technical Research Council of Turkey
- Turkish Atomic Energy Authority
- National Academy of Sciences of Ukraine
- Science and Technology Facilities Council
- US Department of Energy
- US National Science Foundation
- Marie-Curie programme
- European Research Council and EPLANET (European Union)
- Horizon 2020 Grant, contract Nos. 675440, 752730, and 765710 (European Union)
- Leventis Foundation
- Alfred P. Sloan Foundation
- Alexander von Humboldt Foundation
- Belgian Federal Science Policy Office
- Fonds pour la Formation à la Recherche dans l’Industrie et dans l’Agriculture (FRIA-Belgium)
- Agentschap voor Innovatie door Wetenschap en Technologie (IWT-Belgium)
- Belgian Fonds de la Recherche Scientifique, "Excellence of Science - EOS" - be.h project n. 30820817
- Belgian Fonds voor Wetenschappelijk Onderzoek, "Excellence of Science - EOS" - be.h project n. 30820817
- Beijing Municipal Science & Technology Commission No. Z181100004218003
- Ministry of Education, Youth and Sports (MEYS) of the Czech Republic
- Deutsche Forschungsgemeinschaft (DFG) under Germany’s Excellence Strategy - EXC 2121 "Quantum Universe" – 390833306
- Lendúlet ("Momentum") Programme and the János Bolyai Research Scholarship of the Hungarian Academy of Sciences
- New National Excellence Program ÚNKP, the NKFIA research Grants 123842, 123959, 124845, 124850and, 125105, 128713, 128786, and 129058
- Council of Scientific and Industrial Research, India
- HOMING PLUS programme of Foundation for Polish Science, cofinanced from European Union, Regional Development Fund
- National Science Center, contracts Harmonia 2014/14/M/ST2/00428, Opus 2014/13/B/ST2/02543, 2014/15/B/ST2/03998, and 2015/19/B/ST2/02861, Sonata-bis 2012/07/E/ST2/01406
- National Priorities Research Program by Qatar National Research Fund
- Ministry of Science and Education, Grant no. 14.W03.31.0026
- Programa Estatal de Fomento de la Investigación Científica y Técnica de Excelencia María de Maeztu, Grant MDM-2015-0509
- Programa Severo Ochoa del Principado de Asturias
- Thalis and Aristeia programmes cofinanced by EU-ESF and the Greek NSRF
- Rachadapisek Sompot Fund for Postdoctoral Fellowship, Chulalongkorn University (Thailand)
- CUAASC
- Kavli Foundation
- Nvidia Corporation
- Welch Foundation, contract C-1845
- Weston Havens Foundation
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Fielden J, Wiseman K, Torrecilla I, Li S, Hume S, Chiang SC, Ruggiano A, Narayan Singh A, Freire R, Hassanieh S, Domingo E, Vendrell I, Fischer R, Kessler BM, Maughan TS, El-Khamisy SF, Ramadan K. TEX264 coordinates p97- and SPRTN-mediated resolution of topoisomerase 1-DNA adducts. Nat Commun 2020; 11:1274. [PMID: 32152270 PMCID: PMC7062751 DOI: 10.1038/s41467-020-15000-w] [Citation(s) in RCA: 58] [Impact Index Per Article: 14.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2019] [Accepted: 02/16/2020] [Indexed: 12/03/2022] Open
Abstract
Eukaryotic topoisomerase 1 (TOP1) regulates DNA topology to ensure efficient DNA replication and transcription. TOP1 is also a major driver of endogenous genome instability, particularly when its catalytic intermediate-a covalent TOP1-DNA adduct known as a TOP1 cleavage complex (TOP1cc)-is stabilised. TOP1ccs are highly cytotoxic and a failure to resolve them underlies the pathology of neurological disorders but is also exploited in cancer therapy where TOP1ccs are the target of widely used frontline anti-cancer drugs. A critical enzyme for TOP1cc resolution is the tyrosyl-DNA phosphodiesterase (TDP1), which hydrolyses the bond that links a tyrosine in the active site of TOP1 to a 3' phosphate group on a single-stranded (ss)DNA break. However, TDP1 can only process small peptide fragments from ssDNA ends, raising the question of how the ~90 kDa TOP1 protein is processed upstream of TDP1. Here we find that TEX264 fulfils this role by forming a complex with the p97 ATPase and the SPRTN metalloprotease. We show that TEX264 recognises both unmodified and SUMO1-modifed TOP1 and initiates TOP1cc repair by recruiting p97 and SPRTN. TEX264 localises to the nuclear periphery, associates with DNA replication forks, and counteracts TOP1ccs during DNA replication. Altogether, our study elucidates the existence of a specialised repair complex required for upstream proteolysis of TOP1ccs and their subsequent resolution.
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M, Rogan C, Royon C, Sanders S, Schmitz E, Takaki JDT, Wang Q, Williams J, Wilson G, Duric S, Ivanov A, Kaadze K, Kim D, Maravin Y, Mendis DR, Mitchell T, Modak A, Mohammadi A, Rebassoo F, Wright D, Baden A, Baron O, Belloni A, Eno SC, Feng Y, Hadley NJ, Jabeen S, Jeng GY, Kellogg RG, Kunkle J, Mignerey AC, Nabili S, Ricci-Tam F, Seidel M, Shin YH, Skuja A, Tonwar SC, Wong K, Abercrombie D, Allen B, Baty A, Bi R, Brandt S, Busza W, Cali IA, D’Alfonso M, Ceballos GG, Goncharov M, Harris P, Hsu D, Hu M, Klute M, Kovalskyi D, Lee YJ, Luckey PD, Maier B, Marini AC, Mcginn C, Mironov C, Narayanan S, Niu X, Paus C, Rankin D, Roland C, Roland G, Shi Z, Stephans GSF, Sumorok K, Tatar K, Velicanu D, Wang J, Wang TW, Wyslouch B, Benvenuti AC, Chatterjee RM, Evans A, Guts S, Hansen P, Hiltbrand J, Jain S, Kubota Y, Lesko Z, Mans J, Rusack R, Wadud MA, Acosta JG, Oliveros S, Bloom K, Claes DR, Fangmeier C, Finco L, Golf F, Suarez RG, Kamalieddin R, Kravchenko I, Siado JE, Snow GR, Stieger B, Agarwal G, Harrington C, Iashvili I, Kharchilava A, McLean C, Nguyen D, Parker A, Pekkanen J, Rappoccio S, Roozbahani B, Alverson G, Barberis E, Freer C, Haddad Y, Hortiangtham A, Madigan G, Morse DM, Orimoto T, Skinnari L, Tishelman-Charny A, Wamorkar T, Wang B, Wisecarver A, Wood D, Bhattacharya S, Bueghly J, Gunter T, Hahn KA, Odell N, Schmitt MH, Sung K, Trovato M, Velasco M, Bucci R, Dev N, Goldouzian R, Hildreth M, Anampa KH, Jessop C, Karmgard DJ, Lannon K, Li W, Loukas N, Marinelli N, Mcalister I, Meng F, Mueller C, Musienko Y, Planer M, Ruchti R, Siddireddy P, Smith G, Taroni S, Wayne M, Wightman A, Wolf M, Woodard A, Alimena J, Bylsma B, Durkin LS, Flowers S, Francis B, Hill C, Ji W, Lefeld A, Ling TY, Winer BL, Cooperstein S, Dezoort G, Elmer P, Hardenbrook J, Haubrich N, Higginbotham S, Kalogeropoulos A, Kwan S, Lange D, Lucchini MT, Luo J, Marlow D, Mei K, Ojalvo I, Olsen J, Palmer C, Piroué P, Salfeld-Nebgen J, Stickland D, Tully C, Wang Z, Malik S, Norberg S, Barker A, Barnes VE, Das S, Gutay L, Jones M, Jung AW, Khatiwada A, Mahakud B, Miller DH, Negro G, Neumeister N, Peng CC, Piperov S, Qiu H, Schulte JF, Sun J, Wang F, Xiao R, Xie W, Cheng T, Dolen J, Parashar N, Ecklund KM, Freed S, Geurts FJM, Kilpatrick M, Kumar A, Li W, Padley BP, Redjimi R, Roberts J, Rorie J, Shi W, Leiton AGS, Tu Z, Zhang A, Bodek A, de Barbaro P, Demina R, Dulemba JL, Fallon C, Ferbel T, Galanti M, Garcia-Bellido A, Han J, Hindrichs O, Khukhunaishvili A, Ranken E, Tan P, Taus R, Chiarito B, Chou JP, Gandrakota A, Gershtein Y, Halkiadakis E, Hart A, Heindl M, Hughes E, Kaplan S, Kyriacou S, Laflotte I, Lath A, Montalvo R, Nash K, Osherson M, Saka H, Salur S, Schnetzer S, Sheffield D, Somalwar S, Stone R, Thomas S, Thomassen P, Acharya H, Delannoy AG, Riley G, Spanier S, Bouhali O, Celik A, Dalchenko M, De Mattia M, Delgado A, Dildick S, Eusebi R, Gilmore J, Huang T, Kamon T, Luo S, Marley D, Mueller R, Overton D, Perniè L, Rathjens D, Safonov A, Akchurin N, Damgov J, De Guio F, Kunori S, Lamichhane K, Lee SW, Mengke T, Muthumuni S, Peltola T, Undleeb S, Volobouev I, Wang Z, Whitbeck A, Greene S, Gurrola A, Janjam R, Johns W, Maguire C, Melo A, Ni H, Padeken K, Romeo F, Sheldon P, Tuo S, Velkovska J, Verweij M, Arenton MW, Barria P, Cox B, Cummings G, Hirosky R, Joyce M, Ledovskoy A, Neu C, Tannenwald B, Wang Y, Wolfe E, Xia F, Harr R, Karchin PE, Poudyal N, Sturdy J, Thapa P, Zaleski S, Buchanan J, Caillol C, Carlsmith D, Dasu S, De Bruyn I, Dodd L, Fiori F, Galloni C, Gomber B, He H, Herndon M, Hervé A, Hussain U, Klabbers P, Lanaro A, Loeliger A, Long K, Loveless R, Sreekala JM, Ruggles T, Savin A, Sharma V, Smith WH, Teague D, Trembath-reichert S, Woods N. Search for direct pair production of supersymmetric partners to the τ lepton in proton-proton collisions at s = 13 TeV. THE EUROPEAN PHYSICAL JOURNAL. C, PARTICLES AND FIELDS 2020; 80:189. [PMID: 32226948 PMCID: PMC7089724 DOI: 10.1140/epjc/s10052-020-7739-7] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/30/2019] [Accepted: 02/11/2020] [Indexed: 06/10/2023]
Abstract
A search is presented for τ slepton pairs produced in proton-proton collisions at a center-of-mass energy of 13TeV . The search is carried out in events containing two τ leptons in the final state, on the assumption that each τ slepton decays primarily to a τ lepton and a neutralino. Events are considered in which each τ lepton decays to one or more hadrons and a neutrino, or in which one of the τ leptons decays instead to an electron or a muon and two neutrinos. The data, collected with the CMS detector in 2016 and 2017, correspond to an integrated luminosity of 77.2fb - 1 . The observed data are consistent with the standard model background expectation. The results are used to set 95% confidence level upper limits on the cross section for τ slepton pair production in various models for τ slepton masses between 90 and 200GeV and neutralino masses of 1, 10, and 20GeV . In the case of purely left-handed τ slepton production and decay to a τ lepton and a neutralino with a mass of 1GeV , the strongest limit is obtained for a τ slepton mass of 125GeV at a factor of 1.14 larger than the theoretical cross section.
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Grants
- Austrian Federal Ministry of Education, Science, and Research
- Austrian Science Fund
- Belgian Fonds de la Recherche Scientifique
- Belgian Fonds voor Wetenschappelijk Onderzoek
- CNPq
- CAPES
- FAPERJ
- FAPERGS
- FAPESP
- Bulgarian Ministry of Education and Science
- CERN
- Chinese Academy of Sciences
- Ministry of Science and Technology
- Chinese National Natural Science Foundation of China
- Colombian Funding Agency (COLCIENCIAS)
- Croatian Ministry of Science, Education and Sport
- Croatian Science Foundation
- Research Promotion Foundation
- SENESCYT
- Ministry of Education and Research
- Estonian Research Council via PRG780, PRG803, and PRG445
- European Regional Development Fund
- Academy of Finland
- Finnish Ministry of Education and Culture
- Helsinki Institute of Physics
- Institut National de Physique Nucléaire et de Physique des Particules
- Centre National de la Recherche Scientifique
- Commissariat à l’Énergie Atomique et aux Énergies Alternatives
- Bundesministerium für Bildung und Forschung
- Deutsche Forschungsgemeinschaft
- Helmholtz-Gemeinschaft Deutscher Forschungszentren
- General Secretariat for Research and Technology
- National Research, Development and Innovation Fund
- Department of Atomic Energy
- Department of Science and Technology
- Institute for Research in Fundamental Studies
- Science Foundation
- Istituto Nazionale di Fisica Nucleare
- Korean Ministry of Education, Science and Technology
- National Research Foundation of Korea (NRF)
- MES
- Lithuanian Academy of Sciences
- Ministry of Education
- University of Malaya
- BUAP
- CINVESTAV
- CONACYT
- LNS
- SEP
- UASLP
- MOS
- Ministry of Business, Innovation and Employment
- Pakistan Atomic Energy Commission
- Ministry of Science and Higher Education
- National Science Centre
- Fundação para a Ciência e a Tecnologia
- JINR, Dubna
- Ministry of Education and Science of the Russian Federation
- Federal Agency of Atomic Energy of the Russian Federation
- Russian Academy of Sciences
- Russian Foundation for Basic Research
- National Research Center “Kurchatov Institute"
- Ministry of Education, Science and Technological Development of Serbia
- Secretaría de Estado de Investigación, Desarrollo e Innovación
- Programa Consolider-Ingenio 2010
- Plan de Ciencia, Tecnología e Innovación 2017-2020 del Principado de Asturias research project IDI-2018-000174
- Fondo Europeo de Desarrollo Regional, Spain
- MOSTR
- ETH Board
- ETH Zurich
- PSI
- SNF
- UniZH
- Canton Zurich
- SER
- Ministry of Science and Technology
- Thailand Center of Excellence in Physics
- Institute for the Promotion of Teaching Science and Technology of Thailand
- Special Task Force for Activating Research
- National Science and Technology Development Agency of Thailand
- Scientific and Technical Research Council of Turkey
- Turkish Atomic Energy Authority
- National Academy of Sciences of Ukraine
- Science and Technology Facilities Council
- US Department of Energy
- US National Science Foundation
- Marie-Curie programme
- European Research Council and EPLANET (European Union)
- Horizon 2020 Grant, contract Nos. 675440, 752730, and 765710 (European Union)
- Leventis Foundation
- Alfred P. Sloan Foundation
- Alexander von Humboldt Foundation
- Belgian Federal Science Policy Office
- Fonds pour la Formation à la Recherche dans l’Industrie et dans l’Agriculture (FRIA-Belgium)
- Agentschap voor Innovatie door Wetenschap en Technologie (IWT-Belgium)
- Belgian Fonds de la Recherche Scientifique, "Excellence of Science - EOS" - be.h project n. 30820817
- Belgian Fonds voor Wetenschappelijk Onderzoek, "Excellence of Science - EOS" - be.h project n. 30820817
- Beijing Municipal Science & Technology Commission No. Z191100007219010
- Ministry of Education, Youth and Sports (MEYS) of the Czech Republic
- Deutsche Forschungsgemeinschaft (DFG) under Germany’s Excellence Strategy - EXC 2121 "Quantum Universe" – 390833306
- Lendúlet ("Momentum") Programme and the János Bolyai Research Scholarship of the Hungarian Academy of Sciences
- New National Excellence Program ÚNKP, the NKFIA research Grants 123842, 123959, 124845, 124850and, 125105, 128713, 128786, and 129058
- Council of Scientific and Industrial Research, India
- HOMING PLUS programme of Foundation for Polish Science, cofinanced from European Union, Regional Development Fund
- National Science Center, contracts Harmonia 2014/14/M/ST2/00428, Opus 2014/13/B/ST2/02543, 2014/15/B/ST2/03998, and 2015/19/B/ST2/02861, Sonata-bis 2012/07/E/ST2/01406
- National Priorities Research Program by Qatar National Research Fund
- Ministry of Science and Education, Grant no. 14.W03.31.0026
- Programa Estatal de Fomento de la Investigación Científica y Técnica de Excelencia María de Maeztu, Grant MDM-2015-0509
- Programa Severo Ochoa del Principado de Asturias
- Thalis and Aristeia programmes cofinanced by EU-ESF and the Greek NSRF
- Rachadapisek Sompot Fund for Postdoctoral Fellowship, Chulalongkorn University (Thailand)
- CUAASC
- Kavli Foundation
- Nvidia Corporation
- Welch Foundation, contract C-1845
- Weston Havens Foundation
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Nazri HM, Imran M, Fischer R, Heilig R, Manek S, Dragovic RA, Kessler BM, Zondervan KT, Tapmeier TT, Becker CM. Characterization of exosomes in peritoneal fluid of endometriosis patients. Fertil Steril 2020; 113:364-373.e2. [PMID: 32106990 PMCID: PMC7057257 DOI: 10.1016/j.fertnstert.2019.09.032] [Citation(s) in RCA: 31] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2019] [Revised: 09/11/2019] [Accepted: 09/23/2019] [Indexed: 12/12/2022]
Abstract
OBJECTIVE To demonstrate the feasibility of studying exosomes directly from peritoneal fluid, we isolated exosomes from endometriosis patient samples and from controls, and characterized their cargo. DESIGN Case-control experimental study. SETTING Academic clinical center. PATIENT (S) Women with and without endometriosis who underwent laparoscopic surgery (n = 28 in total). INTERVENTION (S) None. MAIN OUTCOME MEASURE (S) Concentration of exosomes within peritoneal fluid and protein content of the isolated exosomes. RESULT (S) Peritoneal fluid samples were pooled according to the cycle phase and disease stage to form six experimental groups, from which the exosomes were isolated. Exosomes were successfully isolated from peritoneal fluid in all the study groups. The concentration varied with cycle phase and disease stage. Proteomic analysis showed specific proteins in the exosomes derived from endometriosis patients that were absent in the controls. Five proteins were found exclusively in the endometriosis groups: PRDX1, H2A type 2-C, ANXA2, ITIH4, and the tubulin α-chain. CONCLUSION (S) Exosomes are present in peritoneal fluid. The characterization of endometriosis-specific exosomes opens up new avenues for the diagnosis and investigation of endometriosis.
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Negro G, Neumeister N, Peng CC, Piperov S, Qiu H, Schulte JF, Sun J, Wang F, Xiao R, Xie W, Cheng T, Dolen J, Parashar N, Chen Z, Ecklund KM, Freed S, Geurts FJM, Kilpatrick M, Kumar A, Li W, Padley BP, Roberts J, Rorie J, Shi W, Stahl Leiton AG, Tu Z, Zhang A, Bodek A, de Barbaro P, Demina R, Duh YT, Dulemba JL, Fallon C, Ferbel T, Galanti M, Garcia-Bellido A, Han J, Hindrichs O, Khukhunaishvili A, Ranken E, Tan P, Taus R, Chiarito B, Chou JP, Gershtein Y, Halkiadakis E, Hart A, Heindl M, Hughes E, Kaplan S, Kyriacou S, Laflotte I, Lath A, Montalvo R, Nash K, Osherson M, Saka H, Salur S, Schnetzer S, Sheffield D, Somalwar S, Stone R, Thomas S, Thomassen P, Acharya H, Delannoy AG, Heideman J, Riley G, Spanier S, Bouhali O, Celik A, Dalchenko M, De Mattia M, Delgado A, Dildick S, Eusebi R, Gilmore J, Huang T, Kamon T, Luo S, Marley D, Mueller R, Overton D, Perniè L, Rathjens D, Safonov A, Akchurin N, Damgov J, De Guio F, Dudero PR, Kunori S, Lamichhane K, Lee SW, Mengke T, Muthumuni S, Peltola T, Undleeb S, Volobouev I, Wang Z, Whitbeck A, Greene S, Gurrola A, Janjam R, Johns W, Maguire C, Melo A, Ni H, Padeken K, Romeo F, Sheldon P, Tuo S, Velkovska J, Verweij M, Xu Q, Arenton MW, Barria P, Cox B, Hirosky R, Joyce M, Ledovskoy A, Li H, Neu C, Wang Y, Wolfe E, Xia F, Harr R, Karchin PE, Poudyal N, Sturdy J, Thapa P, Zaleski S, Buchanan J, Caillol C, Carlsmith D, Dasu S, De Bruyn I, Dodd L, Gomber B, Grothe M, Herndon M, Hervé A, Hussain U, Klabbers P, Lanaro A, Long K, Loveless R, Ruggles T, Savin A, Sharma V, Smith WH, Woods N. Measurement of electroweak production of a W boson in association with two jets in proton-proton collisions at s = 13 Te . THE EUROPEAN PHYSICAL JOURNAL. C, PARTICLES AND FIELDS 2020; 80:43. [PMID: 32026888 PMCID: PMC6977157 DOI: 10.1140/epjc/s10052-019-7585-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/10/2019] [Accepted: 12/22/2019] [Indexed: 06/10/2023]
Abstract
A measurement is presented of electroweak (EW) production of a W boson in association with two jets in proton-proton collisions ats = 13 Te . The data sample was recorded by the CMS Collaboration at the LHC and corresponds to an integrated luminosity of 35.9fb - 1 . The measurement is performed for the ℓ ν jj final state (with ℓ ν indicating a lepton-neutrino pair, and j representing the quarks produced in the hard interaction) in a kinematic region defined by invariant massm jj > 120 Ge and transverse momentap T j > 25 Ge . The cross section of the process is measured in the electron and muon channels yieldingσ EW ( W jj ) = 6.23 ± 0.12 (stat) ± 0.61 (syst) pb per channel, in agreement with leading-order standard model predictions. The additional hadronic activity of events in a signal-enriched region is studied, and the measurements are compared with predictions. The final state is also used to perform a search for anomalous trilinear gauge couplings. Limits on anomalous trilinear gauge couplings associated with dimension-six operators are given in the framework of an effective field theory. The corresponding 95% confidence level intervals are - 2.3 < c W W W / Λ 2 < 2.5 Te - 2 , - 8.8 < c W / Λ 2 < 16 Te - 2 , and - 45 < c B / Λ 2 < 46 Te - 2 . These results are combined with the CMS EW Zjj analysis, yielding the constraint on the c W W W coupling: - 1.8 < c W W W / Λ 2 < 2.0 Te - 2 .
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Grants
- Austrian Federal Ministry of Education, Science, and Research
- Austrian Science Fund
- Belgian Fonds de la Recherche Scientifique
- Belgian Fonds voor Wetenschappelijk Onderzoek
- CNPq
- CAPES
- FAPERJ
- FAPERGS
- FAPESP
- Bulgarian Ministry of Education and Science
- CERN
- Chinese Academy of Sciences
- Ministry of Science and Technology
- Chinese National Natural Science Foundation of China
- Colombian Funding Agency (COLCIENCIAS)
- Croatian Ministry of Science, Education and Sport
- Croatian Science Foundation
- Research Promotion Foundation
- SENESCYT
- Ministry of Education and Research
- Estonian Research Council via IUT23-4 and IUT23-6
- European Regional Development Fund
- Academy of Finland
- Finnish Ministry of Education and Culture
- Helsinki Institute of Physics
- Institut National de Physique Nucléaire et de Physique des Particules
- Centre National de la Recherche Scientifique
- Commissariat à l’Énergie Atomique et aux Énergies Alternatives
- Bundesministerium für Bildung und Forschung
- Deutsche Forschungsgemeinschaft
- Helmholtz-Gemeinschaft Deutscher Forschungszentren
- General Secretariat for Research and Technology
- National Research, Development and Innovation Fund
- Department of Atomic Energy
- Department of Science and Technology
- Institute for Research in Fundamental Studies
- Science Foundation
- Istituto Nazionale di Fisica Nucleare
- Korean Ministry of Education, Science and Technology
- National Research Foundation of Korea (NRF)
- MES
- Lithuanian Academy of Sciences
- Ministry of Education
- University of Malaya
- BUAP
- CINVESTAV
- CONACYT
- LNS
- SEP
- UASLP
- MOS
- Ministry of Business, Innovation and Employment
- Pakistan Atomic Energy Commission
- Ministry of Science and Higher Education
- National Science Centre
- Fundação para a Ciência e a Tecnologia
- JINR, Dubna
- Ministry of Education and Science of the Russian Federation
- Federal Agency of Atomic Energy of the Russian Federation
- Russian Academy of Sciences
- Russian Foundation for Basic Research
- National Research Center “Kurchatov Institute"
- Ministry of Education, Science and Technological Development of Serbia
- Secretaría de Estado de Investigación, Desarrollo e Innovación
- Programa Consolider-Ingenio 2010
- Plan de Ciencia, Tecnología e Innovación 2013-2017 del Principado de Asturias
- Fondo Europeo de Desarrollo Regional, Spain
- MOSTR
- ETH Board
- ETH Zurich
- PSI
- SNF
- UniZH
- Canton Zurich
- SER
- Ministry of Science and Technology
- Thailand Center of Excellence in Physics
- Institute for the Promotion of Teaching Science and Technology of Thailand
- Special Task Force for Activating Research
- National Science and Technology Development Agency of Thailand
- Scientific and Technical Research Council of Turkey
- Turkish Atomic Energy Authority
- National Academy of Sciences of Ukraine
- State Fund for Fundamental Researches
- Science and Technology Facilities Council
- US Department of Energy
- US National Science Foundation
- Marie-Curie programme
- European Research Council and EPLANET (European Union)
- Horizon 2020 Grant, contract Nox. 675440 and 765710 (European Union)
- Leventis Foundation
- Alfred P. Sloan Foundation
- Alexander von Humboldt Foundation
- Belgian Federal Science Policy Office
- Fonds pour la Formation à la Recherche dans l’Industrie et dans l’Agriculture (FRIA-Belgium)
- Agentschap voor Innovatie door Wetenschap en Technologie (IWT-Belgium)
- Belgian Fonds de la Recherche Scientifique, "Excellence of Science - EOS" - be.h project n. 30820817
- Belgian Fonds voor Wetenschappelijk Onderzoek, "Excellence of Science - EOS" - be.h project n. 30820817
- Beijing Municipal Science & Technology Commission No. Z181100004218003
- Ministry of Education, Youth and Sports (MEYS) of the Czech Republic
- Lendúlet ("Momentum") Programme and the János Bolyai Research Scholarship of the Hungarian Academy of Sciences
- New National Excellence Program ÚNKP, the NKFIA research Grants 123842, 123959, 124845, 124850and, 125105, 128713, 128786, and 129058
- Council of Scientific and Industrial Research, India
- HOMING PLUS programme of Foundation for Polish Science, cofinanced from European Union, Regional Development Fund
- National Science Center, contracts Harmonia 2014/14/M/ST2/00428, Opus 2014/13/B/ST2/02543, 2014/15/B/ST2/03998, and 2015/19/B/ST2/02861, Sonata-bis 2012/07/E/ST2/01406
- National Priorities Research Program by Qatar National Research Fund
- Programa Estatal de Fomento de la Investigación Científica y Técnica de Excelencia María de Maeztu, Grant MDM-2015-0509
- Programa Severo Ochoa del Principado de Asturias
- Thalis and Aristeia programmes cofinanced by EU-ESF and the Greek NSRF
- Rachadapisek Sompot Fund for Postdoctoral Fellowship, Chulalongkorn University (Thailand)
- CUAASC
- Welch Foundation, contract C-1845
- Weston Havens Foundation
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Negra M, Di Maria R, Hall G, Iles G, James T, Komm M, Lyons L, Magnan AM, Malik S, Martelli A, Nash J, Nikitenko A, Palladino V, Pesaresi M, Raymond DM, Richards A, Rose A, Scott E, Seez C, Shtipliyski A, Singh G, Stoye M, Strebler T, Summers S, Tapper A, Uchida K, Virdee T, Wardle N, Winterbottom D, Zenz SC, Cole JE, Hobson PR, Khan A, Kyberd P, Mackay CK, Morton A, Reid ID, Teodorescu L, Zahid S, Call K, Dittmann J, Hatakeyama K, Liu H, Madrid C, McMaster B, Pastika N, Smith C, Bartek R, Dominguez A, Buccilli A, Cooper SI, Henderson C, Rumerio P, West C, Arcaro D, Bose T, Gastler D, Girgis S, Pinna D, Rankin D, Richardson C, Rohlf J, Sulak L, Zou D, Benelli G, Coubez X, Cutts D, Hadley M, Hakala J, Heintz U, Hogan JM, Kwok KHM, Laird E, Landsberg G, Lee J, Mao Z, Narain M, Sagir S, Syarif R, Usai E, Yu D, Band R, Brainerd C, Breedon R, Burns D, De La Barca Sanchez MC, Chertok M, Conway J, Conway R, Cox PT, Erbacher R, Flores C, Funk G, Ko W, Kukral O, Lander R, Mulhearn M, Pellett D, Pilot J, Shalhout S, Shi M, Stolp D, Taylor D, Tos K, Tripathi M, Wang Z, Zhang F, Bachtis M, Bravo C, Cousins R, Dasgupta A, Florent A, Hauser J, Ignatenko M, Mccoll N, Regnard S, Saltzberg D, Schnaible C, Valuev V, Bouvier E, Burt K, Clare R, Gary JW, Shirazi SMAG, Hanson G, Karapostoli G, Kennedy E, Lacroix F, Long OR, Negrete MO, Paneva MI, Si W, Wang L, Wei H, Wimpenny S, Yates BR, Branson JG, Chang P, Cittolin S, Derdzinski M, Gerosa R, Gilbert D, Hashemi B, Holzner A, Klein D, Kole G, Krutelyov V, Letts J, Masciovecchio M, Olivito D, Padhi S, Pieri M, Sharma V, Simon S, Tadel M, Wood J, Würthwein F, Yagil A, Della Porta GZ, Amin N, Bhandari R, Campagnari C, Citron M, Dutta V, Sevilla MF, Gouskos L, Heller R, Incandela J, Mei H, Ovcharova A, Qu H, Richman J, Stuart D, Suarez I, Wang S, Yoo J, Anderson D, Bornheim A, Lawhorn JM, Lu N, Newman HB, Nguyen TQ, Pata J, Spiropulu M, Vlimant JR, Wilkinson R, Xie S, Zhang Z, Zhu RY, Andrews MB, Ferguson T, Mudholkar T, Paulini M, Sun M, Vorobiev I, Weinberg M, Cumalat JP, Ford WT, Jensen F, Johnson A, MacDonald E, Mulholland T, Patel R, Perloff A, Stenson K, Ulmer KA, Wagner SR, Alexander J, Chaves J, Cheng Y, Chu J, Datta A, Mcdermott K, Mirman N, Patterson JR, Quach D, Rinkevicius A, Ryd A, Skinnari L, Soffi L, Tan SM, Tao Z, Thom J, Tucker J, Wittich P, Zientek M, Abdullin S, Albrow M, Alyari M, Apollinari G, Apresyan A, Apyan A, Banerjee S, Bauerdick LAT, Beretvas A, Berryhill J, Bhat PC, Burkett K, Butler JN, Canepa A, Cerati GB, Cheung HWK, Chlebana F, Cremonesi M, Duarte J, Elvira VD, Freeman J, Gecse Z, Gottschalk E, Gray L, Green D, Grünendahl S, Gutsche O, Hanlon J, Harris RM, Hasegawa S, Hirschauer J, Hu Z, Jayatilaka B, Jindariani S, Johnson M, Joshi U, Klima B, Kortelainen MJ, Kreis B, Lammel S, Lincoln D, Lipton R, Liu M, Liu T, Lykken J, Maeshima K, Marraffino JM, Mason D, McBride P, Merkel P, Mrenna S, Nahn S, O’Dell V, Pedro K, Pena C, Prokofyev O, Rakness G, Ravera F, Reinsvold A, Ristori L, Savoy-Navarro A, Schneider B, Sexton-Kennedy E, Soha A, Spalding WJ, Spiegel L, Stoynev S, Strait J, Strobbe N, Taylor L, Tkaczyk S, Tran NV, Uplegger L, Vaandering EW, Vernieri C, Verzocchi M, Vidal R, Wang M, Weber HA, Whitbeck A, Acosta D, Avery P, Bortignon P, Bourilkov D, Brinkerhoff A, Cadamuro L, Carnes A, Curry D, Field RD, Gleyzer SV, Joshi BM, Konigsberg J, Korytov A, Lo KH, Ma P, Matchev K, Mitselmakher G, Rosenzweig D, Shi K, Sperka D, Wang J, Wang S, Zuo X, Joshi YR, Linn S, Ackert A, Adams T, Askew A, Hagopian S, Hagopian V, Johnson KF, Kolberg T, Martinez G, Perry T, Prosper H, Saha A, Schiber C, Yohay R, Baarmand MM, Bhopatkar V, Colafranceschi S, Hohlmann M, Noonan D, Rahmani M, Roy T, Saunders M, Yumiceva F, Adams MR, Apanasevich L, Berry D, Betts RR, Cavanaugh R, Chen X, Dittmer S, Evdokimov O, Gerber CE, Hangal DA, Hofman DJ, Jung K, Kamin J, Mills C, Tonjes MB, Varelas N, Wang H, Wang X, Wu Z, Zhang J, Alhusseini M, Bilki B, Clarida W, Dilsiz K, Durgut S, Gandrajula RP, Haytmyradov M, Khristenko V, Merlo JP, Mestvirishvili A, Moeller A, Nachtman J, Ogul H, Onel Y, Ozok F, Penzo A, Snyder C, Tiras E, Wetzel J, Blumenfeld B, Cocoros A, Eminizer N, Fehling D, Feng L, Gritsan AV, Hung WT, Maksimovic P, Roskes J, Sarica U, Swartz M, Xiao M, Al-bataineh A, Baringer P, Bean A, Boren S, Bowen J, Bylinkin A, Castle J, Khalil S, Kropivnitskaya A, Majumder D, Mcbrayer W, Murray M, Rogan C, Sanders S, Schmitz E, Takaki JDT, Wang Q, Duric S, Ivanov A, Kaadze K, Kim D, Maravin Y, Mendis DR, Mitchell T, Modak A, Mohammadi A, Rebassoo F, Wright D, Baden A, Baron O, Belloni A, Eno SC, Feng Y, Ferraioli C, Hadley NJ, Jabeen S, Jeng GY, Kellogg RG, Kunkle J, Mignerey AC, Nabili S, Ricci-Tam F, Seidel M, Shin YH, Skuja A, Tonwar SC, Wong K, Abercrombie D, Allen B, Azzolini V, Baty A, Bauer G, Bi R, Brandt S, Busza W, Cali IA, D’Alfonso M, Demiragli Z, Ceballos GG, Goncharov M, Harris P, Hsu D, Hu M, Iiyama Y, Innocenti GM, Klute M, Kovalskyi D, Lee YJ, Luckey PD, Maier B, Marini AC, Mcginn C, Mironov C, Narayanan S, Niu X, Paus C, Roland C, Roland G, Shi Z, Stephans GSF, Sumorok K, Tatar K, Velicanu D, Wang J, Wang TW, Wyslouch B, Benvenuti AC, Chatterjee RM, Evans A, Hansen P, Hiltbrand J, Jain S, Kalafut S, Krohn M, Kubota Y, Lesko Z, Mans J, Ruckstuhl N, Rusack R, Wadud MA, Acosta JG, Oliveros S, Avdeeva E, Bloom K, Claes DR, Fangmeier C, Golf F, Suarez RG, Kamalieddin R, Kravchenko I, Monroy J, Siado JE, Snow GR, Stieger B, Godshalk A, Harrington C, Iashvili I, Kharchilava A, Mclean C, Nguyen D, Parker A, Rappoccio S, Roozbahani B, Alverson G, Barberis E, Freer C, Haddad Y, Hortiangtham A, Madigan G, Morse DM, Orimoto T, Tishelman-charny A, Wamorkar T, Wang B, Wisecarver A, Wood D, Bhattacharya S, Bueghly J, Charaf O, Gunter T, Hahn KA, Odell N, Schmitt MH, Sung K, Trovato M, Velasco M, Bucci R, Dev N, Hildreth M, Anampa KH, Jessop C, Karmgard DJ, Lannon K, Li W, Loukas N, Marinelli N, Meng F, Mueller C, Musienko Y, Planer M, Ruchti R, Siddireddy P, Smith G, Taroni S, Wayne M, Wightman A, Wolf M, Woodard A, Alimena J, Antonelli L, Bylsma B, Durkin LS, Flowers S, Francis B, Hill C, Ji W, Ling TY, Luo W, Winer BL, Cooperstein S, Elmer P, Hardenbrook J, Haubrich N, Higginbotham S, Kalogeropoulos A, Kwan S, Lange D, Lucchini MT, Luo J, Marlow D, Mei K, Ojalvo I, Olsen J, Palmer C, Piroué P, Salfeld-Nebgen J, Stickland D, Tully C, Malik S, Norberg S, Barker A, Barnes VE, Das S, Gutay L, Jones M, Jung AW, Khatiwada A, Mahakud B, Miller DH, Neumeister N, Peng CC, Piperov S, Qiu H, Schulte JF, Sun J, Wang F, Xiao R, Xie W, Cheng T, Dolen J, Parashar N, Chen Z, Ecklund KM, Freed S, Geurts FJM, Kilpatrick M, Kumar A, Li W, Padley BP, Redjimi R, Roberts J, Rorie J, Shi W, Tu Z, Zhang A, Bodek A, de Barbaro P, Demina R, Duh YT, Dulemba JL, Fallon C, Ferbel T, Galanti M, Garcia-Bellido A, Han J, Hindrichs O, Khukhunaishvili A, Ranken E, Tan P, Taus R, Chiarito B, Chou JP, Gershtein Y, Halkiadakis E, Hart A, Heindl M, Hughes E, Kaplan S, Elayavalli RK, Kyriacou S, Laflotte I, Lath A, Montalvo R, Nash K, Osherson M, Saka H, Salur S, Schnetzer S, Sheffield D, Somalwar S, Stone R, Thomas S, Thomassen P, Delannoy AG, Heideman J, Riley G, Spanier S, Bouhali O, Celik A, Dalchenko M, De Mattia M, Delgado A, Dildick S, Eusebi R, Gilmore J, Huang T, Kamon T, Luo S, Marley D, Mueller R, Overton D, Perniè L, Rathjens D, Safonov A, Akchurin N, Damgov J, De Guio F, Dudero PR, Kunori S, Lamichhane K, Lee SW, Mengke T, Muthumuni S, Peltola T, Undleeb S, Volobouev I, Wang Z, Greene S, Gurrola A, Janjam R, Johns W, Maguire C, Melo A, Ni H, Padeken K, Romeo F, Alvarez JDR, Sheldon P, Tuo S, Velkovska J, Verweij M, Xu Q, Arenton MW, Barria P, Cox B, Hirosky R, Joyce M, Ledovskoy A, Li H, Neu C, Sinthuprasith T, Wang Y, Wolfe E, Xia F, Harr R, Karchin PE, Poudyal N, Sturdy J, Thapa P, Zaleski S, Buchanan J, Caillol C, Carlsmith D, Dasu S, De Bruyn I, Dodd L, Gomber B, Grothe M, Herndon M, Hervé A, Hussain U, Klabbers P, Lanaro A, Long K, Loveless R, Ruggles T, Savin A, Sharma V, Smith N, Smith WH, Woods N. Extraction and validation of a new set of CMS pythia8 tunes from underlying-event measurements. THE EUROPEAN PHYSICAL JOURNAL. C, PARTICLES AND FIELDS 2020; 80:4. [PMID: 31976986 PMCID: PMC6944267 DOI: 10.1140/epjc/s10052-019-7499-4] [Citation(s) in RCA: 61] [Impact Index Per Article: 15.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/28/2019] [Accepted: 11/20/2019] [Indexed: 05/26/2023]
Abstract
New sets of CMS underlying-event parameters ("tunes") are presented for the pythia8 event generator. These tunes use the NNPDF3.1 parton distribution functions (PDFs) at leading (LO), next-to-leading (NLO), or next-to-next-to-leading (NNLO) orders in perturbative quantum chromodynamics, and the strong coupling evolution at LO or NLO. Measurements of charged-particle multiplicity and transverse momentum densities at various hadron collision energies are fit simultaneously to determine the parameters of the tunes. Comparisons of the predictions of the new tunes are provided for observables sensitive to the event shapes at LEP, global underlying event, soft multiparton interactions, and double-parton scattering contributions. In addition, comparisons are made for observables measured in various specific processes, such as multijet, Drell-Yan, and top quark-antiquark pair production including jet substructure observables. The simulation of the underlying event provided by the new tunes is interfaced to a higher-order matrix-element calculation. For the first time, predictions from pythia8 obtained with tunes based on NLO or NNLO PDFs are shown to reliably describe minimum-bias and underlying-event data with a similar level of agreement to predictions from tunes using LO PDF sets.
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Grants
- Austrian Federal Ministry of Science, Research and Economy
- Austrian Science Fund
- Belgian Fonds de la Recherche Scientifique
- Belgian Fonds voor Wetenschappelijk Onderzoek
- CNPq
- CAPES
- FAPERJ
- FAPERGS
- FAPESP
- Bulgarian Ministry of Education and Science
- CERN
- Chinese Academy of Sciences
- Ministry of Science and Technology
- Chinese National Natural Science Foundation of China
- Colombian Funding Agency (COLCIENCIAS)
- Croatian Ministry of Science, Education and Sport
- Croatian Science Foundation
- Research Promotion Foundation
- SENESCYT
- Ministry of Education and Research
- Estonian Research Council via IUT23-4 and IUT23-6
- European Regional Development Fund
- Academy of Finland
- Finnish Ministry of Education and Culture
- Helsinki Institute of Physics
- Institut National de Physique Nucléaire et de Physique des Particules
- Centre National de la Recherche Scientifique
- Commissariat à l’Énergie Atomique et aux Énergies Alternatives
- Bundesministerium für Bildung und Forschung
- Deutsche Forschungsgemeinschaft
- Helmholtz-Gemeinschaft Deutscher Forschungszentren
- General Secretariat for Research and Technology
- National Scientific Research Foundation
- National Innovation Office
- Department of Atomic Energy
- Department of Science and Technology
- Institute for Research in Fundamental Studies
- Science Foundation
- Istituto Nazionale di Fisica Nucleare
- Korean Ministry of Education, Science and Technology
- National Research Foundation of Korea (NRF)
- Lithuanian Academy of Sciences
- Ministry of Education
- University of Malaya
- BUAP
- CINVESTAV
- CONACYT
- LNS
- SEP
- UASLP
- Ministry of Business, Innovation and Employment
- Pakistan Atomic Energy Commission
- Ministry of Science and Higher Education
- National Science Centre
- Fundação para a Ciência e a Tecnologia
- JINR, Dubna
- Ministry of Education and Science of the Russian Federation
- Federal Agency of Atomic Energy of the Russian Federation
- Russian Academy of Sciences
- Russian Foundation for Basic Research
- National Research Center “Kurchatov Institute"
- Ministry of Education, Science and Technological Development of Serbia
- Secretaría de Estado de Investigación, Desarrollo e Innovación
- Programa Consolider-Ingenio 2010
- Plan de Ciencia, Tecnología e Innovación 2017-2020 del Principado de Asturias
- Fondo Europeo de Desarrollo Regional, Spain
- ETH Board
- ETH Zurich
- PSI
- SNF
- UniZH
- Canton Zurich
- SER
- Ministry of Science and Technology
- Thailand Center of Excellence in Physics
- Institute for the Promotion of Teaching Science and Technology of Thailand
- Special Task Force for Activating Research
- National Science and Technology Development Agency of Thailand
- Scientific and Technical Research Council of Turkey
- Turkish Atomic Energy Authority
- National Academy of Sciences of Ukraine
- State Fund for Fundamental Researches
- Science and Technology Facilities Council
- US Department of Energy
- US National Science Foundation
- Marie-Curie programme
- European Research Council and EPLANET (European Union)
- Horizon 2020 Grant, contract Nos. 675440, 752730, and 765710 (European Union)
- Leventis Foundation
- Alfred P. Sloan Foundation
- Alexander von Humboldt Foundation
- Belgian Federal Science Policy Office
- Fonds pour la Formation à la Recherche dans l’Industrie et dans l’Agriculture (FRIA-Belgium)
- Agentschap voor Innovatie door Wetenschap en Technologie (IWT-Belgium)
- Belgian Fonds de la Recherche Scientifique, "Excellence of Science - EOS" - be.h project n. 30820817
- Belgian Fonds voor Wetenschappelijk Onderzoek, “Excellence of Science—EOS”—be.h project n. 30820817
- Beijing Municipal Science & Technology Commission, No. Z181100004218003
- Ministry of Education, Youth and Sports (MEYS) of the Czech Republic
- Lendúlet (“Momentum”) Programme and the János Bolyai Research Scholarship of the Hungarian Academy of Sciences
- New National Excellence Program ÚNKP, the NKFIA research grants 123842, 123959, 124845, 124850, 125105, 128713, 128786, and 129058
- Council of Scientific and Industrial Research, India
- HOMING PLUS programme of Foundation for Polish Science, cofinanced from European Union, Regional Development Fund
- National Science Center, contracts Harmonia 2014/14/M/ST2/00428, Opus 2014/13/B/ST2/02543, 2014/15/B/ST2/03998, and 2015/19/B/ST2/02861, Sonata-bis 2012/07/E/ST2/01406
- National Priorities Research Program by Qatar National Research Fund
- Ministry of Science and Education, grant no. 3.2989.2017
- Programa Estatal de Fomento de la Investigación Científica y Técnica de Excelencia María de Maeztu, grant MDM-2015-0509
- Programa Severo Ochoa del Principado de Asturias
- Thalis and Aristeia programmes cofinanced by EU-ESF and the Greek NSRF
- Rachadapisek Sompot Fund for Postdoctoral Fellowship, Chulalongkorn University (Thailand)
- CUAASC
- Welch Foundation, contract C-1845
- Weston Havens Foundation
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Padutsch T, Sendetski M, Huber C, Peters N, Pfizenmaier K, Bethea JR, Kontermann RE, Fischer R. Superior Treg-Expanding Properties of a Novel Dual-Acting Cytokine Fusion Protein. Front Pharmacol 2019; 10:1490. [PMID: 31920671 PMCID: PMC6930692 DOI: 10.3389/fphar.2019.01490] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2019] [Accepted: 11/19/2019] [Indexed: 11/13/2022] Open
Abstract
Autoimmune diseases are caused by uncontrolled endogenous immune responses against healthy cells. They may develop due to an impaired function of regulatory T cells (Tregs), which normally suppress self-specific effector immune cells. Interleukin 2 (IL-2) and tumor necrosis factor (TNF) have been identified as key players that promote expansion, function, and stability of Tregs. In vivo, both low-dose IL-2 therapy and TNF receptor 2 (TNFR2) agonism were shown to expand Tregs and alleviate autoimmunity. We here designed a novel dimeric dual-acting fusion cytokine, where mouse IL-2 is genetically linked to a TNFR2-selective single-chain TNF mutein (IL2-EHD2-sc-mTNFR2). IL2-EHD2-sc-mTNFR2 showed high affinity to TNFR2 and efficiently activated IL-2 and TNFR2-selective signaling pathways. Further, IL2-EHD2-sc-mTNFR2 promoted superior Treg expansion, with both the IL-2 and the TNFR2 agonist (sc-mTNFR2) component necessary for this biological response. Ultimately, we propose that IL2-EHD2-sc-mTNFR2 is a dual-acting cytokine that efficiently promotes Treg expansion and might have a superior therapeutic window than conventional IL-2-based drugs.
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Hirschauer J, Jayatilaka B, Jindariani S, Johnson M, Joshi U, Klima B, Kortelainen MJ, Kreis B, Lammel S, Lewis J, Lincoln D, Lipton R, Liu M, Liu T, Lykken J, Maeshima K, Marraffino JM, Mason D, McBride P, Merkel P, Mrenna S, Nahn S, O'Dell V, Papadimitriou V, Pedro K, Pena C, Rakness G, Ravera F, Ristori L, Schneider B, Sexton-Kennedy E, Smith N, Soha A, Spalding WJ, Spiegel L, Stoynev S, Strait J, Strobbe N, Taylor L, Tkaczyk S, Tran NV, Uplegger L, Vaandering EW, Vernieri C, Verzocchi M, Vidal R, Wang M, Weber HA, Acosta D, Avery P, Bortignon P, Bourilkov D, Brinkerhoff A, Cadamuro L, Carnes A, Cherepanov V, Curry D, Errico F, Field RD, Gleyzer SV, Joshi BM, Kim M, Konigsberg J, Korytov A, Lo KH, Ma P, Matchev K, Menendez N, Mitselmakher G, Rosenzweig D, Shi K, Wang J, Wang S, Zuo X, Joshi YR, Adams T, Askew A, Hagopian S, Hagopian V, Johnson KF, Khurana R, Kolberg T, Martinez G, Perry T, Prosper H, Schiber C, Yohay R, Zhang J, Baarmand MM, Bhopatkar V, Hohlmann M, Noonan D, Rahmani M, Saunders M, Yumiceva F, Adams MR, Apanasevich L, Berry D, Betts RR, Cavanaugh R, Chen X, Dittmer S, Evdokimov O, Gerber CE, Hangal DA, Hofman DJ, Jung K, Mills C, Roy T, Tonjes MB, Varelas N, Wang H, Wang X, Wu Z, Alhusseini M, Bilki B, Clarida W, Dilsiz K, Durgut S, Gandrajula RP, Haytmyradov M, Khristenko V, Köseyan OK, Merlo JP, Mestvirishvili A, Moeller A, Nachtman J, Ogul H, Onel Y, Ozok F, Penzo A, Snyder C, Tiras E, Wetzel J, Blumenfeld B, Cocoros A, Eminizer N, Fehling D, Feng L, Gritsan AV, Hung WT, Maksimovic P, Roskes J, Swartz M, Xiao M, Baldenegro Barrera C, Baringer P, Bean A, Boren S, Bowen J, Bylinkin A, Isidori T, Khalil S, King J, Krintiras G, Kropivnitskaya A, Lindsey C, Majumder D, Mcbrayer W, Minafra N, Murray M, Rogan C, Royon C, Sanders S, Schmitz E, Tapia Takaki JD, Wang Q, Williams J, Wilson G, Duric S, Ivanov A, Kaadze K, Kim D, Maravin Y, Mendis DR, Mitchell T, Modak A, Mohammadi A, Rebassoo F, Wright D, Baden A, Baron O, Belloni A, Eno SC, Feng Y, Hadley NJ, Jabeen S, Jeng GY, Kellogg RG, Kunkle J, Mignerey AC, Nabili S, Ricci-Tam F, Seidel M, Shin YH, Skuja A, Tonwar SC, Wong K, Abercrombie D, Allen B, Baty A, Bi R, Brandt S, Busza W, Cali IA, D'Alfonso M, Gomez Ceballos G, Goncharov M, Harris P, Hsu D, Hu M, Klute M, Kovalskyi D, Lee YJ, Luckey PD, Maier B, Marini AC, Mcginn C, Mironov C, Narayanan S, Niu X, Paus C, Rankin D, Roland C, Roland G, Shi Z, Stephans GSF, Sumorok K, Tatar K, Velicanu D, Wang J, Wang TW, Wyslouch B, Benvenuti AC, Chatterjee RM, Evans A, Guts S, Hansen P, Hiltbrand J, Kalafut S, Kubota Y, Lesko Z, Mans J, Rusack R, Wadud MA, Acosta JG, Oliveros S, Bloom K, Claes DR, Fangmeier C, Finco L, Golf F, Gonzalez Suarez R, Kamalieddin R, Kravchenko I, Siado JE, Snow GR, Stieger B, Agarwal G, Harrington C, Iashvili I, Kharchilava A, Mclean C, Nguyen D, Parker A, Pekkanen J, Rappoccio S, Roozbahani B, Alverson G, Barberis E, Freer C, Haddad Y, Hortiangtham A, Madigan G, Morse DM, Orimoto T, Skinnari L, 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Freed S, Geurts FJM, Kilpatrick M, Kumar A, Li W, Padley BP, Redjimi R, Roberts J, Rorie J, Shi W, Stahl Leiton AG, Tu Z, Zhang A, Bodek A, de Barbaro P, Demina R, Dulemba JL, Fallon C, Ferbel T, Galanti M, Garcia-Bellido A, Han J, Hindrichs O, Khukhunaishvili A, Ranken E, Tan P, Taus R, Chiarito B, Chou JP, Gandrakota A, Gershtein Y, Halkiadakis E, Hart A, Heindl M, Hughes E, Kaplan S, Kyriacou S, Laflotte I, Lath A, Montalvo R, Nash K, Osherson M, Saka H, Salur S, Schnetzer S, Sheffield D, Somalwar S, Stone R, Thomas S, Thomassen P, Acharya H, Delannoy AG, Heideman J, Riley G, Spanier S, Bouhali O, Celik A, Dalchenko M, De Mattia M, Delgado A, Dildick S, Eusebi R, Gilmore J, Huang T, Kamon T, Luo S, Marley D, Mueller R, Overton D, Perniè L, Rathjens D, Safonov A, Akchurin N, Damgov J, De Guio F, Kunori S, Lamichhane K, Lee SW, Mengke T, Muthumuni S, Peltola T, Undleeb S, Volobouev I, Wang Z, Whitbeck A, Greene S, Gurrola A, Janjam R, Johns W, Maguire C, Melo A, Ni H, Padeken K, Romeo F, Sheldon P, Tuo S, Velkovska J, Verweij M, Arenton MW, Barria P, Cox B, Cummings G, Hirosky R, Joyce M, Ledovskoy A, Neu C, Tannenwald B, Wang Y, Wolfe E, Xia F, Harr R, Karchin PE, Poudyal N, Sturdy J, Thapa P, Zaleski S, Buchanan J, Caillol C, Carlsmith D, Dasu S, De Bruyn I, Dodd L, Fiori F, Galloni C, Gomber B, Herndon M, Hervé A, Hussain U, Klabbers P, Lanaro A, Loeliger A, Long K, Loveless R, Madhusudanan Sreekala J, Ruggles T, Savin A, Sharma V, Smith WH, Teague D, Trembath-Reichert S, Woods N. Search for Physics beyond the Standard Model in Events with Overlapping Photons and Jets. PHYSICAL REVIEW LETTERS 2019; 123:241801. [PMID: 31922872 DOI: 10.1103/physrevlett.123.241801] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/14/2019] [Revised: 10/23/2019] [Indexed: 06/10/2023]
Abstract
Results are reported from a search for new particles that decay into a photon and two gluons, in events with jets. Novel jet substructure techniques are developed that allow photons to be identified in an environment densely populated with hadrons. The analyzed proton-proton collision data were collected by the CMS experiment at the LHC, in 2016 at sqrt[s]=13 TeV, and correspond to an integrated luminosity of 35.9 fb^{-1}. The spectra of total transverse hadronic energy of candidate events are examined for deviations from the standard model predictions. No statistically significant excess is observed over the expected background. The first cross section limits on new physics processes resulting in such events are set. The results are interpreted as upper limits on the rate of gluino pair production, utilizing a simplified stealth supersymmetry model. The excluded gluino masses extend up to 1.7 TeV, for a neutralino mass of 200 GeV and exceed previous mass constraints set by analyses targeting events with isolated photons.
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Mavrommati I, Faedda R, Galasso G, Li J, Burdova K, Fischer R, Kessler BM, Carrero ZI, Guardavaccaro D, Pagano M, D'Angiolella V. β-TrCP- and Casein Kinase II-Mediated Degradation of Cyclin F Controls Timely Mitotic Progression. Cell Rep 2019; 24:3404-3412. [PMID: 30257202 PMCID: PMC6172692 DOI: 10.1016/j.celrep.2018.08.076] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2017] [Revised: 05/29/2018] [Accepted: 08/24/2018] [Indexed: 11/18/2022] Open
Abstract
Orderly progressions of events in the cell division cycle are necessary to ensure the replication of DNA and cell division. Checkpoint systems allow the accurate execution of each cell-cycle phase. The precise regulation of the levels of cyclin proteins is fundamental to coordinate cell division with checkpoints, avoiding genome instability. Cyclin F has important functions in regulating the cell cycle during the G2 checkpoint; however, the mechanisms underlying the regulation of cyclin F are poorly understood. Here, we observe that cyclin F is regulated by proteolysis through β-TrCP. β-TrCP recognizes cyclin F through a non-canonical degron site (TSGXXS) after its phosphorylation by casein kinase II. The degradation of cyclin F mediated by β-TrCP occurs at the G2/M transition. This event is required to promote mitotic progression and favors the activation of a transcriptional program required for mitosis. β-TrCP1 and β-TrCP2 interact with cyclin F and control cyclin F levels during mitosis A TSGXXS motif is necessary for β-TrCP1 and β-TrCP2 binding to cyclin F CKIIα phosphorylates cyclin F at S704 within the TSGXXS motif β-TrCP-mediated degradation of cyclin F promotes mitotic progression via B-Myb
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Freed S, Geurts FJM, Kilpatrick M, Kumar A, Li W, Padley BP, Redjimi R, Roberts J, Rorie J, Shi W, Stahl Leiton AG, Tu Z, Zhang A, Bodek A, de Barbaro P, Demina R, Duh YT, Dulemba JL, Fallon C, Ferbel T, Galanti M, Garcia-Bellido A, Han J, Hindrichs O, Khukhunaishvili A, Ranken E, Tan P, Taus R, Chiarito B, Chou JP, Gandrakota A, Gershtein Y, Halkiadakis E, Hart A, Heindl M, Hughes E, Kaplan S, Kyriacou S, Laflotte I, Lath A, Montalvo R, Nash K, Osherson M, Saka H, Salur S, Schnetzer S, Sheffield D, Somalwar S, Stone R, Thomas S, Thomassen P, Acharya H, Delannoy AG, Heideman J, Riley G, Spanier S, Bouhali O, Celik A, Dalchenko M, De Mattia M, Delgado A, Dildick S, Eusebi R, Gilmore J, Huang T, Kamon T, Luo S, Marley D, Mueller R, Overton D, Perniè L, Rathjens D, Safonov A, Akchurin N, Damgov J, De Guio F, Kunori S, Lamichhane K, Lee SW, Mengke T, Muthumuni S, Peltola T, Undleeb S, Volobouev I, Wang Z, Whitbeck A, Greene S, Gurrola A, Janjam R, Johns W, Maguire C, Melo A, Ni H, Padeken K, Romeo F, Sheldon P, Tuo S, Velkovska J, Verweij M, Arenton MW, Barria P, Cox B, Cummings G, Hirosky R, Joyce M, Ledovskoy A, Neu C, Tannenwald B, Wang Y, Wolfe E, Xia F, Harr R, Karchin PE, Poudyal N, Sturdy J, Thapa P, Zaleski S, Buchanan J, Caillol C, Carlsmith D, Dasu S, De Bruyn I, Dodd L, Gomber B, Grothe M, Herndon M, Hervé A, Hussain U, Klabbers P, Lanaro A, Long K, Loveless R, Ruggles T, Savin A, Sharma V, Smith WH, Woods N. Search for Low-Mass Quark-Antiquark Resonances Produced in Association with a Photon at sqrt[s]=13 TeV. PHYSICAL REVIEW LETTERS 2019; 123:231803. [PMID: 31868480 DOI: 10.1103/physrevlett.123.231803] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/24/2019] [Revised: 10/12/2019] [Indexed: 06/10/2023]
Abstract
A search for narrow low-mass resonances decaying to quark-antiquark pairs is presented. The search is based on proton-proton collision events collected at 13 TeV by the CMS detector at the CERN LHC. The data sample corresponds to an integrated luminosity of 35.9 fb^{-1}, recorded in 2016. The search considers the case where the resonance has high transverse momentum due to initial-state radiation of a hard photon. To study this process, the decay products of the resonance are reconstructed as a single large-radius jet with two-pronged substructure. The signal would be identified as a localized excess in the jet invariant mass spectrum. No evidence for such a resonance is observed in the mass range 10 to 125 GeV. Upper limits at the 95% confidence level are set on the coupling strength of resonances decaying to quark pairs. The results obtained with this photon trigger strategy provide the first direct constraints on quark-antiquark resonance masses below 50 GeV obtained at a hadron collider.
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A, Long K, Loveless R, Ruggles T, Savin A, Sharma V, Smith N, Smith WH, Woods N. Measurements of triple-differential cross sections for inclusive isolated-photon+jet events in p p collisions at s = 8 TeV. THE EUROPEAN PHYSICAL JOURNAL. C, PARTICLES AND FIELDS 2019; 79:969. [PMID: 31886778 PMCID: PMC6892350 DOI: 10.1140/epjc/s10052-019-7451-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/18/2019] [Accepted: 11/04/2019] [Indexed: 06/10/2023]
Abstract
Measurements are presented of the triple-differential cross section for inclusive isolated-photon+jet events in p p collisions ats = 8 TeV as a function of photon transverse momentum ( p T γ ), photon pseudorapidity ( η γ ), and jet pseudorapidity ( η jet ). The data correspond to an integrated luminosity of 19.7 fb - 1 that probe a broad range of the available phase space, for| η γ | < 1.44 and1.57 < | η γ | < 2.50 ,| η jet | < 2.5 , 40 < p T γ < 1000 GeV , and jet transverse momentum, p T jet , > 25GeV . The measurements are compared to next-to-leading order perturbative quantum chromodynamics calculations, which reproduce the data within uncertainties.
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Grants
- Austrian Federal Ministry of Science, Research and Economy
- Austrian Science Fund
- Belgian Fonds de la Recherche Scientifique
- Belgian Fonds voor Wetenschappelijk Onderzoek
- CNPq
- CAPES
- FAPERJ
- FAPERGS
- FAPESP
- Bulgarian Ministry of Education and Science
- CERN
- Chinese Academy of Sciences
- Ministry of Science and Technology
- Chinese National Natural Science Foundation of China
- Colombian Funding Agency (COLCIENCIAS)
- Croatian Ministry of Science, Education and Sport
- Croatian Science Foundation
- Research Promotion Foundation
- SENESCYT
- Ministry of Education and Research
- Estonian Research Council via IUT23-4 and IUT23-6
- European Regional Development Fund
- Academy of Finland
- Finnish Ministry of Education and Culture
- Helsinki Institute of Physics
- Institut National de Physique Nucléaire et de Physique des Particules
- Centre National de la Recherche Scientifique
- Commissariat à l’Énergie Atomique et aux Énergies Alternatives
- Bundesministerium für Bildung und Forschung
- Deutsche Forschungsgemeinschaft
- Helmholtz-Gemeinschaft Deutscher Forschungszentren
- General Secretariat for Research and Technology
- National Scientific Research Foundation
- National Innovation Office
- Department of Atomic Energy
- Department of Science and Technology
- Institute for Research in Fundamental Studies
- Science Foundation
- Istituto Nazionale di Fisica Nucleare
- Korean Ministry of Education, Science and Technology
- National Research Foundation of Korea (NRF)
- Lithuanian Academy of Sciences
- Ministry of Education
- University of Malaya
- BUAP
- CINVESTAV
- CONACYT
- LNS
- SEP
- UASLP
- Ministry of Business, Innovation and Employment
- Pakistan Atomic Energy Commission
- Ministry of Science and Higher Education
- National Science Centre
- Fundação para a Ciência e a Tecnologia
- JINR, Dubna
- Ministry of Education and Science of the Russian Federation
- Federal Agency of Atomic Energy of the Russian Federation
- Russian Academy of Sciences
- Russian Foundation for Basic Research
- National Research Center “Kurchatov Institute"
- Ministry of Education, Science and Technological Development of Serbia
- Secretaría de Estado de Investigación, Desarrollo e Innovación
- Programa Consolider-Ingenio 2010
- Plan de Ciencia, Tecnología e Innovación 2017-2020 del Principado de Asturias
- Fondo Europeo de Desarrollo Regional, Spain
- ETH Board
- ETH Zurich
- PSI
- SNF
- UniZH
- Canton Zurich
- SER
- Ministry of Science and Technology
- Thailand Center of Excellence in Physics
- Institute for the Promotion of Teaching Science and Technology of Thailand
- Special Task Force for Activating Research
- National Science and Technology Development Agency of Thailand
- Scientific and Technical Research Council of Turkey
- Turkish Atomic Energy Authority
- National Academy of Sciences of Ukraine
- State Fund for Fundamental Researches
- Science and Technology Facilities Council
- US Department of Energy
- US National Science Foundation
- Marie-Curie programme
- European Research Council and EPLANET (European Union)
- Horizon 2020 Grant, contract Nos. 675440, 752730, and 765710 (European Union)
- Leventis Foundation
- Alfred P. Sloan Foundation
- Alexander von Humboldt Foundation
- Belgian Federal Science Policy Office
- Fonds pour la Formation à la Recherche dans l’Industrie et dans l’Agriculture (FRIA-Belgium)
- Agentschap voor Innovatie door Wetenschap en Technologie (IWT-Belgium)
- Belgian Fonds de la Recherche Scientifique, "Excellence of Science - EOS" - be.h project n. 30820817
- Belgian Fonds voor Wetenschappelijk Onderzoek, “Excellence of Science - EOS” - be.h project n. 30820817
- Beijing Municipal Science & Technology Commission, No. Z181100004218003
- Ministry of Education, Youth and Sports (MEYS) of the Czech Republic
- Lendúlet (“Momentum”) Programme and the János Bolyai Research Scholarship of the Hungarian Academy of Sciences
- New National Excellence Program ÚNKP, the NKFIA research grants 123842, 123959, 124845, 124850, 125105, 128713, 128786, and 129058
- Council of Scientific and Industrial Research, India
- National Science Center, contracts Harmonia 2014/14/M/ST2/00428, Opus 2014/13/B/ST2/02543, 2014/15/B/ST2/03998, and 2015/19/B/ST2/02861, Sonata-bis 2012/07/E/ST2/01406
- National Priorities Research Program by Qatar National Research Fund
- Ministry of Science and Education, grant no. 3.2989.2017
- Programa Estatal de Fomento de la Investigación Científica y Técnica de Excelencia María de Maeztu, grant MDM-2015-0509
- Programa Severo Ochoa del Principado de Asturias
- Thalis and Aristeia programmes cofinanced by EU-ESF and the Greek NSRF
- Rachadapisek Sompot Fund for Postdoctoral Fellowship, Chulalongkorn University (Thailand)
- CUAASC
- Welch Foundation, contract C-1845
- Weston Havens Foundation
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