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Wan W, Zhang L, Pruitt R, Zaidem M, Brugman R, Ma X, Krol E, Perraki A, Kilian J, Grossmann G, Stahl M, Shan L, Zipfel C, van Kan JAL, Hedrich R, Weigel D, Gust AA, Nürnberger T. Comparing Arabidopsis receptor kinase and receptor protein-mediated immune signaling reveals BIK1-dependent differences. New Phytol 2019; 221:2080-2095. [PMID: 30252144 PMCID: PMC6367016 DOI: 10.1111/nph.15497] [Citation(s) in RCA: 51] [Impact Index Per Article: 10.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/19/2018] [Accepted: 09/11/2018] [Indexed: 05/12/2023]
Abstract
Pattern recognition receptors (PRRs) sense microbial patterns and activate innate immunity against attempted microbial invasions. The leucine-rich repeat receptor kinases (LRR-RK) FLS2 and EFR, and the LRR receptor protein (LRR-RP) receptors RLP23 and RLP42, respectively, represent prototypical members of these two prominent and closely related PRR families. We conducted a survey of Arabidopsis thaliana immune signaling mediated by these receptors to address the question of commonalities and differences between LRR-RK and LRR-RP signaling. Quantitative differences in timing and amplitude were observed for several early immune responses, with RP-mediated responses typically being slower and more prolonged than those mediated by RKs. Activation of RLP23, but not FLS2, induced the production of camalexin. Transcriptomic analysis revealed that RLP23-regulated genes represent only a fraction of those genes differentially expressed upon FLS2 activation. Several positive and negative regulators of FLS2-signaling play similar roles in RLP23 signaling. Intriguingly, the cytoplasmic receptor kinase BIK1, a positive regulator of RK signaling, acts as a negative regulator of RP-type immune receptors in a manner dependent on BIK1 kinase activity. Our study unveiled unexpected differences in two closely related receptor systems and reports a new negative role of BIK1 in plant immunity.
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Affiliation(s)
- Wei‐Lin Wan
- Department of Plant BiochemistryCentre for Plant Molecular BiologyEberhard Karls University TübingenAuf der Morgenstelle 32D‐72076TübingenGermany
| | - Lisha Zhang
- Department of Plant BiochemistryCentre for Plant Molecular BiologyEberhard Karls University TübingenAuf der Morgenstelle 32D‐72076TübingenGermany
| | - Rory Pruitt
- Department of Plant BiochemistryCentre for Plant Molecular BiologyEberhard Karls University TübingenAuf der Morgenstelle 32D‐72076TübingenGermany
| | - Maricris Zaidem
- Department of Molecular BiologyMax‐Planck‐Institute for Developmental BiologyMax‐Planck‐Str. 5D‐72076TübingenGermany
- Center for Genomics & Systems BiologyNew York University12 Waverly PlaceNew YorkNY10003USA
| | - Rik Brugman
- Centre for Organismal Studies & Excellence Cluster Cell NetworksHeidelberg UniversityIm Neuenheimer Feld 23069120HeidelbergGermany
| | - Xiyu Ma
- Institute for Plant Genomics & BiotechnologyTexas A&M UniversityCollege StationTX77843USA
| | - Elzbieta Krol
- Plant Physiology and BiophysicsJulius Maximilians University WürzburgJulius‐von‐Sachs‐Platz 297082WürzburgGermany
- Department of BiophysicsInstitute of BiologyMaria Curie‐Skłodowska UniversityAkademicka 1920‐033LublinPoland
| | - Artemis Perraki
- The Sainsbury LaboratoryNorwich Research ParkNorwichNR4 7UHUK
- Department of Plant SciencesUniversity of CambridgeCambridgeCB2 3EAUK
| | - Joachim Kilian
- Analytics UnitCentre for Plant Molecular BiologyEberhard Karls University TübingenAuf der Morgenstelle 32D‐72076TübingenGermany
| | - Guido Grossmann
- Centre for Organismal Studies & Excellence Cluster Cell NetworksHeidelberg UniversityIm Neuenheimer Feld 23069120HeidelbergGermany
| | - Mark Stahl
- Analytics UnitCentre for Plant Molecular BiologyEberhard Karls University TübingenAuf der Morgenstelle 32D‐72076TübingenGermany
| | - Libo Shan
- Institute for Plant Genomics & BiotechnologyTexas A&M UniversityCollege StationTX77843USA
| | - Cyril Zipfel
- The Sainsbury LaboratoryNorwich Research ParkNorwichNR4 7UHUK
| | - Jan A. L. van Kan
- Laboratory of PhytopathologyWageningen University6708 PBWageningenthe Netherlands
| | - Rainer Hedrich
- Plant Physiology and BiophysicsJulius Maximilians University WürzburgJulius‐von‐Sachs‐Platz 297082WürzburgGermany
| | - Detlef Weigel
- Department of Molecular BiologyMax‐Planck‐Institute for Developmental BiologyMax‐Planck‐Str. 5D‐72076TübingenGermany
| | - Andrea A. Gust
- Department of Plant BiochemistryCentre for Plant Molecular BiologyEberhard Karls University TübingenAuf der Morgenstelle 32D‐72076TübingenGermany
| | - Thorsten Nürnberger
- Department of Plant BiochemistryCentre for Plant Molecular BiologyEberhard Karls University TübingenAuf der Morgenstelle 32D‐72076TübingenGermany
- Department of BiochemistryUniversity of JohannesburgAuckland ParkSouth Africa
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Ankit, Bhatnagar MR. Boolean AND and OR logic for cell signalling gateways: a communication perspective. IET Nanobiotechnol 2018; 12:1130-1139. [PMID: 30964026 PMCID: PMC8676373 DOI: 10.1049/iet-nbt.2018.5091] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2018] [Revised: 07/03/2018] [Accepted: 07/10/2018] [Indexed: 01/28/2023] Open
Abstract
Cell signalling plays a vital role in development, sustaining, differentiation, and reproduction of cells. Pathways involved in signalling networks are quite interwoven and complex. Complexity encountered in understanding these pathways is often reduced with the help of Boolean circuit representation. In this study, the authors provide communication aspect of the signalling pathways that have two input Boolean logic AND/OR implemented at the rear effector protein. Communication is assumed to be taking place in extracellular and intracellular environment. The two environments are connected using a receptor protein acting as relay between a molecular source and effector protein. Each relay detects molecules from outside environment and stimulates the production of signals in the intracellular space. These signals/molecules further activate the effector protein which acts as a Boolean switch driven by AND/OR logic. Assuming Poisson reception at the relay as well as at the receiver, the authors provide probability of error of the AND and OR Boolean logic communication systems. Furthermore, reliability and some capacity bounds are deduced for the given Boolean communication system.
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Affiliation(s)
- Ankit
- Department of Electrical Engineering, Indian Institute of Technology Delhi, Hauz Khas, New Delhi 110016, India.
| | - Manav R Bhatnagar
- Department of Electrical Engineering, Indian Institute of Technology Delhi, Hauz Khas, New Delhi 110016, India
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Gründling A, Lee VT. Old concepts, new molecules and current approaches applied to the bacterial nucleotide signalling field. Philos Trans R Soc Lond B Biol Sci 2017; 371:rstb.2015.0503. [PMID: 27672152 PMCID: PMC5052745 DOI: 10.1098/rstb.2015.0503] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 06/07/2016] [Indexed: 12/25/2022] Open
Abstract
Signalling nucleotides are key molecules that help bacteria to rapidly coordinate cellular pathways and adapt to changes in their environment. During the past 10 years, the nucleotide signalling field has seen much excitement, as several new signalling nucleotides have been discovered in both eukaryotic and bacterial cells. The fields have since advanced quickly, aided by the development of important tools such as the synthesis of modified nucleotides, which, combined with sensitive mass spectrometry methods, allowed for the rapid identification of specific receptor proteins along with other novel genome-wide screening methods. In this review, we describe the principle concepts of nucleotide signalling networks and summarize the recent work that led to the discovery of the novel signalling nucleotides. We also highlight current approaches applied to the research in the field as well as resources and methodological advances aiding in a rapid identification of nucleotide-specific receptor proteins. This article is part of the themed issue ‘The new bacteriology’.
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Affiliation(s)
- Angelika Gründling
- Section of Microbiology and MRC Centre for Molecular Bacteriology and Infection, Imperial College London, London SW7 2AZ, UK
| | - Vincent T Lee
- Department of Cell Biology and Molecular Genetics, University of Maryland at College Park, College Park, MD 20742, USA
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Abstract
The mechanism underlying autophagic degradation of a protein aggregate remains largely unknown. A family of receptor proteins that simultaneously bind to the cargo and the Atg8 family of autophagy proteins (such as the MAP1LC3/LC3 subfamily) has been shown to confer cargo selectivity. The selectivity and efficiency of protein aggregate removal is also modulated by scaffold proteins that interact with receptor proteins and ATG proteins. During C. elegans embryogenesis, autophagic clearance of the cargoes PGL-1 and PGL-3 requires the receptor protein SEPA-1 and the scaffold protein EPG-2. SEPA-1 and EPG-2 also form aggregates that are degraded by autophagy. Here we investigated the effect of composition and organization of PGL granules on their autophagic degradation. We found that depletion of PGL-1 or PGL-3 facilitates the degradation of SEPA-1 and EPG-2. Removal of EPG-2 is also promoted when SEPA-1 is absent. Depletion of PGL-1 or PGL-3 renders the degradation of SEPA-1 independent of EPG-2. We further showed that overexpression of SEPA-1 or EPG-2 as well as SQST-1 or EPG-7 (scaffold protein), which belong to different classes of aggregate, has no evident effect on the degradation of the other type. Our results indicate that the composition and organization of protein aggregates provide another layer of regulation to modulate degradation efficiency.
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Affiliation(s)
- Gangming Zhang
- a National Laboratory of Biomacromolecules, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics , Chinese Academy of Sciences , Beijing , China
| | - Long Lin
- a National Laboratory of Biomacromolecules, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics , Chinese Academy of Sciences , Beijing , China
| | - Di Qi
- a National Laboratory of Biomacromolecules, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics , Chinese Academy of Sciences , Beijing , China
| | - Hong Zhang
- a National Laboratory of Biomacromolecules, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics , Chinese Academy of Sciences , Beijing , China.,b College of Life Sciences , University of Chinese Academy of Sciences , Beijing , China
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Abstract
Plants are exposed to numerous potential pathogenic microbes. To counter the threat, plants have evolved diverse patternrecognition receptors (PRRs), which are receptor kinases (RKs) and receptor proteins (RPs) specialized to detect conserved pathogen/microbe-associated molecular patterns (PAMPs/MAMPs). Although only a handful of RKs and RPs are known PRRs, they belong to the receptor-like kinase (RLK) and receptor-like protein (RLP) superfamilies that undergo lineagespecific expansion, suggesting that many of these RLKs and RLPs are potential PRRs. Analyses of existing PRRs have uncovered ligand-induced RLK-RK or RLK-RP oligomerization as a common mechanism for immune activation. PRRs can recruit additional components to form dynamic receptor complexes, which mediate specific cellular responses. Detailed analyses of these components are shedding light on molecular mechanisms underlying the regulation of PRR activity and downstream signaling.
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Affiliation(s)
- Lei Li
- State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China
| | - Yufei Yu
- State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China
| | - Zhaoyang Zhou
- State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China.
| | - Jian-Min Zhou
- State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China.
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Chang W, Soll J, Bölter B. A new member of the psToc159 family contributes to distinct protein targeting pathways in pea chloroplasts. Front Plant Sci 2014; 5:239. [PMID: 24904628 PMCID: PMC4036074 DOI: 10.3389/fpls.2014.00239] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/09/2014] [Accepted: 05/12/2014] [Indexed: 05/06/2023]
Abstract
Protein import into chloroplasts relies on specific targeting of preproteins from the cytosol to the organelles and coordinated translocation processes across the double envelope membrane. Here, two complex machineries constitute the so called general import pathway, which consists of the TOC and TIC complexes (translocon at the outer envelope of chloroplasts and translocon at the inner envelope of chloroplasts, respectively). The majority of canonical preproteins feature an N-terminal cleavable transit peptide, which is necessary for targeting and recognition at the chloroplast surface by receptors of TOC, where Toc159 acts as the primary contact site. We identified a non-canonical preprotein without the classical transit peptide, the superoxide dismutase (FSD1), which was then used in chemical crosslinking approaches to find new interaction partners at the outer envelope from pea chloroplasts. In this way we could link FSD1 to members of the Toc159 family in pea, namely psToc132 and psToc120. Using deletion mutants as well as a peptide scanning approach we defined regions of the preprotein, which are involved in receptor binding. These are distributed across the entire sequence; however the extreme N-terminus as well as a C-proximal domain turned out to be essential for targeting and import. En route into the plastid FSD1 engages components of the general import pathway, implying that in spite of the non-canonical targeting information and recognition by a specific receptor this preprotein follows a similar way across the envelope as the majority of plastid preproteins.
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Affiliation(s)
- WaiLing Chang
- Department Biology I, Plant Sciences, LMU MünchenMartinsried, Germany
- Munich Center for Integrated Protein Science CiPSMünchen, Germany
- Lysando GmbHRegensburg, Germany
| | - Jürgen Soll
- Department Biology I, Plant Sciences, LMU MünchenMartinsried, Germany
- Munich Center for Integrated Protein Science CiPSMünchen, Germany
| | - Bettina Bölter
- Department Biology I, Plant Sciences, LMU MünchenMartinsried, Germany
- Munich Center for Integrated Protein Science CiPSMünchen, Germany
- *Correspondence: Bettina Bölter, Department Biology I, Plant Sciences, LMU München, Martinsried, Germany, Grosshadernerstr. 2-4, 82152 Martinsried, Germany e-mail:
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Abstract
Plasmodesmata (PD) generate continuity between plant cells via the cytoplasm, endoplasmic reticulum (ER) and plasma membrane (PM), allowing movement of different classes of molecules between cells. Proteomic data indicates that the PD PM hosts many receptors and receptor kinases, as well as lipid raft and tetraspanin enriched microdomain associated proteins, suggesting the hypothesis that the PD PM is specialized with respect to both composition and function. PD-located receptor proteins and receptor kinases are responsible for perception of microbe associated molecular patterns at PD and initiate signaling that mediates changes to PD flux. In addition, developmentally relevant receptor kinases have different interactions dependent upon whether located at the PD PM or the cellular PM. The implications of these findings are that receptor-mediated signaling in PD membranes differs from that in the cellular PM and, in light the identification of PD-located proteins associated with membrane microdomains and the role of membrane microdomains in analogous signaling processes in animals, suggests that the PD PM contains specialized signaling platforms.
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Affiliation(s)
- Christine Faulkner
- *Correspondence: Christine Faulkner, John Innes Centre, Norwich Research Park, Colney Lane, Norwich NR4 7UH, UK e-mail:
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