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Kreis E, König K, Misir M, Niemeyer J, Sommer F, Schroda M. TurboID reveals the proxiomes of Chlamydomonas proteins involved in thylakoid biogenesis and stress response. PLANT PHYSIOLOGY 2023; 193:1772-1796. [PMID: 37310689 PMCID: PMC10602608 DOI: 10.1093/plphys/kiad335] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/03/2023] [Revised: 04/24/2023] [Accepted: 05/04/2023] [Indexed: 06/14/2023]
Abstract
In Chlamydomonas (Chlamydomonas reinhardtii), the VESICLE-INDUCING PROTEIN IN PLASTIDS 1 and 2 (VIPP1 and VIPP2) play roles in the sensing and coping with membrane stress and in thylakoid membrane biogenesis. To gain more insight into these processes, we aimed to identify proteins interacting with VIPP1/2 in the chloroplast and chose proximity labeling (PL) for this purpose. We used the transient interaction between the nucleotide exchange factor CHLOROPLAST GRPE HOMOLOG 1 (CGE1) and the stromal HEAT SHOCK PROTEIN 70B (HSP70B) as test system. While PL with APEX2 and BioID proved to be inefficient, TurboID resulted in substantial biotinylation in vivo. TurboID-mediated PL with VIPP1/2 as baits under ambient and H2O2 stress conditions confirmed known interactions of VIPP1 with VIPP2, HSP70B, and the CHLOROPLAST DNAJ HOMOLOG 2 (CDJ2). Proteins identified in the VIPP1/2 proxiomes can be grouped into proteins involved in the biogenesis of thylakoid membrane complexes and the regulation of photosynthetic electron transport, including PROTON GRADIENT REGULATION 5-LIKE 1 (PGRL1). A third group comprises 11 proteins of unknown function whose genes are upregulated under chloroplast stress conditions. We named them VIPP PROXIMITY LABELING (VPL). In reciprocal experiments, we confirmed VIPP1 in the proxiomes of VPL2 and PGRL1. Our results demonstrate the robustness of TurboID-mediated PL for studying protein interaction networks in the chloroplast of Chlamydomonas and pave the way for analyzing functions of VIPPs in thylakoid biogenesis and stress responses.
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Affiliation(s)
- Elena Kreis
- Molekulare Biotechnologie & Systembiologie, RPTU Kaiserslautern-Landau, Paul-Ehrlich Straße 23, D-67663 Kaiserslautern, Germany
| | - Katharina König
- Molekulare Biotechnologie & Systembiologie, RPTU Kaiserslautern-Landau, Paul-Ehrlich Straße 23, D-67663 Kaiserslautern, Germany
| | - Melissa Misir
- Molekulare Biotechnologie & Systembiologie, RPTU Kaiserslautern-Landau, Paul-Ehrlich Straße 23, D-67663 Kaiserslautern, Germany
| | - Justus Niemeyer
- Molekulare Biotechnologie & Systembiologie, RPTU Kaiserslautern-Landau, Paul-Ehrlich Straße 23, D-67663 Kaiserslautern, Germany
| | - Frederik Sommer
- Molekulare Biotechnologie & Systembiologie, RPTU Kaiserslautern-Landau, Paul-Ehrlich Straße 23, D-67663 Kaiserslautern, Germany
| | - Michael Schroda
- Molekulare Biotechnologie & Systembiologie, RPTU Kaiserslautern-Landau, Paul-Ehrlich Straße 23, D-67663 Kaiserslautern, Germany
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2
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Han H, Zhou Y, Liu H, Chen X, Wang Q, Zhuang H, Sun X, Ling Q, Zhang H, Wang B, Wang J, Tang Y, Wang H, Liu H. Transcriptomics and Metabolomics Analysis Provides Insight into Leaf Color and Photosynthesis Variation of the Yellow-Green Leaf Mutant of Hami Melon ( Cucumis melo L.). PLANTS (BASEL, SWITZERLAND) 2023; 12:1623. [PMID: 37111847 PMCID: PMC10143263 DOI: 10.3390/plants12081623] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/25/2023] [Revised: 04/03/2023] [Accepted: 04/05/2023] [Indexed: 06/16/2023]
Abstract
Leaf color mutants are ideal materials for studying the regulatory mechanism of chloroplast development and photosynthesis. We isolated a cucumis melo spontaneous mutant (MT), which showed yellow-green leaf phenotype in the whole growing period and could be inherited stably. We compared its leaves with the wild type (WT) in terms of cytology, physiology, transcriptome and metabolism. The results showed that the thylakoid grana lamellae of MT were loosely arranged and fewer in number than WT. Physiological experiments also showed that MT had less chlorophyll content and more accumulation of reactive oxygen species (ROS) than WT. Furthermore, the activity of several key enzymes in C4 photosynthetic carbon assimilation pathway was more enhanced in MT than WT. Transcriptomic and metabolomic analyses showed that differential expression genes and differentially accumulated metabolites in MT were mainly co-enriched in the pathways related to photosystem-antenna proteins, central carbon metabolism, glutathione metabolism, phenylpropanoid biosynthesis and flavonoid metabolism. We also analyzed several key proteins in photosynthesis and chloroplast transport by Western blot. In summary, the results may provide a new insight into the understanding of how plants respond to the impaired photosynthesis by regulating chloroplast development and photosynthetic carbon assimilation pathways.
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Affiliation(s)
- Hongwei Han
- Key Laboratory of Special Fruits and Vegetables Cultivation Physiology and Germplasm Resources Utilization of Xinjiang Production and Construction Corps, Department of Horticulture, College of Agriculture, Shihezi University, Shihezi 832003, China; (H.H.)
- Key Laboratory of Horticulture Crop Genomics and Genetic Improvement in Xinjiang, Institute of Horticultural Crops, Xinjiang Academy of Agricultural Sciences, Urumqi 830002, China
| | - Yuan Zhou
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200030, China
| | - Huifang Liu
- Key Laboratory of Horticulture Crop Genomics and Genetic Improvement in Xinjiang, Institute of Horticultural Crops, Xinjiang Academy of Agricultural Sciences, Urumqi 830002, China
| | - Xianjun Chen
- Key Laboratory of Special Fruits and Vegetables Cultivation Physiology and Germplasm Resources Utilization of Xinjiang Production and Construction Corps, Department of Horticulture, College of Agriculture, Shihezi University, Shihezi 832003, China; (H.H.)
| | - Qiang Wang
- Key Laboratory of Horticulture Crop Genomics and Genetic Improvement in Xinjiang, Institute of Horticultural Crops, Xinjiang Academy of Agricultural Sciences, Urumqi 830002, China
| | - Hongmei Zhuang
- Key Laboratory of Horticulture Crop Genomics and Genetic Improvement in Xinjiang, Institute of Horticultural Crops, Xinjiang Academy of Agricultural Sciences, Urumqi 830002, China
| | - Xiaoxia Sun
- Key Laboratory of Special Fruits and Vegetables Cultivation Physiology and Germplasm Resources Utilization of Xinjiang Production and Construction Corps, Department of Horticulture, College of Agriculture, Shihezi University, Shihezi 832003, China; (H.H.)
| | - Qihua Ling
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200030, China
| | - Huijun Zhang
- School of Life Science, Huaibei Normal University, Huaibei 235000, China
| | - Baike Wang
- Key Laboratory of Horticulture Crop Genomics and Genetic Improvement in Xinjiang, Institute of Horticultural Crops, Xinjiang Academy of Agricultural Sciences, Urumqi 830002, China
| | - Juan Wang
- Key Laboratory of Horticulture Crop Genomics and Genetic Improvement in Xinjiang, Institute of Horticultural Crops, Xinjiang Academy of Agricultural Sciences, Urumqi 830002, China
| | - Yaping Tang
- Key Laboratory of Horticulture Crop Genomics and Genetic Improvement in Xinjiang, Institute of Horticultural Crops, Xinjiang Academy of Agricultural Sciences, Urumqi 830002, China
| | - Hao Wang
- Key Laboratory of Horticulture Crop Genomics and Genetic Improvement in Xinjiang, Institute of Horticultural Crops, Xinjiang Academy of Agricultural Sciences, Urumqi 830002, China
| | - Huiying Liu
- Key Laboratory of Special Fruits and Vegetables Cultivation Physiology and Germplasm Resources Utilization of Xinjiang Production and Construction Corps, Department of Horticulture, College of Agriculture, Shihezi University, Shihezi 832003, China; (H.H.)
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Wan C, Ling Q. Functions of autophagy in chloroplast protein degradation and homeostasis. FRONTIERS IN PLANT SCIENCE 2022; 13:993215. [PMID: 36247630 PMCID: PMC9557084 DOI: 10.3389/fpls.2022.993215] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/13/2022] [Accepted: 09/05/2022] [Indexed: 06/16/2023]
Abstract
Chloroplasts are defining organelles in plant and algae, which carried out various critical metabolic processes, including photosynthesis. Roles of chloroplast protein homeostasis in plant development and stress adaptation were clearly demonstrated in previous studies, and its maintenance requires internal proteases originated from the prokaryotic ancestor. Recently, increasing evidence revealed that eukaryotic proteolytic pathways, ubiquitin-proteasome system (UPS) and autophagy, are also involved in the turnover of chloroplast proteins, in response to developmental and environmental cues. Notably, chloroplasts can be regulated via the selective degradation of chloroplast materials in a process called chlorophagy. Yet, understandings of the mechanism of chlorophagy are still rudimentary, particularly regarding its initiation and operation. Here we provide an updated overview of autophagy pathways for chloroplast protein degradation and discuss their importance for plant physiology. In addition, recent advance in analogous mitophagy in yeast and mammals will also be discussed, which provides clues for further elucidating the mechanism of chlorophagy.
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Affiliation(s)
- Chen Wan
- National Key Laboratory of Plant Molecular Genetics, CAS Centre for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Qihua Ling
- National Key Laboratory of Plant Molecular Genetics, CAS Centre for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
- University of Chinese Academy of Sciences, Beijing, China
- Chinese Academy of Sciences (CAS) and John Innes Centre, Center of Excellence for Plant and Microbial Sciences (CEPAMS), Shanghai, China
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Ohnishi N, Sugimoto M, Kondo H, Shioya KI, Zhang L, Sakamoto W. Distinctive in vitro ATP Hydrolysis Activity of AtVIPP1, a Chloroplastic ESCRT-III Superfamily Protein in Arabidopsis. FRONTIERS IN PLANT SCIENCE 2022; 13:949578. [PMID: 35903241 PMCID: PMC9315428 DOI: 10.3389/fpls.2022.949578] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/21/2022] [Accepted: 06/20/2022] [Indexed: 06/15/2023]
Abstract
Vesicle-inducing protein in plastid 1 (VIPP1), characteristic to oxygenic photosynthetic organisms, is a membrane-remodeling factor that forms homo-oligomers and functions in thylakoid membrane formation and maintenance. The cyanobacterial VIPP1 structure revealed a monomeric folding pattern similar to that of endosomal sorting complex required for transport (ESCRT) III. Characteristic to VIPP1, however, is its own GTP and ATP hydrolytic activity without canonical domains. In this study, we found that histidine-tagged Arabidopsis VIPP1 (AtVIPP1) hydrolyzed GTP and ATP to produce GDP and ADP in vitro, respectively. Unexpectedly, the observed GTPase and ATPase activities were biochemically distinguishable, because the ATPase was optimized for alkaline conditions and dependent on Ca2+ as well as Mg2+, with a higher affinity for ATP than GTP. We found that a version of AtVIPP1 protein with a mutation in its nucleotide-binding site, as deduced from the cyanobacterial structure, retained its hydrolytic activity, suggesting that Arabidopsis and cyanobacterial VIPP1s have different properties. Negative staining particle analysis showed that AtVIPP1 formed particle or rod structures that differed from those of cyanobacteria and Chlamydomonas. These results suggested that the nucleotide hydrolytic activity and oligomer formation of VIPP1 are common in photosynthetic organisms, whereas their properties differ among species.
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Affiliation(s)
- Norikazu Ohnishi
- Institute for Plant Science and Resources, Okayama University, Kurashiki, Japan
| | - Manabu Sugimoto
- Institute for Plant Science and Resources, Okayama University, Kurashiki, Japan
| | - Hideki Kondo
- Institute for Plant Science and Resources, Okayama University, Kurashiki, Japan
| | - Ken-ichi Shioya
- Institute for Plant Science and Resources, Okayama University, Kurashiki, Japan
| | - Lingang Zhang
- School of Life Sciences, Inner Mongolia University, Hohhot, China
| | - Wataru Sakamoto
- Institute for Plant Science and Resources, Okayama University, Kurashiki, Japan
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5
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Cook R, Lupette J, Benning C. The Role of Chloroplast Membrane Lipid Metabolism in Plant Environmental Responses. Cells 2021; 10:cells10030706. [PMID: 33806748 PMCID: PMC8005216 DOI: 10.3390/cells10030706] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2021] [Revised: 03/16/2021] [Accepted: 03/19/2021] [Indexed: 12/30/2022] Open
Abstract
Plants are nonmotile life forms that are constantly exposed to changing environmental conditions during the course of their life cycle. Fluctuations in environmental conditions can be drastic during both day–night and seasonal cycles, as well as in the long term as the climate changes. Plants are naturally adapted to face these environmental challenges, and it has become increasingly apparent that membranes and their lipid composition are an important component of this adaptive response. Plants can remodel their membranes to change the abundance of different lipid classes, and they can release fatty acids that give rise to signaling compounds in response to environmental cues. Chloroplasts harbor the photosynthetic apparatus of plants embedded into one of the most extensive membrane systems found in nature. In part one of this review, we focus on changes in chloroplast membrane lipid class composition in response to environmental changes, and in part two, we will detail chloroplast lipid-derived signals.
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Affiliation(s)
- Ron Cook
- MSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, MI 48824-1319, USA
- Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, MI 48824-1319, USA
| | - Josselin Lupette
- MSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, MI 48824-1319, USA
| | - Christoph Benning
- MSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, MI 48824-1319, USA
- Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, MI 48824-1319, USA
- Department of Plant Biology, Michigan State University, East Lansing, MI 48824-1319, USA
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6
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Theis J, Lang J, Spaniol B, Ferté S, Niemeyer J, Sommer F, Zimmer D, Venn B, Mehr SF, Mühlhaus T, Wollman FA, Schroda M. The Chlamydomonas deg1c Mutant Accumulates Proteins Involved in High Light Acclimation. PLANT PHYSIOLOGY 2019; 181:1480-1497. [PMID: 31604811 PMCID: PMC6878023 DOI: 10.1104/pp.19.01052] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/01/2019] [Accepted: 09/27/2019] [Indexed: 05/18/2023]
Abstract
Degradation of periplasmic proteins (Deg)/high temperature requirement A (HtrA) proteases are ATP-independent Ser endopeptidases that perform key aspects of protein quality control in all domains of life. Here, we characterized Chlamydomonas reinhardtii DEG1C, which together with DEG1A and DEG1B is orthologous to Arabidopsis (Arabidopsis thaliana) Deg1 in the thylakoid lumen. We show that DEG1C is localized to the stroma and the periphery of thylakoid membranes. Purified DEG1C exhibited high proteolytic activity against unfolded model substrates and its activity increased with temperature and pH. DEG1C forms monomers, trimers, and hexamers that are in dynamic equilibrium. DEG1C protein levels increased upon nitrogen, sulfur, and phosphorus starvation; under heat, oxidative, and high light stress; and when Sec-mediated protein translocation was impaired. DEG1C depletion was not associated with any obvious aberrant phenotypes under nonstress conditions, high light exposure, or heat stress. However, quantitative shotgun proteomics revealed differences in the abundance of 307 proteins between a deg1c knock-out mutant and the wild type under nonstress conditions. Among the 115 upregulated proteins are PSII biogenesis factors, FtsH proteases, and proteins normally involved in high light responses, including the carbon dioxide concentrating mechanism, photorespiration, antioxidant defense, and photoprotection. We propose that the lack of DEG1C activity leads to a physiological state of the cells resembling that induced by high light intensities and therefore triggers high light protection responses.
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Affiliation(s)
- Jasmine Theis
- Molekulare Biotechnologie & Systembiologie, Technische Universität Kaiserslautern, Paul-Ehrlich D-67663 Kaiserslautern, Germany
| | - Julia Lang
- Molekulare Biotechnologie & Systembiologie, Technische Universität Kaiserslautern, Paul-Ehrlich D-67663 Kaiserslautern, Germany
| | - Benjamin Spaniol
- Molekulare Biotechnologie & Systembiologie, Technische Universität Kaiserslautern, Paul-Ehrlich D-67663 Kaiserslautern, Germany
| | - Suzanne Ferté
- Laboratoire de Physiologie Membranaire et Moléculaire du Chloroplaste, Institut de Biologie Physico-Chimique, UMR CNRS/UPMC 7141, Paris, France
| | - Justus Niemeyer
- Molekulare Biotechnologie & Systembiologie, Technische Universität Kaiserslautern, Paul-Ehrlich D-67663 Kaiserslautern, Germany
| | - Frederik Sommer
- Molekulare Biotechnologie & Systembiologie, Technische Universität Kaiserslautern, Paul-Ehrlich D-67663 Kaiserslautern, Germany
| | - David Zimmer
- Molekulare Biotechnologie & Systembiologie, Technische Universität Kaiserslautern, Paul-Ehrlich D-67663 Kaiserslautern, Germany
| | - Benedikt Venn
- Molekulare Biotechnologie & Systembiologie, Technische Universität Kaiserslautern, Paul-Ehrlich D-67663 Kaiserslautern, Germany
| | - Shima Farazandeh Mehr
- Molekulare Biotechnologie & Systembiologie, Technische Universität Kaiserslautern, Paul-Ehrlich D-67663 Kaiserslautern, Germany
| | - Timo Mühlhaus
- Molekulare Biotechnologie & Systembiologie, Technische Universität Kaiserslautern, Paul-Ehrlich D-67663 Kaiserslautern, Germany
| | - Francis-André Wollman
- Laboratoire de Physiologie Membranaire et Moléculaire du Chloroplaste, Institut de Biologie Physico-Chimique, UMR CNRS/UPMC 7141, Paris, France
| | - Michael Schroda
- Molekulare Biotechnologie & Systembiologie, Technische Universität Kaiserslautern, Paul-Ehrlich D-67663 Kaiserslautern, Germany
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7
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Lellis AD, Patrick RM, Mayberry LK, Lorence A, Campbell ZC, Roose JL, Frankel LK, Bricker TM, Hellmann HA, Mayberry RW, Zavala AS, Choy GS, Wylie DC, Abdul-Moheeth M, Masood A, Prater AG, Van Hoorn HE, Cole NA, Browning KS. eIFiso4G Augments the Synthesis of Specific Plant Proteins Involved in Normal Chloroplast Function. PLANT PHYSIOLOGY 2019; 181:85-96. [PMID: 31308150 PMCID: PMC6716253 DOI: 10.1104/pp.19.00557] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/13/2019] [Accepted: 06/25/2019] [Indexed: 05/06/2023]
Abstract
The plant-specific translation initiation complex eIFiso4F is encoded by three genes in Arabidopsis (Arabidopsis thaliana)-genes encoding the cap binding protein eIFiso4E (eifiso4e) and two isoforms of the large subunit scaffolding protein eIFiso4G (i4g1 and i4g2). To quantitate phenotypic changes, a phenomics platform was used to grow wild-type and mutant plants (i4g1, i4g2, i4e, i4g1 x i4g2, and i4g1 x i4g2 x i4e [i4f]) under various light conditions. Mutants lacking both eIFiso4G isoforms showed the most obvious phenotypic differences from the wild type. Two-dimensional differential gel electrophoresis and mass spectrometry were used to identify changes in protein levels in plants lacking eIFiso4G. Four of the proteins identified as measurably decreased and validated by immunoblot analysis were two light harvesting complex binding proteins 1 and 3, Rubisco activase, and carbonic anhydrase. The observed decreased levels for these proteins were not the direct result of decreased transcription or protein instability. Chlorophyll fluorescence induction experiments indicated altered quinone reduction kinetics for the double and triple mutant plants with significant differences observed for absorbance, trapping, and electron transport. Transmission electron microscopy analysis of the chloroplasts in mutant plants showed impaired grana stacking and increased accumulation of starch granules consistent with some chloroplast proteins being decreased. Rescue of the i4g1 x i4g2 plant growth phenotype and increased expression of the validated proteins to wild-type levels was obtained by overexpression of eIFiso4G1. These data suggest a direct and specialized role for eIFiso4G in the synthesis of a subset of plant proteins.
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Affiliation(s)
- Andrew D Lellis
- Department of Molecular Biosciences and The Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, Texas 78712
| | - Ryan M Patrick
- Department of Molecular Biosciences and The Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, Texas 78712
| | - Laura K Mayberry
- Department of Molecular Biosciences and The Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, Texas 78712
| | - Argelia Lorence
- Arkansas Biosciences Institute, Arkansas State University, State University, Arkansas 72467
| | - Zachary C Campbell
- Arkansas Biosciences Institute, Arkansas State University, State University, Arkansas 72467
| | - Johnna L Roose
- Division of Biochemistry and Molecular Biology, Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisiana 70803
| | - Laurie K Frankel
- Division of Biochemistry and Molecular Biology, Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisiana 70803
| | - Terry M Bricker
- Division of Biochemistry and Molecular Biology, Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisiana 70803
| | - Hanjo A Hellmann
- School of Biological Sciences, Washington State University, Pullman, Washington 99164-4236
| | - Roderick W Mayberry
- Department of Molecular Biosciences and The Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, Texas 78712
| | - Ana Solis Zavala
- Department of Molecular Biosciences and The Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, Texas 78712
| | - Grace S Choy
- Department of Molecular Biosciences and The Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, Texas 78712
| | - Dennis C Wylie
- Department of Molecular Biosciences and The Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, Texas 78712
| | - Mustafa Abdul-Moheeth
- Department of Molecular Biosciences and The Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, Texas 78712
| | - Adeeb Masood
- Department of Molecular Biosciences and The Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, Texas 78712
| | - Amy G Prater
- Department of Molecular Biosciences and The Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, Texas 78712
| | - Hailey E Van Hoorn
- Department of Molecular Biosciences and The Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, Texas 78712
| | - Nicola A Cole
- Department of Molecular Biosciences and The Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, Texas 78712
| | - Karen S Browning
- Department of Molecular Biosciences and The Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, Texas 78712
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8
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VIPP1 rods engulf membranes containing phosphatidylinositol phosphates. Sci Rep 2019; 9:8725. [PMID: 31217458 PMCID: PMC6584618 DOI: 10.1038/s41598-019-44259-3] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2018] [Accepted: 05/14/2019] [Indexed: 12/15/2022] Open
Abstract
In cyanobacteria and plants, VIPP1 plays crucial roles in the biogenesis and repair of thylakoid membrane protein complexes and in coping with chloroplast membrane stress. In chloroplasts, VIPP1 localizes in distinct patterns at or close to envelope and thylakoid membranes. In vitro, VIPP1 forms higher-order oligomers of >1 MDa that organize into rings and rods. However, it remains unknown how VIPP1 oligomerization is related to function. Using time-resolved fluorescence anisotropy and sucrose density gradient centrifugation, we show here that Chlamydomonas reinhardtii VIPP1 binds strongly to liposomal membranes containing phosphatidylinositol-4-phosphate (PI4P). Cryo-electron tomography reveals that VIPP1 oligomerizes into rods that can engulf liposomal membranes containing PI4P. These findings place VIPP1 into a group of membrane-shaping proteins including epsin and BAR domain proteins. Moreover, they point to a potential role of phosphatidylinositols in directing the shaping of chloroplast membranes.
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9
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Thurotte A, Schneider D. The Fusion Activity of IM30 Rings Involves Controlled Unmasking of the Fusogenic Core. FRONTIERS IN PLANT SCIENCE 2019; 10:108. [PMID: 30792728 PMCID: PMC6374351 DOI: 10.3389/fpls.2019.00108] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/31/2018] [Accepted: 01/23/2019] [Indexed: 05/20/2023]
Abstract
The inner membrane-associated protein of 30 kDa (IM30, also known as Vipp1) is required for thylakoid membrane biogenesis and maintenance in cyanobacteria and chloroplasts. The protein forms large rings of ∼2 MDa and triggers membrane fusion in presence of Mg2+. Based on the here presented observations, IM30 rings are built from dimers of dimers, and formation of these tetrameric building blocks is driven by interactions of the central coiled-coil, formed by helices 2 and 3, and stabilized via additional interactions mainly involving helix 1. Furthermore, helix 1 as well as C-terminal regions of IM30 together negatively regulate ring-ring contacts. We propose that IM30 rings represent the inactive form of IM30, and upon binding to negatively charged membrane surfaces, the here identified fusogenic core of IM30 rings eventually interacts with the lipid bilayer, resulting in membrane destabilization and membrane fusion. Unmasking of the IM30 fusogenic core likely is controlled by Mg2+, which triggers rearrangement of the IM30 ring structure.
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10
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Nakamura S, Hidema J, Sakamoto W, Ishida H, Izumi M. Selective Elimination of Membrane-Damaged Chloroplasts via Microautophagy. PLANT PHYSIOLOGY 2018; 177:1007-1026. [PMID: 29748433 PMCID: PMC6052986 DOI: 10.1104/pp.18.00444] [Citation(s) in RCA: 63] [Impact Index Per Article: 10.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/13/2018] [Accepted: 04/28/2018] [Indexed: 05/20/2023]
Abstract
Plant chloroplasts constantly accumulate damage caused by visible wavelengths of light during photosynthesis. Our previous study revealed that entire photodamaged chloroplasts are subjected to vacuolar digestion through an autophagy process termed chlorophagy; however, how this process is induced and executed remained poorly understood. In this study, we monitored intracellular induction of chlorophagy in Arabidopsis (Arabidopsis thaliana) leaves and found that mesophyll cells damaged by high visible light displayed abnormal chloroplasts with a swollen shape and 2.5 times the volume of normal chloroplasts. In wild-type plants, the activation of chlorophagy decreased the number of swollen chloroplasts. In the autophagy-deficient autophagy mutants, the swollen chloroplasts persisted, and dysfunctional chloroplasts that had lost chlorophyll fluorescence accumulated in the cytoplasm. Chloroplast swelling and subsequent induction of chlorophagy were suppressed by the application of exogenous mannitol to increase the osmotic pressure outside chloroplasts or by overexpression of VESICLE INDUCING PROTEIN IN PLASTID1, which maintains chloroplast envelope integrity. Microscopic observations of autophagy-related membranes showed that swollen chloroplasts were partly surrounded by autophagosomal structures and were engulfed directly by the tonoplast, as in microautophagy. Our results indicate that an elevation in osmotic potential inside the chloroplast due to high visible light-derived envelope damage results in chloroplast swelling and serves as an induction factor for chlorophagy, and this process mobilizes entire chloroplasts via tonoplast-mediated sequestering to avoid the cytosolic accumulation of dysfunctional chloroplasts.
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Affiliation(s)
- Sakuya Nakamura
- Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 980-8577 Sendai, Japan
| | - Jun Hidema
- Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 980-8577 Sendai, Japan
| | - Wataru Sakamoto
- Institute of Plant Science and Resources, Okayama University, 710-0046 Kurashiki, Japan
| | - Hiroyuki Ishida
- Department of Applied Plant Science, Graduate School of Agricultural Science, Tohoku University, 980-8572 Sendai, Japan
| | - Masanori Izumi
- Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 980-8577 Sendai, Japan
- Frontier Research Institute for Interdisciplinary Sciences, Tohoku University, 980-8578 Sendai, Japan
- PRESTO, Japan Science and Technology Agency, 322-0012 Kawaguchi, Japan
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Ohnishi N, Zhang L, Sakamoto W. VIPP1 Involved in Chloroplast Membrane Integrity Has GTPase Activity in Vitro. PLANT PHYSIOLOGY 2018; 177:328-338. [PMID: 29622686 PMCID: PMC5933125 DOI: 10.1104/pp.18.00145] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/05/2018] [Accepted: 03/29/2018] [Indexed: 05/04/2023]
Abstract
VESICLE-INDUCING PROTEIN IN PLASTID1 (VIPP1) is conserved among oxygenic photosynthetic organisms and appears to have diverged from the bacterial PspA protein. VIPP1 localizes to the chloroplast envelope and thylakoid membrane, where it forms homooligomers of high molecular mass. Although multiple roles of VIPP1 have been inferred, including thylakoid membrane formation, envelope maintenance, membrane fusion, and regulation of photosynthetic activity, its precise role in chloroplast membrane quality control remains unknown. VIPP1 forms an oligomer through its amino-terminal domain and triggers membrane fusion in an Mg2+-dependent manner. We previously demonstrated that Arabidopsis (Arabidopsis thaliana) VIPP1 also exhibits dynamic complex disassembly in response to osmotic and heat stresses in vivo. These results suggest that VIPP1 mediates membrane fusion/remodeling in chloroplasts. Considering that protein machines that regulate intracellular membrane fusion/remodeling events often require a capacity for GTP binding and/or hydrolysis, we questioned whether VIPP1 has similar properties. We conducted an in vitro assay using a purified VIPP1-His fusion protein expressed in Escherichia coli cells. VIPP1-His showed GTP hydrolysis activity that was inhibited competitively by an unhydrolyzable GTP analog, GTPγS, and that depends on GTP binding. It is particularly interesting that the ancestral PspA from E. coli also possesses GTP hydrolysis activity. Although VIPP1 does not contain a canonical G domain, the amino-terminal α-helix was found to be important for both GTP binding and GTP hydrolysis as well as for oligomer formation. Collectively, our results reveal that the properties of VIPP1/PspA are similar to those of GTPases.
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Affiliation(s)
- Norikazu Ohnishi
- Institute of Plant Science and Resources, Okayama University, Kurashiki, Okayama 710-0046, Japan
| | - Lingang Zhang
- Institute of Plant Science and Resources, Okayama University, Kurashiki, Okayama 710-0046, Japan
| | - Wataru Sakamoto
- Institute of Plant Science and Resources, Okayama University, Kurashiki, Okayama 710-0046, Japan
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Zhang L, Kondo H, Kamikubo H, Kataoka M, Sakamoto W. VIPP1 Has a Disordered C-Terminal Tail Necessary for Protecting Photosynthetic Membranes against Stress. PLANT PHYSIOLOGY 2016; 171:1983-95. [PMID: 27208228 PMCID: PMC4936581 DOI: 10.1104/pp.16.00532] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/02/2016] [Accepted: 05/09/2016] [Indexed: 05/19/2023]
Abstract
Integrity of biomembranes is vital to living organisms. In bacteria, PspA is considered to act as repairing damaged membrane by forming large supercomplexes in Arabidopsis (Arabidopsis thaliana). Vulnerable to oxidative stress, photosynthetic organisms also contain a PspA ortholog called VIPP1, which has an additional C-terminal tail (Vc). In this study, Vc was shown to coincide with an intrinsically disordered region, and the role of VIPP1 in membrane protection against stress was investigated. We visualized VIPP1 by fusing it to GFP (VIPP1-GFP that fully complemented lethal vipp1 mutations), and investigated its behavior in vivo with live imaging. The intrinsically disordered nature of Vc enabled VIPP1 to form what appeared to be functional particles along envelopes, whereas the deletion of Vc caused excessive association of the VIPP1 particles, preventing their active movement for membrane protection. Expression of VIPP1 lacking Vc complemented vipp1 mutation, but exhibited sensitivity to heat shock stress. Conversely, transgenic plants over-expressing VIPP1 showed enhanced tolerance against heat shock, suggesting that Vc negatively regulates VIPP1 particle association and acts in maintaining membrane integrity. Our data thus indicate that VIPP1 is involved in the maintenance of photosynthetic membranes. During evolution, chloroplasts have acquired enhanced tolerance against membrane stress by incorporating a disordered C-terminal tail into VIPP1.
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Affiliation(s)
- Lingang Zhang
- Institute of Plant Science and Resources, Okayama University, Kurashiki, Okayama 710-0046, Japan (L.Z., H.Ko., W.S.); School of Life Science and Technology, Inner Mongolia University of Science and Technology, Baotou 014010, China (L.Z.); and Graduate School of Materials Science, Nara Institute of Science and Technology, Ikoma, Nara 630-0101, Japan (H.Ka., M.K.)
| | - Hideki Kondo
- Institute of Plant Science and Resources, Okayama University, Kurashiki, Okayama 710-0046, Japan (L.Z., H.Ko., W.S.); School of Life Science and Technology, Inner Mongolia University of Science and Technology, Baotou 014010, China (L.Z.); and Graduate School of Materials Science, Nara Institute of Science and Technology, Ikoma, Nara 630-0101, Japan (H.Ka., M.K.)
| | - Hironari Kamikubo
- Institute of Plant Science and Resources, Okayama University, Kurashiki, Okayama 710-0046, Japan (L.Z., H.Ko., W.S.); School of Life Science and Technology, Inner Mongolia University of Science and Technology, Baotou 014010, China (L.Z.); and Graduate School of Materials Science, Nara Institute of Science and Technology, Ikoma, Nara 630-0101, Japan (H.Ka., M.K.)
| | - Mikio Kataoka
- Institute of Plant Science and Resources, Okayama University, Kurashiki, Okayama 710-0046, Japan (L.Z., H.Ko., W.S.); School of Life Science and Technology, Inner Mongolia University of Science and Technology, Baotou 014010, China (L.Z.); and Graduate School of Materials Science, Nara Institute of Science and Technology, Ikoma, Nara 630-0101, Japan (H.Ka., M.K.)
| | - Wataru Sakamoto
- Institute of Plant Science and Resources, Okayama University, Kurashiki, Okayama 710-0046, Japan (L.Z., H.Ko., W.S.); School of Life Science and Technology, Inner Mongolia University of Science and Technology, Baotou 014010, China (L.Z.); and Graduate School of Materials Science, Nara Institute of Science and Technology, Ikoma, Nara 630-0101, Japan (H.Ka., M.K.)
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