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Chibani K, Pucker B, Dietz KJ, Cavanagh A. Genome-wide analysis and transcriptional regulation of the typical and atypical thioredoxins in Arabidopsis thaliana. FEBS Lett 2021; 595:2715-2730. [PMID: 34561866 DOI: 10.1002/1873-3468.14197] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2021] [Revised: 09/17/2021] [Accepted: 09/20/2021] [Indexed: 12/13/2022]
Abstract
Thioredoxins (TRXs), a large subclass of ubiquitous oxidoreductases, are involved in thiol redox regulation. Here, we performed a comprehensive analysis of TRXs in the Arabidopsis thaliana genome, revealing 41 genes encoding 18 typical and 23 atypical TRXs, and 6 genes encoding thioredoxin reductases (TRs). The high number of atypical TRXs indicates special functions in plants that mostly await elucidation. We identified an atypical class of thioredoxins called TRX-c in the genomes of photosynthetic eukaryotes. Localized to the chloroplast, TRX-c displays atypical CPLC, CHLC and CNLC motifs in the active sites. In silico analysis of the transcriptional regulations of TRXs revealed high expression of TRX-c in leaves and strong regulation under cold, osmotic, salinity and metal ion stresses.
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Affiliation(s)
- Kamel Chibani
- School of Life Sciences, University of Essex, Colchester, UK.,Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, Germany
| | - Boas Pucker
- Department of Sciences, University of Cambridge, UK
| | - Karl-Josef Dietz
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, Germany
| | - Amanda Cavanagh
- School of Life Sciences, University of Essex, Colchester, UK
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Maynard D, Viehhauser A, Knieper M, Dreyer A, Manea G, Telman W, Butter F, Chibani K, Scheibe R, Dietz KJ. The In Vitro Interaction of 12-Oxophytodienoic Acid and Related Conjugated Carbonyl Compounds with Thiol Antioxidants. Biomolecules 2021; 11:biom11030457. [PMID: 33803875 PMCID: PMC8003295 DOI: 10.3390/biom11030457] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2021] [Revised: 03/05/2021] [Accepted: 03/15/2021] [Indexed: 11/16/2022] Open
Abstract
α,β-unsaturated carbonyls interfere with numerous plant physiological processes. One mechanism of action is their reactivity toward thiols of metabolites like cysteine and glutathione (GSH). This work aimed at better understanding these interactions. Both 12-oxophytodienoic acid (12-OPDA) and abscisic acid (ABA) conjugated with cysteine. It was found that the reactivity of α,β-unsaturated carbonyls with GSH followed the sequence trans-2-hexenal < 12-OPDA ≈ 12-OPDA-ethylester < 2-cyclopentenone << methyl vinylketone (MVK). Interestingly, GSH, but not ascorbate (vitamin C), supplementation ameliorated the phytotoxic potential of MVK. In addition, 12-OPDA and 12-OPDA-related conjugated carbonyl compounds interacted with proteins, e.g., with members of the thioredoxin (TRX)-fold family. 12-OPDA modified two cysteinyl residues of chloroplast TRX-f1. The OPDAylated TRX-f1 lost its activity to activate the Calvin-Benson-cycle enzyme fructose-1,6-bisphosphatase (FBPase). Finally, we show that 12-OPDA interacts with cyclophilin 20-3 (Cyp20-3) non-covalently and affects its peptidyl-prolyl-cis/trans isomerase activity. The results demonstrate the high potential of 12-OPDA as a diverse interactor and cellular regulator and suggest that OPDAylation may occur in plant cells and should be investigated as novel regulatory mechanism.
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Affiliation(s)
- Daniel Maynard
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, 33615 Bielefeld, Germany; (D.M.); (A.V.); (M.K.); (A.D.); (G.M.); (W.T.); (K.C.)
| | - Andrea Viehhauser
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, 33615 Bielefeld, Germany; (D.M.); (A.V.); (M.K.); (A.D.); (G.M.); (W.T.); (K.C.)
| | - Madita Knieper
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, 33615 Bielefeld, Germany; (D.M.); (A.V.); (M.K.); (A.D.); (G.M.); (W.T.); (K.C.)
| | - Anna Dreyer
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, 33615 Bielefeld, Germany; (D.M.); (A.V.); (M.K.); (A.D.); (G.M.); (W.T.); (K.C.)
| | - Ghamdan Manea
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, 33615 Bielefeld, Germany; (D.M.); (A.V.); (M.K.); (A.D.); (G.M.); (W.T.); (K.C.)
| | - Wilena Telman
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, 33615 Bielefeld, Germany; (D.M.); (A.V.); (M.K.); (A.D.); (G.M.); (W.T.); (K.C.)
| | - Falk Butter
- Institute for Molecular Biology, Johannes Gutenberg-University Mainz, 55128 Mainz, Germany;
| | - Kamel Chibani
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, 33615 Bielefeld, Germany; (D.M.); (A.V.); (M.K.); (A.D.); (G.M.); (W.T.); (K.C.)
| | - Renate Scheibe
- Department of Plant Physiology, Faculty of Biology and Chemistry, Osnabrück University, 49069 Osnabrück, Germany;
| | - Karl-Josef Dietz
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, 33615 Bielefeld, Germany; (D.M.); (A.V.); (M.K.); (A.D.); (G.M.); (W.T.); (K.C.)
- Correspondence: ; Tel.: +49-521-106-5589
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Dreyer A, Schackmann A, Kriznik A, Chibani K, Wesemann C, Vogelsang L, Beyer A, Dietz KJ. Thiol Redox Regulation of Plant β-Carbonic Anhydrase. Biomolecules 2020; 10:E1125. [PMID: 32751472 PMCID: PMC7463553 DOI: 10.3390/biom10081125] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2020] [Revised: 07/27/2020] [Accepted: 07/28/2020] [Indexed: 12/16/2022] Open
Abstract
β-carbonic anhydrases (βCA) accelerate the equilibrium formation between CO2 and carbonate. Two plant βCA isoforms are targeted to the chloroplast and represent abundant proteins in the range of >1% of chloroplast protein. While their function in gas exchange and photosynthesis is well-characterized in carbon concentrating mechanisms of cyanobacteria and plants with C4-photosynthesis, their function in plants with C3-photosynthesis is less clear. The presence of conserved and surface-exposed cysteinyl residues in the βCA-structure urged to the question whether βCA is subject to redox regulation. Activity measurements revealed reductive activation of βCA1, whereas oxidized βCA1 was inactive. Mutation of cysteinyl residues decreased βCA1 activity, in particular C280S, C167S, C230S, and C257S. High concentrations of dithiothreitol or low amounts of reduced thioredoxins (TRXs) activated oxidized βCA1. TRX-y1 and TRX-y2 most efficiently activated βCA1, followed by TRX-f1 and f2 and NADPH-dependent TRX reductase C (NTRC). High light irradiation did not enhance βCA activity in wildtype Arabidopsis, but surprisingly in βca1 knockout plants, indicating light-dependent regulation. The results assign a role of βCA within the thiol redox regulatory network of the chloroplast.
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Affiliation(s)
- Anna Dreyer
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, 33615 Bielefeld, Germany; (A.D.); (A.S.); (K.C.); (C.W.); (L.V.)
| | - Alexander Schackmann
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, 33615 Bielefeld, Germany; (A.D.); (A.S.); (K.C.); (C.W.); (L.V.)
| | - Alexandre Kriznik
- CNRS, INSERM, IBSLor, Biophysics and Structural Biology, Université de Lorraine, F-5400 Nancy, France;
| | - Kamel Chibani
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, 33615 Bielefeld, Germany; (A.D.); (A.S.); (K.C.); (C.W.); (L.V.)
| | - Corinna Wesemann
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, 33615 Bielefeld, Germany; (A.D.); (A.S.); (K.C.); (C.W.); (L.V.)
| | - Lara Vogelsang
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, 33615 Bielefeld, Germany; (A.D.); (A.S.); (K.C.); (C.W.); (L.V.)
| | - André Beyer
- Physics of Supramolecular Systems and Surfaces, Faculty of Physics, Bielefeld University, 33615 Bielefeld, Germany;
| | - Karl-Josef Dietz
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, 33615 Bielefeld, Germany; (A.D.); (A.S.); (K.C.); (C.W.); (L.V.)
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Gerken M, Kakorin S, Chibani K, Dietz KJ. Computational simulation of the reactive oxygen species and redox network in the regulation of chloroplast metabolism. PLoS Comput Biol 2020; 16:e1007102. [PMID: 31951606 PMCID: PMC6992225 DOI: 10.1371/journal.pcbi.1007102] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2019] [Revised: 01/30/2020] [Accepted: 08/15/2019] [Indexed: 02/07/2023] Open
Abstract
Cells contain a thiol redox regulatory network to coordinate metabolic and developmental activities with exogenous and endogenous cues. This network controls the redox state and activity of many target proteins. Electrons are fed into the network from metabolism and reach the target proteins via redox transmitters such as thioredoxin (TRX) and NADPH-dependent thioredoxin reductases (NTR). Electrons are drained from the network by reactive oxygen species (ROS) through thiol peroxidases, e.g., peroxiredoxins (PRX). Mathematical modeling promises access to quantitative understanding of the network function and was implemented by using published kinetic parameters combined with fitting to known biochemical data. Two networks were assembled, namely the ferredoxin (FDX), FDX-dependent TRX reductase (FTR), TRX, fructose-1,6-bisphosphatase (FBPase) pathway with 2-cysteine PRX/ROS as oxidant, and separately the FDX, FDX-dependent NADP reductase (FNR), NADPH, NTRC-pathway for 2-CysPRX reduction. Combining both modules allowed drawing several important conclusions of network performance. The resting H2O2 concentration was estimated to be about 30 nM in the chloroplast stroma. The electron flow to metabolism exceeds that into thiol regulation of FBPase more than 7000-fold under physiological conditions. The electron flow from NTRC to 2-CysPRX is about 5.32-times more efficient than that from TRX-f1 to 2-CysPRX. Under severe stress (30 μM H2O2) the ratio of electron flow to the thiol network relative to metabolism sinks to 1:251 whereas the ratio of e- flow from NTRC to 2-CysPRX and TRX-f1 to 2-CysPRX rises up to 1:67. Thus, the simulation provides clues on experimentally inaccessible parameters and describes the functional state of the chloroplast thiol regulatory network.
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Affiliation(s)
- Melanie Gerken
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, Bielefeld University, Bielefeld, Germany
| | - Sergej Kakorin
- Physikalische Chemie III, Faculty of Chemistry, Bielefeld University, Bielefeld, Germany
| | - Kamel Chibani
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, Bielefeld University, Bielefeld, Germany
| | - Karl-Josef Dietz
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, Bielefeld University, Bielefeld, Germany
- * E-mail:
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Laxa M, Liebthal M, Telman W, Chibani K, Dietz KJ. The Role of the Plant Antioxidant System in Drought Tolerance. Antioxidants (Basel) 2019; 8:E94. [PMID: 30965652 PMCID: PMC6523806 DOI: 10.3390/antiox8040094] [Citation(s) in RCA: 239] [Impact Index Per Article: 47.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2019] [Revised: 03/30/2019] [Accepted: 04/02/2019] [Indexed: 12/22/2022] Open
Abstract
Water deficiency compromises plant performance and yield in many habitats and in agriculture. In addition to survival of the acute drought stress period which depends on plant-genotype-specific characteristics, stress intensity and duration, also the speed and efficiency of recovery determine plant performance. Drought-induced deregulation of metabolism enhances generation of reactive oxygen species (ROS) and reactive nitrogen species (RNS) which in turn affect the redox regulatory state of the cell. Strong correlative and analytical evidence assigns a major role in drought tolerance to the redox regulatory and antioxidant system. This review compiles current knowledge on the response and function of superoxide, hydrogen peroxide and nitric oxide under drought stress in various species and drought stress regimes. The meta-analysis of reported changes in transcript and protein amounts, and activities of components of the antioxidant and redox network support the tentative conclusion that drought tolerance is more tightly linked to up-regulated ascorbate-dependent antioxidant activity than to the response of the thiol-redox regulatory network. The significance of the antioxidant system in surviving severe phases of dehydration is further supported by the strong antioxidant system usually encountered in resurrection plants.
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Affiliation(s)
- Miriam Laxa
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, Universitätsstr. 25, 33615 Bielefeld, North Rhine Westphalia, Germany.
| | - Michael Liebthal
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, Universitätsstr. 25, 33615 Bielefeld, North Rhine Westphalia, Germany.
| | - Wilena Telman
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, Universitätsstr. 25, 33615 Bielefeld, North Rhine Westphalia, Germany.
| | - Kamel Chibani
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, Universitätsstr. 25, 33615 Bielefeld, North Rhine Westphalia, Germany.
| | - Karl-Josef Dietz
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, Universitätsstr. 25, 33615 Bielefeld, North Rhine Westphalia, Germany.
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Vaseghi MJ, Chibani K, Telman W, Liebthal MF, Gerken M, Schnitzer H, Mueller SM, Dietz KJ. The chloroplast 2-cysteine peroxiredoxin functions as thioredoxin oxidase in redox regulation of chloroplast metabolism. eLife 2018; 7:38194. [PMID: 30311601 PMCID: PMC6221545 DOI: 10.7554/elife.38194] [Citation(s) in RCA: 86] [Impact Index Per Article: 14.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2018] [Accepted: 10/07/2018] [Indexed: 12/20/2022] Open
Abstract
Thiol-dependent redox regulation controls central processes in plant cells including photosynthesis. Thioredoxins reductively activate, for example, Calvin-Benson cycle enzymes. However, the mechanism of oxidative inactivation is unknown despite its importance for efficient regulation. Here, the abundant 2-cysteine peroxiredoxin (2-CysPrx), but not its site-directed variants, mediates rapid inactivation of reductively activated fructose-1,6-bisphosphatase and NADPH-dependent malate dehydrogenase (MDH) in the presence of the proper thioredoxins. Deactivation of phosphoribulokinase (PRK) and MDH was compromised in 2cysprxAB mutant plants upon light/dark transition compared to wildtype. The decisive role of 2-CysPrx in regulating photosynthesis was evident from reoxidation kinetics of ferredoxin upon darkening of intact leaves since its half time decreased 3.5-times in 2cysprxAB. The disadvantage of inefficient deactivation turned into an advantage in fluctuating light. Physiological parameters like MDH and PRK inactivation, photosynthetic kinetics and response to fluctuating light fully recovered in 2cysprxAB mutants complemented with 2-CysPrxA underlining the significance of 2-CysPrx. The results show that the 2-CysPrx serves as electron sink in the thiol network important to oxidize reductively activated proteins and represents the missing link in the reversal of thioredoxin-dependent regulation.
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Affiliation(s)
- Mohamad-Javad Vaseghi
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, Bielefeld, Germany
| | - Kamel Chibani
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, Bielefeld, Germany
| | - Wilena Telman
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, Bielefeld, Germany
| | - Michael Florian Liebthal
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, Bielefeld, Germany
| | - Melanie Gerken
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, Bielefeld, Germany
| | - Helena Schnitzer
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, Bielefeld, Germany
| | - Sara Mareike Mueller
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, Bielefeld, Germany
| | - Karl-Josef Dietz
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, Bielefeld, Germany
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Chibani K, Saul F, Didierjean C, Rouhier N, Haouz A. Structural snapshots along the reaction mechanism of the atypical poplar thioredoxin-like2.1. FEBS Lett 2018; 592:1030-1041. [PMID: 29453875 DOI: 10.1002/1873-3468.13009] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [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: 12/21/2017] [Revised: 01/31/2018] [Accepted: 02/08/2018] [Indexed: 11/07/2022]
Abstract
Plastidial thioredoxin (TRX)-like2.1 proteins are atypical thioredoxins possessing a WCRKC active site signature and using glutathione for recycling. To obtain structural information supporting the peculiar catalytic mechanisms and target proteins of these TRXs, we solved the crystal structures of poplar TRX-like2.1 in oxidized and reduced states and of mutated variants. These structures share similar folding with TRXs exhibiting the canonical WCGPC signature. Moreover, the overall conformation is not altered by reduction of the catalytic disulfide bond or in a C45S/C67S variant that formed a disulfide-bridged dimer possibly mimicking reaction intermediates with target proteins. Modeling of the interaction of TRX-like2.1 with both NADPH- and ferredoxin-thioredoxin reductases (FTR) indicates that the presence of Arg43 and Lys44 residues likely precludes reduction by the plastidial FTR.
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Affiliation(s)
- Kamel Chibani
- UMR 1136, Interactions Arbres-Microorganismes, Faculté des Sciences et Technologies, Université de Lorraine/INRA, Vandœuvre-lès-Nancy, France
| | - Frederick Saul
- Institut Pasteur, Plateforme de Cristallographie, CNRS-UMR 3528, Paris, France
| | | | - Nicolas Rouhier
- UMR 1136, Interactions Arbres-Microorganismes, Faculté des Sciences et Technologies, Université de Lorraine/INRA, Vandœuvre-lès-Nancy, France
| | - Ahmed Haouz
- Institut Pasteur, Plateforme de Cristallographie, CNRS-UMR 3528, Paris, France
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Cardi M, Zaffagnini M, De Lillo A, Castiglia D, Chibani K, Gualberto JM, Rouhier N, Jacquot JP, Esposito S. Plastidic P2 glucose-6P dehydrogenase from poplar is modulated by thioredoxin m-type: Distinct roles of cysteine residues in redox regulation and NADPH inhibition. Plant Sci 2016; 252:257-266. [PMID: 27717462 DOI: 10.1016/j.plantsci.2016.08.003] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/13/2016] [Revised: 08/01/2016] [Accepted: 08/07/2016] [Indexed: 05/03/2023]
Abstract
A cDNA coding for a plastidic P2-type G6PDH isoform from poplar (Populus tremula x tremuloides) has been used to express and purify to homogeneity the mature recombinant protein with a N-terminus His-tag. The study of the kinetic properties of the recombinant enzyme showed an in vitro redox sensing modulation exerted by reduced DTT. The interaction with thioredoxins (TRXs) was then investigated. Five cysteine to serine variants (C145S - C175S - C183S - C195S - C242S) and a variant with a double substitution for Cys175 and Cys183 (C175S/C183S) have been generated, purified and biochemically characterized in order to investigate the specific role(s) of cysteines in terms of redox regulation and NADPH-dependent inhibition. Three cysteine residues (C145, C194, C242) are suggested to have a role in controlling the NADP+ access to the active site, and in stabilizing the NADPH regulatory binding site. Our results also indicate that the regulatory disulfide involves residues Cys175 and Cys183 in a position similar to those of chloroplastic P1-G6PDHs, but the modulation is exerted primarily by TRX m-type, in contrast to P1-G6PDH, which is regulated by TRX f. This unexpected specificity indicates differences in the mechanism of regulation, and redox sensing of plastidic P2-G6PDH compared to chloroplastic P1-G6PDH in higher plants.
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Affiliation(s)
- Manuela Cardi
- Dipartimento di Biologia, Univ. di Napoli "Federico II", I-80126 Napoli, Italy
| | - Mirko Zaffagnini
- Dipartimento di Farmacia e Biotecnologie, Univ. di Bologna, I-40126 Bologna, Italy
| | - Alessia De Lillo
- Dipartimento di Biologia, Univ. di Napoli "Federico II", I-80126 Napoli, Italy
| | - Daniela Castiglia
- Dipartimento di Biologia, Univ. di Napoli "Federico II", I-80126 Napoli, Italy
| | - Kamel Chibani
- Université de Lorraine, UMR 1136 Interactions Arbres/Microorganismes, Faculté des Sciences et Technologies, 54506, Vandoeuvre-lès-Nancy, France; INRA, UMR 1136 Interactions Arbres/Microorganismes, Centre INRA Nancy Lorraine, 54280, Champenoux, France
| | - José Manuel Gualberto
- Université de Strasbourg, Institut de Biologie Moléculaire Des Plantes (IBMP), CNRS-UPR 2357, 67084 Strasbourg, France
| | - Nicolas Rouhier
- Université de Lorraine, UMR 1136 Interactions Arbres/Microorganismes, Faculté des Sciences et Technologies, 54506, Vandoeuvre-lès-Nancy, France; INRA, UMR 1136 Interactions Arbres/Microorganismes, Centre INRA Nancy Lorraine, 54280, Champenoux, France
| | - Jean-Pierre Jacquot
- Université de Lorraine, UMR 1136 Interactions Arbres/Microorganismes, Faculté des Sciences et Technologies, 54506, Vandoeuvre-lès-Nancy, France; INRA, UMR 1136 Interactions Arbres/Microorganismes, Centre INRA Nancy Lorraine, 54280, Champenoux, France
| | - Sergio Esposito
- Dipartimento di Biologia, Univ. di Napoli "Federico II", I-80126 Napoli, Italy.
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Cardi M, Chibani K, Castiglia D, Cafasso D, Pizzo E, Rouhier N, Jacquot JP, Esposito S. Overexpression, purification and enzymatic characterization of a recombinant plastidial glucose-6-phosphate dehydrogenase from barley (Hordeum vulgare cv. Nure) roots. Plant Physiol Biochem 2013; 73:266-73. [PMID: 24161756 DOI: 10.1016/j.plaphy.2013.10.008] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/10/2013] [Accepted: 10/04/2013] [Indexed: 05/03/2023]
Abstract
In plant cells, the plastidial glucose 6-phosphate dehydrogenase (P2-G6PDH, EC 1.1.1.49) represents one of the most important sources of NADPH. However, previous studies revealed that both native and recombinant purified P2-G6PDHs show a great instability and a rapid loss of catalytic activity. Therefore it has been difficult to describe accurately the catalytic and physico-chemical properties of these isoforms. The plastidial G6PDH encoding sequence from barley roots (Hordeum vulgare cv. Nure), devoid of a long plastidial transit peptide, was expressed as recombinant protein in Escherichia coli, either untagged or with an N-terminal his-tag. After purification from both the soluble fraction and inclusion bodies, we have explored its kinetic parameters, as well as its sensitivity to reduction. The obtained results are consistent with values determined for other P2-G6PDHs previously purified from barley roots and from other land plants. Overall, these data shed light on the catalytic mechanism of plant P2-G6PDH, summarized in a proposed model in which the sequential mechanism is very similar to the mammalian cytosolic G6PDH. This study provides a rational basis to consider the recombinant barley root P2-G6PDH as a good model for further kinetic and structural studies.
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Affiliation(s)
- Manuela Cardi
- Dipartimento di Biologia, Università di Napoli "Federico II", Via Cinthia, 80126 Naples, Italy; Université de Lorraine, Unité Mixte de Recherches 1136 Interactions Arbres Microorganismes, F-54500 Vandoeuvre-lès-Nancy, France; INRA, Unité Mixte de Recherches 1136 Interactions Arbres Microorganismes, F-54280 Champenoux, France
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Morel M, Meux E, Mathieu Y, Thuillier A, Chibani K, Harvengt L, Jacquot JP, Gelhaye E. Xenomic networks variability and adaptation traits in wood decaying fungi. Microb Biotechnol 2013; 6:248-63. [PMID: 23279857 PMCID: PMC3815920 DOI: 10.1111/1751-7915.12015] [Citation(s) in RCA: 77] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2012] [Revised: 11/05/2012] [Accepted: 11/08/2012] [Indexed: 01/08/2023] Open
Abstract
Fungal degradation of wood is mainly restricted to basidiomycetes, these organisms having developed complex oxidative and hydrolytic enzymatic systems. Besides these systems, wood-decaying fungi possess intracellular networks allowing them to deal with the myriad of potential toxic compounds resulting at least in part from wood degradation but also more generally from recalcitrant organic matter degradation. The members of the detoxification pathways constitute the xenome. Generally, they belong to multigenic families such as the cytochrome P450 monooxygenases and the glutathione transferases. Taking advantage of the recent release of numerous genomes of basidiomycetes, we show here that these multigenic families are extended and functionally related in wood-decaying fungi. Furthermore, we postulate that these rapidly evolving multigenic families could reflect the adaptation of these fungi to the diversity of their substrate and provide keys to understand their ecology. This is of particular importance for white biotechnology, this xenome being a putative target for improving degradation properties of these fungi in biomass valorization purposes.
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Affiliation(s)
- Mélanie Morel
- Université de Lorraine, IAM, UMR 1136, IFR 110 EFABA, Vandoeuvre-lès-Nancy, F-54506, France.
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Couturier J, Chibani K, Jacquot JP, Rouhier N. Cysteine-based redox regulation and signaling in plants. Front Plant Sci 2013; 4:105. [PMID: 23641245 PMCID: PMC3638127 DOI: 10.3389/fpls.2013.00105] [Citation(s) in RCA: 86] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/05/2013] [Accepted: 04/05/2013] [Indexed: 05/20/2023]
Abstract
Living organisms are subjected to oxidative stress conditions which are characterized by the production of reactive oxygen, nitrogen, and sulfur species. In plants as in other organisms, many of these compounds have a dual function as they damage different types of macromolecules but they also likely fulfil an important role as secondary messengers. Owing to the reactivity of their thiol groups, some protein cysteine residues are particularly prone to oxidation by these molecules. In the past years, besides their recognized catalytic and regulatory functions, the modification of cysteine thiol group was increasingly viewed as either protective or redox signaling mechanisms. The most physiologically relevant reversible redox post-translational modifications (PTMs) are disulfide bonds, sulfenic acids, S-glutathione adducts, S-nitrosothiols and to a lesser extent S-sulfenyl-amides, thiosulfinates and S-persulfides. These redox PTMs are mostly controlled by two oxidoreductase families, thioredoxins and glutaredoxins. This review focuses on recent advances highlighting the variety and physiological roles of these PTMs and the proteomic strategies used for their detection.
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Affiliation(s)
| | | | | | - Nicolas Rouhier
- *Correspondence: Nicolas Rouhier, UMR1136 Université de Lorraine-INRA, Interactions Arbres/Micro-organismes, Faculté des Sciences, BP 239, 54506 Vandoeuvre, France. e-mail:
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Arc E, Chibani K, Grappin P, Jullien M, Godin B, Cueff G, Valot B, Balliau T, Job D, Rajjou L. Cold stratification and exogenous nitrates entail similar functional proteome adjustments during Arabidopsis seed dormancy release. J Proteome Res 2012; 11:5418-32. [PMID: 22985405 DOI: 10.1021/pr3006815] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Despite having very similar initial pools of stored mRNAs and proteins in the dry state, mature Arabidopsis seeds can either proceed toward radicle protrusion or stay in a dormant state upon imbibition. Dormancy breaking, a prerequisite to germination completion, can be induced by different treatments though the underlying mechanisms remain elusive. Thus, we investigated the consequence of such treatments on the seed proteome. Two unrelated dormancy-releasing treatments were applied to dormant seeds, namely, cold stratification and exogenous nitrates, in combination with differential proteomic tools to highlight the specificities of the imbibed dormant state. The results reveal that both treatments lead to highly similar proteome adjustments. In the imbibed dormant state, enzymes involved in reserve mobilization are less accumulated and it appears that several energetically costly processes associated to seed germination and preparation for subsequent seedling establishment are repressed. Our data suggest that dormancy maintenance is associated to an abscisic-acid-dependent recapitulation of the late maturation program resulting in a higher potential to cope with environmental stresses. The comparison of the present results with previously published -omic data sets reinforces and extends the assumption that post-transcriptional, translational, and post-translational regulations are determinant for seed germination.
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Affiliation(s)
- Erwann Arc
- INRA, Jean-Pierre Bourgin Institute (IJPB, UMR1318 INRA-AgroParisTech), Laboratory of Excellence Saclay Plant Sciences, RD10, F-78002 Versailles Cedex, France.
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Benyamina SM, Baldacci-Cresp F, Couturier J, Chibani K, Hopkins J, Bekki A, de Lajudie P, Rouhier N, Jacquot JP, Alloing G, Puppo A, Frendo P. TwoSinorhizobium melilotiglutaredoxins regulate iron metabolism and symbiotic bacteroid differentiation. Environ Microbiol 2012; 15:795-810. [DOI: 10.1111/j.1462-2920.2012.02835.x] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Chibani K, Tarrago L, Gualberto JM, Wingsle G, Rey P, Jacquot JP, Rouhier N. Atypical thioredoxins in poplar: the glutathione-dependent thioredoxin-like 2.1 supports the activity of target enzymes possessing a single redox active cysteine. Plant Physiol 2012; 159:592-605. [PMID: 22523226 PMCID: PMC3375927 DOI: 10.1104/pp.112.197723] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/23/2012] [Accepted: 04/19/2012] [Indexed: 05/20/2023]
Abstract
Plant thioredoxins (Trxs) constitute a complex family of thiol oxidoreductases generally sharing a WCGPC active site sequence. Some recently identified plant Trxs (Clot, Trx-like1 and -2, Trx-lilium1, -2, and -3) display atypical active site sequences with altered residues between the two conserved cysteines. The transcript expression patterns, subcellular localizations, and biochemical properties of some representative poplar (Populus spp.) isoforms were investigated. Measurements of transcript levels for the 10 members in poplar organs indicate that most genes are constitutively expressed. Using transient expression of green fluorescent protein fusions, Clot and Trx-like1 were found to be mainly cytosolic, whereas Trx-like2.1 was located in plastids. All soluble recombinant proteins, except Clot, exhibited insulin reductase activity, although with variable efficiencies. Whereas Trx-like2.1 and Trx-lilium2.2 were efficiently regenerated both by NADPH-Trx reductase and glutathione, none of the proteins were reduced by the ferredoxin-Trx reductase. Only Trx-like2.1 supports the activity of plastidial thiol peroxidases and methionine sulfoxide reductases employing a single cysteine residue for catalysis and using a glutathione recycling system. The second active site cysteine of Trx-like2.1 is dispensable for this reaction, indicating that the protein possesses a glutaredoxin-like activity. Interestingly, the Trx-like2.1 active site replacement, from WCRKC to WCGPC, suppresses its capacity to use glutathione as a reductant but is sufficient to allow the regeneration of target proteins employing two cysteines for catalysis, indicating that the nature of the residues composing the active site sequence is crucial for substrate selectivity/recognition. This study provides another example of the cross talk existing between the glutathione/glutaredoxin and Trx-dependent pathways.
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Rajjou L, Belghazi M, Catusse J, Ogé L, Arc E, Godin B, Chibani K, Ali-Rachidi S, Collet B, Grappin P, Jullien M, Gallardo K, Job C, Job D. Proteomics and posttranslational proteomics of seed dormancy and germination. Methods Mol Biol 2011; 773:215-36. [PMID: 21898259 DOI: 10.1007/978-1-61779-231-1_14] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
The seed is the dispersal unit of plants and must survive the vagaries of the environment. It is the object of intense genetic and genomic studies because processes related to seed quality affect crop yield and the seed itself provides food for humans and animals. Presently, the general aim of postgenomics analyses is to understand the complex biochemical and molecular processes underlying seed quality, longevity, dormancy, and vigor. Due to advances in functional genomics, the recent past years have seen a tremendous progress in our understanding of several aspects of seed development and germination. Here, we describe the proteomics protocols (from protein extraction to mass spectrometry) that can be used to investigate several aspects of seed physiology, including germination and its hormonal regulation, dormancy release, and seed longevity. These techniques can be applied to the study of both model plants (such as Arabidopsis) and crops.
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Affiliation(s)
- Loïc Rajjou
- AgroParisTech, Unité de Formation et de Recherche de Physiologie Végétale, Paris, France.
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Cardi M, Chibani K, Cafasso D, Rouhier N, Jacquot JP, Esposito S. Abscisic acid effects on activity and expression of barley (Hordeum vulgare) plastidial glucose-6-phosphate dehydrogenase. J Exp Bot 2011; 62:4013-23. [PMID: 21464159 PMCID: PMC3134356 DOI: 10.1093/jxb/err100] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/03/2023]
Abstract
Total glucose-6-phosphate dehydrogenase (G6PDH) activity, protein abundance, and transcript levels of G6PDH isoforms were measured in response to exogenous abscisic acid (ABA) supply to barley (Hordeum vulgare cv Nure) hydroponic culture. Total G6PDH activity increased by 50% in roots treated for 12 h with exogenous 0.1 mM ABA. In roots, a considerable increase (35%) in plastidial P2-G6PDH transcript levels was observed during the first 3 h of ABA treatment. Similar protein variations were observed in immunoblotting analyses. In leaves, a 2-fold increase in total G6PDH activity was observed after ABA treatment, probably related to an increase in the mRNA level (increased by 50%) and amount of protein (increased by 85%) of P2-G6PDH. Together these results suggest that the plastidial P2-isoform plays an important role in ABA-treated barley plants.
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Affiliation(s)
- Manuela Cardi
- Dipartimento di Biologia Strutturale e Funzionale, Università di Napoli Federico II, Via Cinthia, 80126 Naples, Italy
- Unité Mixte de Recherche INRA-UHP 1136, Interactions Arbres/Micro-organismes, Université Henri Poincaré, IFR 110, Faculté des Sciences, BP 239 54506 Vandoeuvre Cedex France
| | - Kamel Chibani
- Unité Mixte de Recherche INRA-UHP 1136, Interactions Arbres/Micro-organismes, Université Henri Poincaré, IFR 110, Faculté des Sciences, BP 239 54506 Vandoeuvre Cedex France
| | - Donata Cafasso
- Dipartimento di Biologia Strutturale e Funzionale, Università di Napoli Federico II, Via Cinthia, 80126 Naples, Italy
| | - Nicolas Rouhier
- Unité Mixte de Recherche INRA-UHP 1136, Interactions Arbres/Micro-organismes, Université Henri Poincaré, IFR 110, Faculté des Sciences, BP 239 54506 Vandoeuvre Cedex France
| | - Jean-Pierre Jacquot
- Unité Mixte de Recherche INRA-UHP 1136, Interactions Arbres/Micro-organismes, Université Henri Poincaré, IFR 110, Faculté des Sciences, BP 239 54506 Vandoeuvre Cedex France
| | - Sergio Esposito
- Dipartimento di Biologia Strutturale e Funzionale, Università di Napoli Federico II, Via Cinthia, 80126 Naples, Italy
- To whom correspondence should be addressed. E-mail:
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Chibani K, Couturier J, Selles B, Jacquot JP, Rouhier N. The chloroplastic thiol reducing systems: dual functions in the regulation of carbohydrate metabolism and regeneration of antioxidant enzymes, emphasis on the poplar redoxin equipment. Photosynth Res 2010; 104:75-99. [PMID: 19902380 DOI: 10.1007/s11120-009-9501-8] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/17/2009] [Accepted: 10/12/2009] [Indexed: 05/28/2023]
Abstract
The post-translational modification consisting in the formation/reduction of disulfide bonds has been the subject of intense research in plants since the discovery in the 1970s that many chloroplastic enzymes are regulated by light through dithiol-disulfide exchange reactions catalyzed by oxidoreductases called thioredoxins (Trxs). Further biochemical and proteomic studies have considerably increased the number of target enzymes and processes regulated by these mechanisms in many sub-cellular compartments. Recently, glutathionylation, a modification consisting in the reversible formation of a glutathione adduct on cysteine residues, was proposed as an alternative redox regulation mechanism. Glutaredoxins (Grxs), proteins related to Trxs, are efficient catalysts for deglutathionylation, the opposite reaction. Hence, the Trxs- and Grxs-dependent pathways might constitute complementary and not only redundant regulatory processes. This article focuses on these two multigenic families and associated protein partners in poplar and on their involvement in the regulation of some major chloroplastic processes such as stress response, carbohydrate and heme/chlorophyll metabolism.
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Affiliation(s)
- Kamel Chibani
- Unité Mixte de Recherches 1136 INRA-Nancy Université, Interactions Arbre-Microorganismes IFR 110 EFABA, Vandoeuvre-lès-Nancy Cedex, France
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Srivastava V, Srivastava MK, Chibani K, Nilsson R, Rouhier N, Melzer M, Wingsle G. Alternative splicing studies of the reactive oxygen species gene network in Populus reveal two isoforms of high-isoelectric-point superoxide dismutase. Plant Physiol 2009; 149:1848-1859. [PMID: 19176719 PMCID: PMC2663752 DOI: 10.1104/pp.108.133371] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/28/2008] [Accepted: 01/26/2009] [Indexed: 05/27/2023]
Abstract
Recent evidence has shown that alternative splicing (AS) is widely involved in the regulation of gene expression, substantially extending the diversity of numerous proteins. In this study, a subset of expressed sequence tags representing members of the reactive oxygen species gene network was selected from the PopulusDB database to investigate AS mechanisms in Populus. Examples of all known types of AS were detected, but intron retention was the most common. Interestingly, the closest Arabidopsis (Arabidopsis thaliana) homologs of half of the AS genes identified in Populus are not reportedly alternatively spliced. Two genes encoding the protein of most interest in our study (high-isoelectric-point superoxide dismutase [hipI-SOD]) have been found in black cottonwood (Populus trichocarpa), designated PthipI-SODC1 and PthipI-SODC2. Analysis of the expressed sequence tag libraries has indicated the presence of two transcripts of PthipI-SODC1 (hipI-SODC1b and hipI-SODC1s). Alignment of these sequences with the PthipI-SODC1 gene showed that hipI-SODC1b was 69 bp longer than hipI-SODC1s due to an AS event involving the use of an alternative donor splice site in the sixth intron. Transcript analysis showed that the splice variant hipI-SODC1b was differentially expressed, being clearly expressed in cambial and xylem, but not phloem, regions. In addition, immunolocalization and mass spectrometric data confirmed the presence of hipI-SOD proteins in vascular tissue. The functionalities of the spliced gene products were assessed by expressing recombinant hipI-SOD proteins and in vitro SOD activity assays.
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Affiliation(s)
- Vaibhav Srivastava
- Umeå Plant Science Center, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 83 Umeå, Sweden
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Chibani K, Wingsle G, Jacquot JP, Gelhaye E, Rouhier N. Comparative genomic study of the thioredoxin family in photosynthetic organisms with emphasis on Populus trichocarpa. Mol Plant 2009; 2:308-22. [PMID: 19825616 DOI: 10.1093/mp/ssn076] [Citation(s) in RCA: 65] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
The recent genome sequencing of Populus trichocarpa and Vitis vinifera, two models of woody plants, of Sorghum bicolor, a model of monocot using C4 metabolism, and of the moss Physcomitrella patens, together with the availability of photosynthetic organism genomes allows performance of a comparative genomic study with organisms having different ways of life, reproduction modes, biological traits, and physiologies. Thioredoxins (Trxs) are small ubiquitous proteins involved in the reduction of disulfide bridges in a variety of target enzymes present in all sub-cellular compartments and involved in many biochemical reactions. The genes coding for these enzymes have been identified in these newly sequenced genomes and annotated. The gene content, organization and distribution were compared to other photosynthetic organisms, leading to a refined classification. This analysis revealed that higher plants and bryophytes have a more complex family compared to algae and cyanobacteria and to non-photosynthetic organisms, since poplar exhibits 49 genes coding for typical and atypical thioredoxins and thioredoxin reductases, namely one-third more than monocots such as Oryza sativa and S. bicolor. The higher number of Trxs in poplar is partially explained by gene duplication in the Trx m, h, and nucleoredoxin classes. Particular attention was paid to poplar genes with emphasis on Trx-like classes called Clot, thioredoxin-like, thioredoxins of the lilium type and nucleoredoxins, which were not described in depth in previous genomic studies.
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Affiliation(s)
- Kamel Chibani
- UMR 1136 Nancy University-INRA, Interactions Arbres Microorganismes, IFR 110 GEEF, Faculté des Sciences, BP 239, 54506 Vandoeuvre-lès-Nancy Cedex, France
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Abstract
The mechanisms controlling seed dormancy in Arabidopsis (Arabidopsis thaliana) have been characterized by proteomics using the dormant (D) accession Cvi originating from the Cape Verde Islands. Comparative studies carried out with freshly harvested dormant and after-ripened non-dormant (ND) seeds revealed a specific differential accumulation of 32 proteins. The data suggested that proteins associated with metabolic functions potentially involved in germination can accumulate during after-ripening in the dry state leading to dormancy release. Exogenous application of abscisic acid (ABA) to ND seeds strongly impeded their germination, which physiologically mimicked the behavior of D imbibed seeds. This application resulted in an alteration of the accumulation pattern of 71 proteins. There was a strong down-accumulation of a major part (90%) of these proteins, which were involved mainly in energetic and protein metabolisms. This feature suggested that exogenous ABA triggers proteolytic mechanisms in imbibed seeds. An analysis of de novo protein synthesis by two-dimensional gel electrophoresis in the presence of [(35)S]-methionine disclosed that exogenous ABA does not impede protein biosynthesis during imbibition. Furthermore, imbibed D seeds proved competent for de novo protein synthesis, demonstrating that impediment of protein translation was not the cause of the observed block of seed germination. However, the two-dimensional protein profiles were markedly different from those obtained with the ND seeds imbibed in ABA. Altogether, the data showed that the mechanisms blocking germination of the ND seeds by ABA application are different from those preventing germination of the D seeds imbibed in basal medium.
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Affiliation(s)
- Kamel Chibani
- Institut National de la Recherche Agronomique-Institut National Agronomique Paris-Grignon, Chaire de Physiologie Végétale, Unité Mixte de Recherche 204, F-75231 Paris cedex 05, France
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