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415 results on '"Lemaire, Stéphane D."'

1. List of contributors

Author

Alric, Jean, primary, Atteia, Ariane, additional, Bailleul, Benjamin, additional, Ball, Steven G., additional, Benning, Christoph, additional, Blaby-Haas, Crysten E., additional, Bohne, Alexandra-Viola, additional, Boisset, Nicolas D., additional, Buchert, Felix, additional, Caccamo, Anna, additional, Calatrava, Victoria, additional, Cardol, Pierre, additional, Choquet, Yves, additional, Croce, Roberta, additional, Croteau, Dany, additional, Crozet, Pierre, additional, Danon, Antoine, additional, Dauvillée, David, additional, de Carpentier, Félix, additional, Deschamps, Philippe, additional, deVitry, Catherine, additional, Drouard, Laurence, additional, Duanmu, Deqiang, additional, Engel, Benjamin D., additional, Fernandez, Emilio, additional, Galvan, Aurora, additional, Goldschmidt-Clermont, Michel, additional, Gonzalez-Halphen, Diego, additional, Grossman, Arthur R., additional, Hamel, Patrice P., additional, Happe, Thomas, additional, Hauser, Charles, additional, Hegemann, Peter, additional, Hemschemeier, Anja, additional, Henri, Julien, additional, Hippler, Michael, additional, Iwai, Masakazu, additional, Johnson, Xenie, additional, Lagarias, J. Clark, additional, Le Moigne, Théo, additional, Lemaire, Stéphane D., additional, Li-Beisson, Yonghua, additional, Lohr, Martin, additional, Mackinder, Luke C.M., additional, Marchand, Christophe H., additional, Merchant, Sabeeha S., additional, Nickelsen, Joerg, additional, Niyogi, Krishna K., additional, Posewitz, Matthew C., additional, Przybyla-Toscano, Jonathan, additional, Redding, Kevin E., additional, Remacle, Claire, additional, Riekhof, Wayne, additional, Rochaix, Jean-David, additional, Rouhier, Nicolas, additional, Salinas-Giegé, Thalia, additional, Santabarbara, Stefano, additional, Sanz-Luque, Emanuel, additional, Scholz, Martin, additional, Schroda, Michael, additional, Subrahmanian, Nitya, additional, Takahashi, Yuichiro, additional, Tejada-Jimenez, Manuel, additional, Vierock, Johannes, additional, Wakao, Setsuko, additional, Warakanont, Jaruswan, additional, Wietrzynski, Wojciech, additional, Willmund, Felix, additional, Willows, Robert D., additional, Wollman, Francis-André, additional, Wostrikoff, Katia, additional, Zerges, William, additional, Zinzius, Karen, additional, and Zito, Francesca, additional

Published
2023
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2. Photoproduction of reducing power and the Calvin-Benson cycle

Author

Le Moigne, Théo, primary, Boisset, Nicolas D., additional, de Carpentier, Félix, additional, Crozet, Pierre, additional, Danon, Antoine, additional, Henri, Julien, additional, Marchand, Christophe H., additional, Lemaire, Stéphane D., additional, and Johnson, Xenie, additional

Published
2023
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6. Chloroplast FBPase and SBPase are thioredoxin-linked enzymes with similar architecture but different evolutionary histories

Author

Gütle, Desirée D, Roret, Thomas, Müller, Stefanie J, Couturier, Jérémy, Lemaire, Stéphane D, Hecker, Arnaud, Dhalleine, Tiphaine, Buchanan, Bob B, Reski, Ralf, Einsle, Oliver, and Jacquot, Jean-Pierre

Subjects
1.1 Normal biological development and functioning, Underpinning research, Bryopsida, Chloroplast Proteins, Evolution, Molecular, Fructose-Bisphosphatase, Phosphoric Monoester Hydrolases, Thioredoxins, Calvin-Benson cycle, sedoheptulose-1, 7-bisphosphatase, fructose-1, 6-bisphosphatase, redox regulation, thiol-disulfide exchange, Calvin–Benson cycle, thiol–disulfide exchange
Abstract

The Calvin-Benson cycle of carbon dioxide fixation in chloroplasts is controlled by light-dependent redox reactions that target specific enzymes. Of the regulatory members of the cycle, our knowledge of sedoheptulose-1,7-bisphosphatase (SBPase) is particularly scanty, despite growing evidence for its importance and link to plant productivity. To help fill this gap, we have purified, crystallized, and characterized the recombinant form of the enzyme together with the better studied fructose-1,6-bisphosphatase (FBPase), in both cases from the moss Physcomitrella patens (Pp). Overall, the moss enzymes resembled their counterparts from seed plants, including oligomeric organization-PpSBPase is a dimer, and PpFBPase is a tetramer. The two phosphatases showed striking structural homology to each other, differing primarily in their solvent-exposed surface areas in a manner accounting for their specificity for seven-carbon (sedoheptulose) and six-carbon (fructose) sugar bisphosphate substrates. The two enzymes had a similar redox potential for their regulatory redox-active disulfides (-310 mV for PpSBPase vs. -290 mV for PpFBPase), requirement for Mg(2+) and thioredoxin (TRX) specificity (TRX f > TRX m). Previously known to differ in the position and sequence of their regulatory cysteines, the enzymes unexpectedly showed unique evolutionary histories. The FBPase gene originated in bacteria in conjunction with the endosymbiotic event giving rise to mitochondria, whereas SBPase arose from an archaeal gene resident in the eukaryotic host. These findings raise the question of how enzymes with such different evolutionary origins achieved structural similarity and adapted to control by the same light-dependent photosynthetic mechanism-namely ferredoxin, ferredoxin-thioredoxin reductase, and thioredoxin.

Published
2016

11. Genome‐wide analysis on Chlamydomonas reinhardtii reveals the impact of hydrogen peroxide on protein stress responses and overlap with other stress transcriptomes

Author

Blaby, Ian K, Blaby-Haas, Crysten E, Pérez-Pérez, María Esther, Schmollinger, Stefan, Fitz-Gibbon, Sorel, Lemaire, Stéphane D, and Merchant, Sabeeha S

Subjects
Plant Biology, Biological Sciences, Biotechnology, Human Genome, Genetics, Carbon, Cell Cycle, Chlamydomonas reinhardtii, Gene Expression Profiling, Gene Expression Regulation, Plant, Genome, Plant, Glutathione, Hydrogen Peroxide, Oxidation-Reduction, Oxidative Stress, Photosynthesis, Reactive Oxygen Species, H2O2, oxidative stress, stress responses, redox signaling, reactive oxygen species, RNA-seq, Biochemistry and Cell Biology, Plant Biology & Botany, Biochemistry and cell biology, Plant biology
Abstract

Reactive oxygen species (ROS) are produced by and have the potential to be damaging to all aerobic organisms. In photosynthetic organisms, they are an unavoidable byproduct of electron transfer in both the chloroplast and mitochondrion. Here, we employ the reference unicellular green alga Chlamydomonas reinhardtii to identify the effect of H2O2 on gene expression by monitoring the changes in the transcriptome in a time-course experiment. Comparison of transcriptomes from cells sampled immediately prior to the addition of H2O2 and 0.5 and 1 h subsequently revealed 1278 differentially abundant transcripts. Of those transcripts that increase in abundance, many encode proteins involved in ROS detoxification, protein degradation and stress responses, whereas among those that decrease are transcripts encoding proteins involved in photosynthesis and central carbon metabolism. In addition to these transcriptomic adjustments, we observe that addition of H2O2 is followed by an accumulation and oxidation of the total intracellular glutathione pool, and a decrease in photosynthetic O2 output. Additionally, we analyze our transcriptomes in the context of changes in transcript abundance in response to singlet O2 (O2*), and relate our H2O2 -induced transcripts to a diurnal transcriptome, where we demonstrate enrichments of H2O2 -induced transcripts early in the light phase, late in the light phase and 2 h prior to light. On this basis several genes that are highlighted in this work may be involved in previously undiscovered stress remediation pathways or acclimation responses.

Published
2015

22. The Chlamydomonas Genome Reveals the Evolution of Key Animal and Plant Functions

Author

Merchant, Sabeeha S., Prochnik, Simon E., Vallon, Olivier, Harris, Elizabeth H., Karpowicz, Steven J., Witman, George B., Terry, Astrid, Salamov, Asaf, Fritz-Laylin, Lillian K., Maréchal-Drouard, Laurence, Marshal, Wallace F., Qu, Liang-Hu, Nelson, David R., Sanderfoot, Anton A., Spalding, Martin H., Kapitonov, Vladimir V., Ren, Qinghu, Ferris, Patrick, Lindquist, Erika, Shapiro, Harris, Lucas, Susan M., Grimwood, Jane, Schmutz, Jeremy, Cardol, Pierre, Cerutti, Heriberto, Chanfreau, Guillaume, Chen, Chun-Long, Cognat, Valérie, Croft, Martin T., Dent, Rachel, Dutcher, Susan, Fernández, Emilio, Fukuzawa, Hideya, González-Ballester, David, González-Halphen, Diego, Hallmann, Armin, Hanikenne, Marc, Hippler, Michael, Inwood, William, Jabbari, Kamel, Kalanon, Ming, Kuras, Richard, Lefebvre, Paul A., Lemaire, Stéphane D., Loba, Alexey V., Lohr, Martin, Manuell, Andrea, Meier, Iris, Mets, Laurens, Mittag, Maria, Mittelmeier, Telsa, Moroney, James V., Moseley, Jeffrey, Napoli, Carolyn, Nedelcu, Aurora M., Niyogi, Krishna, Novoselov, Sergey V., Paulsen, Ian T., Pazour, Greg, Purton, Saul, Ral, Jean-Philippe, Riano-Pachon, Diego Mauricio, Riekhof, Wayne, Rymarquis, Linda, Schroda, Michael, Stern, David, Umen, James, Willows, Robert, Wilson, Nedra, Zimmer, Sara Lana, Allmer, Jens, Balk, Janneke, Bisova, Katerina, Chen, Chong-Jian, Elias, Marek, Gendler, Karla, Hauser, Charles, Lamb, Mary Rose, Ledford, Heidi, Long, Joanne C., Minagawa, Jun, Page, M. Dudley, Pan, Junmin, Pootakham, Wirulda, Roje, Sanja, Rose, Annkatrin, Stahlberg, Eric, Terauchi, Aimee M., Yang, Pinfen, Ball, Steven, Bowler, Chris, Dieckmann, Carol L., Gladyshev, Vadim N., Green, Pamela, Jorgensen, Richard, Mayfield, Stephen, Mueller-Roeber, Bernd, Rajamani, Sathish, and Sayre, Richard T.

Abstract

Chlamydomonas reinhardtii is a unicellular green alga whose lineage diverged from land plants over 1 billion years ago. It is a model system for studying chloroplast-based photosynthesis, as well as the structure, assembly, and function of eukaryotic flagella (cilia), which were inherited from the common ancestor of plants and animals, but lost in land plants. We sequenced the 120-megabase nuclear genome of Chlamydomonas and performed comparative phylogenomic analyses, identifying genes encoding uncharacterized proteins that are likely associated with the function and biogenesis of chloroplasts or eukaryotic flagella. Analyses of the Chlamydomonas genome advance our understanding of the ancestral eukaryotic cell, reveal previously unknown genes associated with photosynthetic and flagellar functions, and establish links between ciliopathy and the composition and function of flagella.

Published
2007

27. MinOmics, an Integrative and Immersive Tool for Multi-Omics Analysis

Author

Maes Alexandre, Martinez Xavier, Druart Karen, Laurent Benoist, Guégan Sean, Marchand Christophe H., Lemaire Stéphane D., and Baaden Marc

Subjects
database, display wall, omics, protein and proteome, virtual reality (vr), Biotechnology, TP248.13-248.65
Abstract

Proteomic and transcriptomic technologies resulted in massive biological datasets, their interpretation requiring sophisticated computational strategies. Efficient and intuitive real-time analysis remains challenging. We use proteomic data on 1417 proteins of the green microalga Chlamydomonas reinhardtii to investigate physicochemical parameters governing selectivity of three cysteine-based redox post translational modifications (PTM): glutathionylation (SSG), nitrosylation (SNO) and disulphide bonds (SS) reduced by thioredoxins. We aim to understand underlying molecular mechanisms and structural determinants through integration of redox proteome data from gene- to structural level. Our interactive visual analytics approach on an 8.3 m2 display wall of 25 MPixel resolution features stereoscopic three dimensions (3D) representation performed by UnityMol WebGL. Virtual reality headsets complement the range of usage configurations for fully immersive tasks. Our experiments confirm that fast access to a rich cross-linked database is necessary for immersive analysis of structural data. We emphasize the possibility to display complex data structures and relationships in 3D, intrinsic to molecular structure visualization, but less common for omics-network analysis. Our setup is powered by MinOmics, an integrated analysis pipeline and visualization framework dedicated to multi-omics analysis. MinOmics integrates data from various sources into a materialized physical repository. We evaluate its performance, a design criterion for the framework.

Published
2018
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42. The C-Terminal Acidic Tail Modulates the Anticancer Properties of HMGB1

Author

Borde, Chloé, primary, Dillard, Clémentine, additional, L’Honoré, Aurore, additional, Quignon, Frédérique, additional, Hamon, Marion, additional, Marchand, Christophe H., additional, Faccion, Roberta Soares, additional, Costa, Maurício G. S., additional, Pramil, Elodie, additional, Larsen, Annette K., additional, Sabbah, Michèle, additional, Lemaire, Stéphane D., additional, Maréchal, Vincent, additional, and Escargueil, Alexandre E., additional

Published
2022
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44. Structural snapshots of nitrosoglutathione binding and reactivity underlying S-nitrosylation of photosynthetic GAPDH

Author

Mattioli, Edoardo Jun, primary, Rossi, Jacopo, additional, Meloni, Maria, additional, De Mia, Marcello, additional, Marchand, Christophe H., additional, Tagliani, Andrea, additional, Fanti, Silvia, additional, Falini, Giuseppe, additional, Trost, Paolo, additional, Lemaire, Stéphane D., additional, Fermani, Simona, additional, Calvaresi, Matteo, additional, and Zaffagnini, Mirko, additional

Published
2022
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