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6. The transcriptional repressor complex FRS7-FRS12 regulates flowering time and growth in Arabidopsis

Author

Ritter, Andrés, Iñigo, Sabrina, Fernández-Calvo, Patricia, Heyndrickx, Ken S, Dhondt, Stijn, Shi, Hua, De Milde, Liesbeth, Vanden Bossche, Robin, De Clercq, Rebecca, Eeckhout, Dominique, Ron, Mily, Somers, David E, Inzé, Dirk, Gevaert, Kris, De Jaeger, Geert, Vandepoele, Klaas, Pauwels, Laurens, and Goossens, Alain

Subjects
Plant Biology, Biochemistry and Cell Biology, Biological Sciences, Genetics, Underpinning research, 1.1 Normal biological development and functioning, Generic health relevance, Aldehyde Oxidoreductases, Arabidopsis, Arabidopsis Proteins, Base Sequence, Basic Helix-Loop-Helix Transcription Factors, Circadian Rhythm, Flowers, Gene Expression Regulation, Developmental, Gene Expression Regulation, Plant, Hypocotyl, Isoenzymes, Light, Photoperiod, Signal Transduction, Transcription, Genetic
Abstract

Most living organisms developed systems to efficiently time environmental changes. The plant-clock acts in coordination with external signals to generate output responses determining seasonal growth and flowering time. Here, we show that two Arabidopsis thaliana transcription factors, FAR1 RELATED SEQUENCE 7 (FRS7) and FRS12, act as negative regulators of these processes. These proteins accumulate particularly in short-day conditions and interact to form a complex. Loss-of-function of FRS7 and FRS12 results in early flowering plants with overly elongated hypocotyls mainly in short days. We demonstrate by molecular analysis that FRS7 and FRS12 affect these developmental processes in part by binding to the promoters and repressing the expression of GIGANTEA and PHYTOCHROME INTERACTING FACTOR 4 as well as several of their downstream signalling targets. Our data reveal a molecular machinery that controls the photoperiodic regulation of flowering and growth and offer insight into how plants adapt to seasonal changes.

Published
2017

7. Transcriptomic and metabolomic analysis of copper stress acclimation in Ectocarpus siliculosus highlights signaling and tolerance mechanisms in brown algae

Author

Ritter, Andrés, Dittami, Simon M, Goulitquer, Sophie, Correa, Juan A, Boyen, Catherine, Potin, Philippe, and Tonon, Thierry

Subjects
Quantitative Biology - Genomics, Quantitative Biology - Molecular Networks
Abstract

Brown algae are sessile macro-organisms of great ecological relevance in coastal ecosystems. They evolved independently from land plants and other multicellular lineages, and therefore hold several original ontogenic and metabolic features. Most brown algae grow along the coastal zone where they face frequent environmental changes, including exposure to toxic levels of heavy metals such as copper (Cu). We carried out large-scale transcriptomic and metabolomic analyses to decipher the short-term acclimation of the brown algal model E. siliculosus to Cu stress, and compared these data to results known for other abiotic stressors. This comparison demonstrates that Cu induces oxidative stress in E. siliculosus as illustrated by the transcriptomic overlap between Cu and H2O2 treatments. The common response to Cu and H2O2 consisted in the activation of the oxylipin and the repression of inositol signaling pathways, together with the regulation of genes coding for several transcription-associated proteins. Concomitantly, Cu stress specifically activated a set of genes coding for orthologs of ABC transporters, a P1B-type ATPase, ROS detoxification systems such as a vanadium-dependent bromoperoxidase, and induced an increase of free fatty acid contents. Finally we observed, as a common abiotic stress mechanism, the activation of autophagic processes on one hand and the repression of genes involved in nitrogen assimilation on the other hand. Comparisons with data from green plants indicate that some processes involved in Cu and oxidative stress response are conserved across these two distant lineages. At the same time the high number of yet uncharacterized brown alga-specific genes induced in response to copper stress underlines the potential to discover new components and molecular interactions unique to these organisms. Of particular interest for future research is the potential cross-talk between reactive oxygen species (ROS)-, myo-inositol-, and oxylipin signaling.

Published
2015

9. A redundant transcription factor network steers spatiotemporal Arabidopsis triterpene synthesis

Author

European Commission, Ghent University, Flemish Government, Research Foundation - Flanders, Swiss National Science Foundation, China Scholarship Council, John Innes Foundation, Nguyen, Trang Hieu [0000-0003-1051-8068], Thiers, Louis [0000-0002-8650-508X], Van Moerkercke, Alex [0000-0002-6393-4754], Bai, Yuechen [0000-0002-2314-8660], Fernández-Calvo, Patricia [0000-0002-1576-9651], Minne, Max [0000-0003-3089-2284], Depuydt, Thomas [0000-0001-5889-3962], Colinas, Maite [0000-0001-7053-2983], Verstaen, Kevin [0000-0003-3582-0298], Van Isterdael, Gert [0000-0001-6626-1316], Nützmann, Hans-Wilhelm [0000-0002-6855-7556], Osbourn, Anne [0000-0003-2195-5810], Saeys, Yvan [0000-0002-0415-1506], De Rybel, Bert [0000-0002-9551-042X], Vandepoele, Klaas [0000-0003-4790-2725], Ritter, Andrés [0000-0001-7011-6824], Goossens, Alain [0000-0002-1599-551X], Nguyen, Trang Hieu, Thiers, Louis, Van Moerkercke, Alex, Bai, Yuechen, Fernández-Calvo, Patricia, Minne, Max, Depuydt, Thomas, Colinas, Maite, Verstaen, Kevin, Van Isterdael, Gert, Nützmann, Hans-Wilhelm, Osbourn, Anne, Saeys, Yvan, De Rybel, Bert, Vandepoele, Klaas, Ritter, Andrés, Goossens, Alain, European Commission, Ghent University, Flemish Government, Research Foundation - Flanders, Swiss National Science Foundation, China Scholarship Council, John Innes Foundation, Nguyen, Trang Hieu [0000-0003-1051-8068], Thiers, Louis [0000-0002-8650-508X], Van Moerkercke, Alex [0000-0002-6393-4754], Bai, Yuechen [0000-0002-2314-8660], Fernández-Calvo, Patricia [0000-0002-1576-9651], Minne, Max [0000-0003-3089-2284], Depuydt, Thomas [0000-0001-5889-3962], Colinas, Maite [0000-0001-7053-2983], Verstaen, Kevin [0000-0003-3582-0298], Van Isterdael, Gert [0000-0001-6626-1316], Nützmann, Hans-Wilhelm [0000-0002-6855-7556], Osbourn, Anne [0000-0003-2195-5810], Saeys, Yvan [0000-0002-0415-1506], De Rybel, Bert [0000-0002-9551-042X], Vandepoele, Klaas [0000-0003-4790-2725], Ritter, Andrés [0000-0001-7011-6824], Goossens, Alain [0000-0002-1599-551X], Nguyen, Trang Hieu, Thiers, Louis, Van Moerkercke, Alex, Bai, Yuechen, Fernández-Calvo, Patricia, Minne, Max, Depuydt, Thomas, Colinas, Maite, Verstaen, Kevin, Van Isterdael, Gert, Nützmann, Hans-Wilhelm, Osbourn, Anne, Saeys, Yvan, De Rybel, Bert, Vandepoele, Klaas, Ritter, Andrés, and Goossens, Alain

Abstract

Plant specialized metabolites modulate developmental and ecological functions and comprise many therapeutic and other high-value compounds. However, the mechanisms determining their cell-specific expression remain unknown. Here we describe the transcriptional regulatory network that underlies cell-specific biosynthesis of triterpenes in Arabidopsis thaliana root tips. Expression of thalianol and marneral biosynthesis pathway genes depends on the phytohormone jasmonate and is limited to outer tissues. We show that this is promoted by the activity of redundant bHLH-type transcription factors from two distinct clades and coactivated by homeodomain factors. Conversely, the DOF-type transcription factor DAG1 and other regulators prevent expression of the triterpene pathway genes in inner tissues. We thus show how precise expression of triterpene biosynthesis genes is determined by a robust network of transactivators, coactivators and counteracting repressors.

Published
2023

11. Genome editing in diatoms: achievements and goals

Author

Kroth, Peter G., Bones, Atle M., Daboussi, Fayza, Ferrante, Maria I., Jaubert, Marianne, Kolot, Misha, Nymark, Marianne, Río Bártulos, Carolina, Ritter, Andrés, Russo, Monia T., Serif, Manuel, Winge, Per, and Falciatore, Angela

Published
2018
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12. Glutaredoxin GRXS17 Associates with the Cytosolic Iron-Sulfur Cluster Assembly Pathway

Author

Iñigo, Sabrina, Durand, Astrid Nagels, Ritter, Andrés, Le Gall, Sabine, Termathe, Martin, Klassen, Roland, Tohge, Takayuki, De Coninck, Barbara, Van Leene, Jelle, De Clercq, Rebecca, Cammue, Bruno P. A., Fernie, Alisdair R., Gevaert, Kris, De Jaeger, Geert, Leidel, Sebastian A., Schaffrath, Raffael, Van Lijsebettens, Mieke, Pauwels, Laurens, and Goossens, Alain

Published
2016

13. The RING E3 Ligase KEEP ON GOING Modulates JASMONATE ZIM-DOMAIN12 Stability

Author

Pauwels, Laurens, Ritter, Andrés, Goossens, Jonas, Durand, Astrid Nagels, Liu, Hongxia, Gu, Yangnan, Geerinck, Jan, Boter, Marta, Vanden Bossche, Robin, De Clercq, Rebecca, Van Leene, Jelle, Gevaert, Kris, De Jaeger, Geert, Solano, Roberto, Stone, Sophia, Innes, Roger W., Callis, Judy, and Goossens, Alain

Published
2015

14. Correction: Author Correction: The transcriptional repressor complex FRS7-FRS12 regulates flowering time and growth in Arabidopsis

Author

Ritter, Andrés, Iñigo, Sabrina, Fernández-Calvo, Patricia, Heyndrickx, Ken S., Dhondt, Stijn, Shi, Hua, De Milde, Liesbeth, Bossche, Robin Vanden, De Clercq, Rebecca, Eeckhout, Dominique, Ron, Mily, Somers, David E., Inzé, Dirk, Gevaert, Kris, De Jaeger, Geert, Vandepoele, Klaas, Pauwels, Laurens, and Goossens, Alain

Published
2018
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17. A redundant transcription factor network steers spatiotemporal Arabidopsistriterpene synthesis

Author

Nguyen, Trang Hieu, Thiers, Louis, Van Moerkercke, Alex, Bai, Yuechen, Fernández-Calvo, Patricia, Minne, Max, Depuydt, Thomas, Colinas, Maite, Verstaen, Kevin, Van Isterdael, Gert, Nützmann, Hans-Wilhelm, Osbourn, Anne, Saeys, Yvan, De Rybel, Bert, Vandepoele, Klaas, Ritter, Andrés, and Goossens, Alain

Abstract

Plant specialized metabolites modulate developmental and ecological functions and comprise many therapeutic and other high-value compounds. However, the mechanisms determining their cell-specific expression remain unknown. Here we describe the transcriptional regulatory network that underlies cell-specific biosynthesis of triterpenes in Arabidopsis thalianaroot tips. Expression of thalianol and marneral biosynthesis pathway genes depends on the phytohormone jasmonate and is limited to outer tissues. We show that this is promoted by the activity of redundant bHLH-type transcription factors from two distinct clades and coactivated by homeodomain factors. Conversely, the DOF-type transcription factor DAG1 and other regulators prevent expression of the triterpene pathway genes in inner tissues. We thus show how precise expression of triterpene biosynthesis genes is determined by a robust network of transactivators, coactivators and counteracting repressors.

Published
2023
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18. FRS7 and FRS12 recruit NINJA to regulate expression of glucosinolate biosynthesis genes

Author

Fernández‐calvo, Patricia, Iñigo, Sabrina, Glauser, Gaétan, Vanden Bossche, Robin, Tang, Michelle, Li, Baohua, De Clercq, Rebecca, Nagels Durand, Astrid, Eeckhout, Dominique, Gevaert, Kris, De Jaeger, Geert, Brady, Siobhan M., Kliebenstein, Daniel J., Pauwels, Laurens, Goossens, Alain, Ritter, Andrés, Fernández‐calvo, Patricia, Iñigo, Sabrina, Glauser, Gaétan, Vanden Bossche, Robin, Tang, Michelle, Li, Baohua, De Clercq, Rebecca, Nagels Durand, Astrid, Eeckhout, Dominique, Gevaert, Kris, De Jaeger, Geert, Brady, Siobhan M., Kliebenstein, Daniel J., Pauwels, Laurens, Goossens, Alain, and Ritter, Andrés

Published
2020

19. Modulation of Arabidopsis root growth by specialized triterpenes

Author

Bai, Yuechen, primary, Fernández‐Calvo, Patricia, additional, Ritter, Andrés, additional, Huang, Ancheng C., additional, Morales‐Herrera, Stefania, additional, Bicalho, Keylla U., additional, Karady, Michal, additional, Pauwels, Laurens, additional, Buyst, Dieter, additional, Njo, Maria, additional, Ljung, Karen, additional, Martins, José C., additional, Vanneste, Steffen, additional, Beeckman, Tom, additional, Osbourn, Anne, additional, Goossens, Alain, additional, and Pollier, Jacob, additional

Published
2021
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21. The Ectocarpus Genome and Brown Algal Genomics

Author

Cock, J. Mark, primary, Sterck, Lieven, additional, Ahmed, Sophia, additional, Allen, Andrew E., additional, Amoutzias, Grigoris, additional, Anthouard, Veronique, additional, Artiguenave, François, additional, Arun, Alok, additional, Aury, Jean-Marc, additional, Badger, Jonathan H., additional, Beszteri, Bank, additional, Billiau, Kenny, additional, Bonnet, Eric, additional, Bothwell, John H., additional, Bowler, Chris, additional, Boyen, Catherine, additional, Brownlee, Colin, additional, Carrano, Carl J., additional, Charrier, Bénédicte, additional, Cho, Ga Youn, additional, Coelho, Susana M., additional, Collén, Jonas, additional, Le Corguillé, Gildas, additional, Corre, Erwan, additional, Dartevelle, Laurence, additional, Da Silva, Corinne, additional, Delage, Ludovic, additional, Delaroque, Nicolas, additional, Dittami, Simon M., additional, Doulbeau, Sylvie, additional, Elias, Marek, additional, Farnham, Garry, additional, Gachon, Claire M.M., additional, Godfroy, Olivier, additional, Gschloessl, Bernhard, additional, Heesch, Svenja, additional, Jabbari, Kamel, additional, Jubin, Claire, additional, Kawai, Hiroshi, additional, Kimura, Kei, additional, Kloareg, Bernard, additional, Küpper, Frithjof C., additional, Lang, Daniel, additional, Le Bail, Aude, additional, Luthringer, Rémy, additional, Leblanc, Catherine, additional, Lerouge, Patrice, additional, Lohr, Martin, additional, Lopez, Pascal J., additional, Macaisne, Nicolas, additional, Martens, Cindy, additional, Maumus, Florian, additional, Michel, Gurvan, additional, Miranda-Saavedra, Diego, additional, Morales, Julia, additional, Moreau, Hervé, additional, Motomura, Taizo, additional, Nagasato, Chikako, additional, Napoli, Carolyn A., additional, Nelson, David R., additional, Nyvall-Collén, Pi, additional, Peters, Akira F., additional, Pommier, Cyril, additional, Potin, Philippe, additional, Poulain, Julie, additional, Quesneville, Hadi, additional, Read, Betsy, additional, Rensing, Stefan A., additional, Ritter, Andrés, additional, Rousvoal, Sylvie, additional, Samanta, Manoj, additional, Samson, Gaelle, additional, Schroeder, Declan C., additional, Scornet, Delphine, additional, Ségurens, Béatrice, additional, Strittmatter, Martina, additional, Tonon, Thierry, additional, Tregear, James W., additional, Valentin, Klaus, additional, Von Dassow, Peter, additional, Yamagishi, Takahiro, additional, Rouzé, Pierre, additional, Van de Peer, Yves, additional, and Wincker, Patrick, additional

Published
2012
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22. The Ectocarpus genome and the independent evolution of multicellularity in brown algae

Author

Cock, Mark J., Sterck, Lieven, Rouzé, Pierre, Scornet, Delphine, Allen, Andrew E., Amoutzias, Grigoris, Anthouard, Veronique, Artiguenave, François, Aury, Jean-Marc, Badger, Jonathan H., Beszteri, Bank, Billiau, Kenny, Bonnet, Eric, Bothwell, John H., Bowler, Chris, Boyen, Catherine, Brownlee, Colin, Carrano, Carl J., Charrier, Bénédicte, Cho, Ga Youn, Coelho, Susana M., Collén, Jonas, Corre, Erwan, Da Silva, Corinne, Delage, Ludovic, Delaroque, Nicolas, Dittami, Simon M., Doulbeau, Sylvie, Elias, Marek, Farnham, Garry, Gachon, Claire M. M., Gschloessl, Bernhard, Heesch, Svenja, Jabbari, Kamel, Jubin, Claire, Kawai, Hiroshi, Kimura, Kei, Kloareg, Bernard, Küpper, Frithjof C., Lang, Daniel, Le Bail, Aude, Leblanc, Catherine, Lerouge, Patrice, Lohr, Martin, Lopez, Pascal J., Martens, Cindy, Maumus, Florian, Michel, Gurvan, Miranda-Saavedra, Diego, Morales, Julia, Moreau, Hervé, Motomura, Taizo, Nagasato, Chikako, Napoli, Carolyn A., Nelson, David R., Nyvall-Collén, Pi, Peters, Akira F., Pommier, Cyril, Potin, Philippe, Poulain, Julie, Quesneville, Hadi, Read, Betsy, Rensing, Stefan A., Ritter, Andrés, Rousvoal, Sylvie, Samanta, Manoj, Samson, Gaelle, Schroeder, Declan C., Ségurens, Béatrice, Strittmatter, Martina, Tonon, Thierry, Tregear, James W., Valentin, Klaus, von Dassow, Peter, Yamagishi, Takahiro, Van de Peer, Yves, and Wincker, Patrick

Published
2010
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23. Additional file 6: of Peptimapper: proteogenomics workflow for the expert annotation of eukaryotic genomes

Author

Guillot, Laetitia, Delage, Ludovic, Viari, Alain, Vandenbrouck, Yves, Com, Emmanuelle, Ritter, Andrés, Lavigne, Régis, Marie, Dominique, Peterlongo, Pierre, Potin, Philippe, and Pineau, Charles

Abstract

Study of additional clusters under investigation listed Table 3. RNA-sequencing and EST data have been incorporated in the browser. (PDF 2631 kb)

Published
2019
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24. Herbivore-induced chemical and molecular responses of the kelps Laminaria digitata and Lessonia spicata

Author

Ritter, Andrés, Cabioch, Léa, Brillet-Guéguen, Loraine, Corre, Erwan, Cosse, Audrey, Dartevelle, Laurence, Duruflé, Harold, Fasshauer, Carina, Goulitquer, Sophie, Thomas, François, Correa, Juan, Potin, Philippe, Faugeron, Sylvain, Leblanc, Catherine, Laboratoire de Biologie Intégrative des Modèles Marins (LBI2M), Station biologique de Roscoff [Roscoff] (SBR), Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), Pontificia Universidad Católica de Chile (UC), Diatom Genomics [LCQB] (LCQB-DG), Biologie Computationnelle et Quantitative = Laboratory of Computational and Quantitative Biology (LCQB), Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut de Biologie Paris Seine (IBPS), Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut de Biologie Paris Seine (IBPS), Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS), Laboratoire de Recherche en Sciences Végétales (LRSV), Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Université de Toulouse (UT)-Centre National de la Recherche Scientifique (CNRS), Evolutionary Biology and Ecology of Algae (EBEA), Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)-Pontificia Universidad Católica de Chile (UC)-Universidad Austral de Chile-Centre National de la Recherche Scientifique (CNRS), Centre National de la Recherche Scientifique (CNRS)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Station biologique de Roscoff [Roscoff] (SBR), Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), Institut de Biologie Paris Seine (IBPS), Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Institut de Biologie Paris Seine (IBPS), Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)-Universidad Austral de Chile-Centre National de la Recherche Scientifique (CNRS)-Pontificia Universidad Católica de Chile (UC), Institut National de la Santé et de la Recherche Médicale (INSERM)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut de Biologie Paris Seine (IBPS), and Institut National de la Santé et de la Recherche Médicale (INSERM)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)

Subjects
cDNA libraries, Algae, Forms of DNA, lcsh:Medicine, Plant Science, Fatty Acids, Nonesterified, Phaeophyta, Real-Time Polymerase Chain Reaction, Biochemistry, Extraction techniques, Plant-Animal Interactions, [SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Genomics [q-bio.GN], Genetics, Metabolomics, Herbivory, DNA libraries, Amino Acids, Molecular Biology Techniques, lcsh:Science, Molecular Biology, Expressed Sequence Tags, Behavior, Molecular Biology Assays and Analysis Techniques, Animal Behavior, Ecology, Plant Ecology, Ecology and Environmental Sciences, lcsh:R, Organisms, Biology and Life Sciences, DNA, Plants, Seaweed, Complementary DNA, RNA extraction, Trophic Interactions, Nucleic acids, Research and analysis methods, Grazing, Community Ecology, Amino Acid Analysis, lcsh:Q, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, Transcriptome, Zoology, Research Article
Abstract

International audience; Kelps are founding species of temperate marine ecosystems, living in intertidal coastal areas where they are often challenged by generalist and specialist herbivores. As most sessile organisms, kelps develop defensive strategies to restrain grazing damage and preserve their own fitness during interactions with herbivores. To decipher some inducible defense and signaling mechanisms, we carried out metabolome and transcriptome analyses in two emblematic kelp species, Lessonia spicata from South Pacific coasts and Laminaria digitata from North Atlantic, when challenged with their main specialist herbivores. Mass spectrometry based metabolomics revealed large metabolic changes induced in these two brown algae following challenges with their own specialist herbivores. Targeted metabolic profiling of L. spicata further showed that free fatty acid (FFA) and amino acid (AA) metabolisms were particularly regulated under grazing. An early stress response was illustrated by the accumulation of Sulphur containing amino acids in the first twelve hours of herbivory pressure. At latter time periods (after 24 hours), we observed FFA liberation and eicosanoid oxylipins synthesis likely representing metabolites related to stress. Global transcriptomic analysis identified sets of candidate genes specifically induced by grazing in both kelps. qPCR analysis of the top candidate genes during a 48-hours time course validated the results. Most of these genes were particularly activated by herbivore challenge after 24 hours, suggesting that transcriptional reprogramming could be operated at this time period. We demonstrated the potential utility of these genes as molecular markers for herbivory by measuring their inductions in grazed individuals of field harvested L. digitata and L. spicata. By unravelling the regulation of some metabolites and genes following grazing pressure in two kelps representative of the two hemispheres, this work contributes to provide a set of herbivore-induced chemical and molecular responses in kelp species, showing similar inducible responses upon specialist herbivores in their respective ecosystems.

Published
2017

25. A bHLH-PAS protein regulates light-dependent diurnal rhythmic processes in the marine diatomPhaeodactylum tricornutum

Author

Annunziata, Rossella, primary, Ritter, Andrés, additional, Fortunato, Antonio Emidio, additional, Cheminant-Navarro, Soizic, additional, Agier, Nicolas, additional, Huysman, Marie J. J., additional, Winge, Per, additional, Bones, Atle, additional, Bouget, François-Yves, additional, Lagomarsino, Marco Cosentino, additional, Bouly, Jean Pierre, additional, and Falciatore, Angela, additional

Published
2018
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26. The Arabidopsis Iron–Sulfur Protein GRXS17 is a Target of the Ubiquitin E3 Ligases RGLG3 and RGLG4

Author

Nagels Durand, Astrid, primary, Iñigo, Sabrina, additional, Ritter, Andrés, additional, Iniesto, Elisa, additional, De Clercq, Rebecca, additional, Staes, An, additional, Van Leene, Jelle, additional, Rubio, Vicente, additional, Gevaert, Kris, additional, De Jaeger, Geert, additional, Pauwels, Laurens, additional, and Goossens, Alain, additional

Published
2016
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27. Two-dimensional gel electrophoresis analysis of brown algal protein extracts

Author

Ritter, Andrés, Dennett, Geraldine, Boehmwald, Freddy, Guitton, Nathalie, Pineau, Charles, Moenne, Alejandra, Potin, Philippe, Correa, Juan A., Contreras, Loretto, Departamento de Ecología, Pontificia Universidad Católica de Chile (UC), Departamento de Biología, Plate-forme protéomique [Rennes], Plateforme Génomique Santé Biogenouest®, Groupe d'Etude de la Reproduction Chez l'Homme et les Mammiferes (GERHM), Institut National de la Santé et de la Recherche Médicale (INSERM)-Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES), Végétaux marins et biomolécules, Station biologique de Roscoff [Roscoff] (SBR), Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)-GOEMAR-Centre National de la Recherche Scientifique (CNRS), and Université de Rennes (UR)-Institut National de la Santé et de la Recherche Médicale (INSERM)

Subjects
algae, [SDV.EE]Life Sciences [q-bio]/Ecology, environment, proteomics, Phaeophyceae, protein extraction methods, 2-DE
Abstract

International audience; High-quality protein extracts are required for proteomic studies, a field that is poorly developed for marine macroalgae. A reliable phenol extraction protocol using Scytosiphon gracilis Kogame and Ectocarpus siliculosus (Dillwyn) Lyngb. (Phaeophyceae) as algal models resulted in high-quality protein extracts. The performance of the new protocol was tested against four methods available for vascular plants and a seaweed. The protocol, which includes an initial step to remove salts from the algal tissues, allowed the use of highly resolving two-dimensional gel electrophoresis (2-DE) protein analyses, providing the opportunity to unravel potentially novel physiological processes unique to this group of marine organisms.

Published
2008

29. The Arabidopsis Iron-Sulfur Protein GRXS17 is a Target of the Ubiquitin E3 Ligases RGLG3 and RGLG4.

Author

Durand, Astrid Nagels, Iñigo, Sabrina, Ritter, Andrés, Iniesto, Elisa, De Clercq, Rebecca, Staes, An, Van Leene, Jelle, Rubio, Vicente, Gevaert, Kris, De Jaeger, Geert, Pauwels, Laurens, and Goossens, Alain

Subjects
ARABIDOPSIS proteins, IRON-sulfur proteins, UBIQUITIN ligases, PROTEIN stability, CELLULAR signal transduction
Abstract

The stability of signaling proteins in eukaryotes is often controlled by post-translational modifiers. For polyubiquitination, specificity is assured by E3 ubiquitin ligases. Although plant genomes encode hundreds of E3 ligases, only few targets are known, even in the model Arabidopsis thaliana. Here, we identified the monothiol glutaredoxin GRXS17 as a substrate of the Arabidopsis E3 ubiquitin ligases RING DOMAIN LIGASE 3 (RGLG3) and RGLG4 using a substrate trapping approach involving tandem affinity purification of RING-dead versions. Simultaneously, we used a ubiquitinconjugating enzym (UBC) panel screen to pinpoint UBC30 as a cognate E2 UBC capable of interacting with RGLG3 and RGLG4 and mediating auto-ubiquitination of RGLG3 and ubiquitination of GRXS17 in vitro. Accordingly, GRXS17 is ubiquitinated and degraded in an RGLG3- and RGLG4-dependent manner in planta. The truncated hemoglobin GLB3 also interacted with RGLG3 and RGLG4 but appeared to obstruct RGLG3 ubiquitination activity rather than being its substrate. Our results suggest that the RGLG family is intimately linked to the essential element iron. [ABSTRACT FROM AUTHOR]

Published
2016
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35. The RING E3 Ligase KEEP ON GOINGModulates JASMONATE ZIM-DOMAIN12 Stability.

Author

Pauwels, Laurens, Ritter, Andrés, Goossens, Jonas, Durand, Astrid Nagels, Hongxia Liu, Yangnan Gu, Geerinck, Jan, Boter, Marta, Bossche, Robin Vanden, De Clercq, Rebecca, Van Leene, Jelle, Gevaert, Kris, De Jaeger, Geert, Solano, Roberto, Stone, Sophia, Innes, Roger W., Callis, Judy, and Goossens, Alain

Subjects
*JASMONATE, *TRANSCRIPTION factors, *GENE expression in plants, *GENETIC repressors, *LIGASES
Abstract

Jasmonate (JA) signaling in plants is mediated by the JASMONATE ZIM-DOMAIN (JAZ) proteins that repress the activity of several transcription factors regulating JA-inducible gene expression. The hormone JA-isoleucine triggers the interaction of JAZ repressor proteins with the F-box protein CORONATINE INSENSITIVE1 (COI1), part of an S-phase kinase-associated protein1/Cullin1/F-box protein COI1 (SCFCOI1) E3 ubiquitin ligase complex, and their degradation by the 26S proteasome. In Arabidopsis (Arabidopsis thaliana), the JAZ family consists of 13 members. The level of redundancy or specificity among these members is currently not well understood. Here, we characterized JAZ12, encoded by a highly expressed JAZ gene. JAZ12 interacted with the transcription factors MYC2, MYC3, and MYC4 in vivo and repressed MYC2 activity. Using tandem affinity purification, we found JAZ12 to interact with SCFCOI1 components, matching with observed in vivo ubiquitination and with rapid degradation after treatment with JA. In contrast to the other JAZ proteins, JAZ12 also interacted directly with the E3 RING ligase KEEP ON GOING (KEG), a known repressor of the ABSCISIC ACID INSENSITIVE5 transcription factor in abscisic acid signaling. To study the functional role of this interaction, we circumvented the lethality of keg loss-of-function mutants by silencing KEG using an artificial microRNA approach. Abscisic acid treatment promoted JAZ12 degradation, and KEG knockdown led to a decrease in JAZ12 protein levels. Correspondingly, KEG overexpression was capable of partially inhibiting COI1-mediated JAZ12 degradation. Our results provide additional evidence for KEG as an important factor in plant hormone signaling and a positive regulator of JAZ12 stability. [ABSTRACT FROM AUTHOR]

Published
2015
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37. A redundant transcription factor network steers spatiotemporal Arabidopsis triterpene synthesis

Author

Trang Hieu Nguyen, Louis Thiers, Alex Van Moerkercke, Yuechen Bai, Patricia Fernández-Calvo, Max Minne, Thomas Depuydt, Maite Colinas, Kevin Verstaen, Gert Van Isterdael, Hans-Wilhelm Nützmann, Anne Osbourn, Yvan Saeys, Bert De Rybel, Klaas Vandepoele, Andrés Ritter, Alain Goossens, European Commission, Ghent University, Flemish Government, Research Foundation Flanders, Swiss National Science Foundation, China Scholarship Council, John Innes Foundation, Nguyen, Trang Hieu, Thiers, Louis, Van Moerkercke, Alex, Bai, Yuechen, Fernández-Calvo, Patricia, Minne, Max, Depuydt, Thomas, Colinas, Maite, Verstaen, Kevin, Van Isterdael, Gert, Nützmann, Hans-Wilhelm, Osbourn, Anne, Saeys, Yvan, De Rybel, Bert, Vandepoele, Klaas, Ritter, Andrés, and Goossens, Alain

Subjects
Plant Science
Abstract

25 Pág., Plant specialized metabolites modulate developmental and ecological functions and comprise many therapeutic and other high-value compounds. However, the mechanisms determining their cell-specific expression remain unknown. Here we describe the transcriptional regulatory network that underlies cell-specific biosynthesis of triterpenes in Arabidopsis thaliana root tips. Expression of thalianol and marneral biosynthesis pathway genes depends on the phytohormone jasmonate and is limited to outer tissues. We show that this is promoted by the activity of redundant bHLH-type transcription factors from two distinct clades and coactivated by homeodomain factors. Conversely, the DOF-type transcription factor DAG1 and other regulators prevent expression of the triterpene pathway genes in inner tissues. We thus show how precise expression of triterpene biosynthesis genes is determined by a robust network of transactivators, coactivators and counteracting repressors., This Article was written in loving memory of A. Van Moerkercke (1979–2021). The authors thank A. Bleys for critically reading the manuscript; D. Gasperini for kindly sharing the ProMYCs:NLS-VENUS reporter lines, and P. Vittorioso for the dag1 mutant, ProDAG1:GUS and DAG1 over-expressing lines; J. R. Wendrich and T. Eekhout for assistance in the launching and analysis of the scRNAseq experiment; and S. Desmet and G. Goeminne from the VIB Metabolomics Core – Ghent for the thalianol profiling. This work was supported by the European Community’s Seventh Framework Program (FP7/2007–2013) under grant agreement 613692-TriForC and H2020 Program under grant agreement 760331-Newcotiana to A.G.; the Special Research Fund from Ghent University to A.G. and A.R. (project BOF18/GOA/013), and M.M. (project BOF20/GOA/012); the Flemish Government (AI Research program) to Y.S.; the Research Foundation Flanders with research project grants to A.G. (G004515N and G008417N) and a postdoctoral fellowship to P.F.-C.; a Swiss National Science Foundation postdoctoral fellowship (P300PA_177831) to M.C.; and a China Scholarship Council PhD scholarship to Y.B. A.O. acknowledges funding support from the John Innes Foundation and the BBSRC Institute Strategic Program Grant ‘Molecules from Nature – Products and Pathways’ (BBS/E/J/000PR9790).

Published
2023

38. Herbivore-induced chemical and molecular responses of the kelps Laminaria digitata and Lessonia spicata.

Author

Ritter A, Cabioch L, Brillet-Guéguen L, Corre E, Cosse A, Dartevelle L, Duruflé H, Fasshauer C, Goulitquer S, Thomas F, Correa JA, Potin P, Faugeron S, and Leblanc C

Subjects
Amino Acids metabolism, Expressed Sequence Tags, Fatty Acids, Nonesterified metabolism, Metabolomics, Phaeophyceae genetics, Phaeophyceae metabolism, Real-Time Polymerase Chain Reaction, Transcriptome, Herbivory, Phaeophyceae physiology
Abstract

Kelps are founding species of temperate marine ecosystems, living in intertidal coastal areas where they are often challenged by generalist and specialist herbivores. As most sessile organisms, kelps develop defensive strategies to restrain grazing damage and preserve their own fitness during interactions with herbivores. To decipher some inducible defense and signaling mechanisms, we carried out metabolome and transcriptome analyses in two emblematic kelp species, Lessonia spicata from South Pacific coasts and Laminaria digitata from North Atlantic, when challenged with their main specialist herbivores. Mass spectrometry based metabolomics revealed large metabolic changes induced in these two brown algae following challenges with their own specialist herbivores. Targeted metabolic profiling of L. spicata further showed that free fatty acid (FFA) and amino acid (AA) metabolisms were particularly regulated under grazing. An early stress response was illustrated by the accumulation of Sulphur containing amino acids in the first twelve hours of herbivory pressure. At latter time periods (after 24 hours), we observed FFA liberation and eicosanoid oxylipins synthesis likely representing metabolites related to stress. Global transcriptomic analysis identified sets of candidate genes specifically induced by grazing in both kelps. qPCR analysis of the top candidate genes during a 48-hours time course validated the results. Most of these genes were particularly activated by herbivore challenge after 24 hours, suggesting that transcriptional reprogramming could be operated at this time period. We demonstrated the potential utility of these genes as molecular markers for herbivory by measuring their inductions in grazed individuals of field harvested L. digitata and L. spicata. By unravelling the regulation of some metabolites and genes following grazing pressure in two kelps representative of the two hemispheres, this work contributes to provide a set of herbivore-induced chemical and molecular responses in kelp species, showing similar inducible responses upon specialist herbivores in their respective ecosystems.

Published
2017
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