Sophie Colombié

Documents

Publications

	Ecological and metabolic implications of the nurse effect of Maihueniopsis camachoi in the Atacama Desert Francisca Díaz , Thomas Dussarrat , Gabriela Carrasco-Puga , Sophie Colombie , Sylvain Prigent New Phytologist, 2024, 241 (3), pp.1074-1087. ⟨10.1111/nph.19415⟩ Article dans une revue hal-04514679v1
	Modelling metabolic fluxes of tomato stems reveals that nitrogen shapes central metabolism for defence against Botrytis cinerea Nathalie Lacrampe , Raphaël Lugan , Doriane Dumont , Philippe C. Nicot , François Lecompte Journal of Experimental Botany, 2024, pp.erae140. ⟨10.1093/jxb/erae140⟩ Article dans une revue hal-04554488v1
	Multi-regulated GDP-l-galactose phosphorylase calls the tune in ascorbate biosynthesis Pierre Baldet , Kentaro Mori , Sylvain Prigent , Guillaume Decros , Bertrand Beauvoit Journal of Experimental Botany, 2024, Early view, ⟨10.1093/jxb/erae032/7607105⟩ Article dans une revue hal-04530669v1
	Comparative constraint‐based modelling of fruit development across species highlights nitrogen metabolism in the growth‐defence trade‐off Sophie Colombie , Sylvain Prigent , Cédric Cassan , Ghislaine Hilbert‐masson , Christel Renaud Plant Journal, 2023, ⟨10.1111/tpj.16409⟩ Article dans une revue hal-04185814v1
	Enzyme‐based kinetic modelling of ASC–GSH cycle during tomato fruit development reveals the importance of reducing power and ROS availability Guillaume Decros , Thomas Dussarrat , Pierre Baldet , Cédric Cassan , Cécile Cabasson New Phytologist, 2023, ⟨10.1111/nph.19160⟩ Article dans une revue hal-04178513v1
	Nitrogen-mediated metabolic patterns of susceptibility to Botrytis cinerea infection in tomato (Solanum lycopersicum) stems Nathalie Lacrampe , Sophie Colombie , Doriane Dumont , Philippe C. Nicot , François Lecompte Planta, 2023, 257 (2), pp.41. ⟨10.1007/s00425-022-04065-0⟩ Article dans une revue hal-03951301v1
	From fruit growth to ripening in plantain: a careful balance between carbohydrate synthesis and breakdown Nadia Campos , Sophie Colombie , Annick Moing , Cedric Cassan , Delphine Amah Journal of Experimental Botany, 2022, 73 (14), pp.4832-4849. ⟨10.1093/jxb/erac187⟩ Article dans une revue hal-03675840v1
	Protocole de marquage à l’azote 15N de fruits de tomate issus de plantes cultivées en condition standard Marie-Hélène Andrieu , Isabelle Atienza , Cédric Cassan , Anne Marmagne , Daniel Just NOV'AE, 2022, Numéro Régulier juin 2022 (05), ⟨10.17180/novae-2022-NO-art05⟩ Article dans une revue hal-03766575v1
	Regulation of sugar metabolism genes in the N-dependent susceptibility of tomato stems to Botrytis cinerea Nathalie Lacrampe , Félicie Lopez-Lauri , Raphaël Lugan , Sophie Colombié , Jérôme Olivares Annals of Botany, 2021, 127, pp.143-154. ⟨10.1093/aob/mcaa155⟩ Article dans une revue hal-02954833v2
	Modelling predicts tomatoes can be bigger and sweeter if biophysical factors and transmembrane transports are fine‐tuned during fruit development Jinliang Chen , Bertrand Beauvoit , Michel Génard , Sophie Colombie , Annick Moing New Phytologist, 2021, 230, pp.1489-1502. ⟨10.1111/nph.17260⟩ Article dans une revue hal-03152042v1
	The Evolution of Leaf Function during Development Is Reflected in Profound Changes in the Metabolic Composition of the Vacuole Alice Destailleur , Théo Poucet , Cecile Cabasson , Ana Paula Alonso , Jean-Christophe Cocuron Metabolites, 2021, 11 (12), pp.848. ⟨10.3390/metabo11120848⟩ Article dans une revue hal-03505133v1
	Biomass composition explains fruit relative growth rate and discriminates climacteric from non-climacteric species Léa Roch , Sylvain Prigent , Holger Klose , Coffi-Belmys Cakpo , Bertrand Beauvoit Journal of Experimental Botany, 2020, 71 (19), pp.5823-5836. ⟨10.1093/jxb/eraa302⟩ Article dans une revue hal-02904041v1
	Model-assisted comparison of sugar accumulation patterns in ten fleshy fruits highlights differences between herbaceous and woody species Coffi Belmys Cakpo , Gilles Vercambre , Valentina Baldazzi , Léa Roch , Zhanwu Dai Annals of Botany, 2020, 126 (3), pp.455-470. ⟨10.1093/aob/mcaa082⟩ Article dans une revue hal-02749663v1
	Transcriptomic and proteomic data in developing tomato fruit Isma Belouah , Camille Bénard , Alisandra Denton , Melisande Blein-Nicolas , Thierry Balliau Data in Brief, 2020, 28, pp.1-8. ⟨10.1016/j.dib.2019.105015⟩ Article dans une revue hal-02539392v1
	Modeling Protein Destiny in Developing Fruit Isma Belouah , Christine Nazaret , Pierre Pétriacq , Sylvain Prigent , Camille Bénard Plant Physiology, 2019, 180 (3), pp.1709-1724. ⟨10.1104/pp.19.00086⟩ Article dans une revue hal-02327302v1
	Get the Balance Right: ROS Homeostasis and Redox Signalling in Fruit Guillaume Decros , Pierre Baldet , Bertrand Beauvoit , Rebecca Stevens , Amélie Flandin Frontiers in Plant Science, 2019, 10, pp.1-16. ⟨10.3389/fpls.2019.01091⟩ Article dans une revue hal-02619141v1
	Peptide filtering differently affects the performances of XIC-based quantification methods Isma Belouah , Melisande Blein-Nicolas , Thierry Balliau , Yves Gibon , Michel Zivy Journal of Proteomics, 2019, 193, pp.131-141. ⟨10.1016/j.jprot.2018.10.003⟩ Article dans une revue hal-02327322v1
	Regulation of Pyridine Nucleotide Metabolism During Tomato Fruit Development Through Transcript and Protein Profiling. Guillaume Decros , Bertrand Beauvoit , Sophie Colombie , Cecile Cabasson , Stéphane Bernillon Frontiers in Plant Science, 2019, 10, pp.1201. ⟨10.3389/fpls.2019.01201⟩ Article dans une revue hal-02620533v1
	Putting primary metabolism into perspective to obtain better fruits Bertrand Beauvoit , Isma Belouah , Nadia Bertin , Coffi Belmys Cakpo , Sophie Colombie Annals of Botany, inPress, 122 (1), pp.1-21. ⟨10.1093/aob/mcy057⟩ Article dans une revue hal-02539159v1
	Constraint-based modeling highlights cell energy, redox status and α-ketoglutarate availability as metabolic drivers for anthocyanin accumulation in grape cells under nitrogen limitation Eric Soubeyrand , Sophie Colombié , Bertrand Beauvoit , Zhanwu Dai , Stéphanie Cluzet Frontiers in Plant Science, 2018, 9, pp.1-14. ⟨10.3389/fpls.2018.00421⟩ Article dans une revue hal-02533089v1
	Fluxomics links cellular functional analyses to whole-plant phenotyping. Christophe Salon , Jean-Christophe Avice , Sophie Colombie , Martine Dieuaide Noubhani , Karine Gallardo-Guerrero Journal of Experimental Botany, 2017, 68 (9), pp.2083-2098. ⟨10.1093/jxb/erx126⟩ Article dans une revue hal-01605024v1
	Respiration climacteric in tomato fruits elucidated by constraint-based modelling. Sophie Colombié , Bertrand Beauvoit , Christine Nazaret , Camille Bénard , Gilles Vercambre New Phytologist, 2016, 213 (4), pp.1726-1739. ⟨10.1111/nph.14301⟩ Article dans une revue hal-01445653v1
	Modelling central metabolic fluxes by constraint-based optimization reveals metabolic reprogramming of developing Solanum lycopersicum (tomato) fruit. Sophie Colombié , Christine Nazaret , Camille Bénard , Benoît Biais , Virginie Mengin Plant Journal, 2015, 81 (1), pp.24-39. ⟨10.1111/tpj.12685⟩ Article dans une revue hal-01445680v1
	Metabolomic profiling in tomato reveals diel compositional changes in fruit affected by source-sink relationships. Camille Bénard , Stéphane Bernillon , Benoit Biais , Sonia Osorio , Mickael M. Maucourt Journal of Experimental Botany, 2015, 66 (11), pp.3391-404. ⟨10.1093/jxb/erv151⟩ Article dans une revue hal-02641303v1
	Remarkable reproducibility of enzyme activity profiles in tomato fruits grown under contrasting environments provides a roadmap for studies of fruit metabolism. Benoit Biais , Camille Bénard , Bertrand Beauvoit , Sophie S. Colombie , Duyên D. Prodhomme Plant Physiology, 2014, 164, pp.1204-1221. ⟨10.1104/pp.113.231241⟩ Article dans une revue hal-02639362v1
	Model-Assisted Analysis of Sugar Metabolism throughout Tomato Fruit Development Reveals Enzyme and Carrier Properties in Relation to Vacuole Expansion. Bertrand Beauvoit , Sophie Colombié , Antoine Monier , Marie-Hélène Andrieu , Benoit Biais The Plant cell, 2014, 26 (8), pp.3224-3242. ⟨10.1105/tpc.114.127761⟩ Article dans une revue hal-01058814v1
	Comparison between elementary flux modes analysis and 13C-metabolic fluxes measured in bacterial and plant cells Marie M. Beurton-Aimar , Bertrand Beauvoit , Antoine Monier , Francois Vallee , Martine Dieuaide-Noubhani BMC Systems Biology, 2011, 5, pp.95. ⟨10.1186/1752-0509-5-95⟩ Article dans une revue hal-00629222v1
	Interest of on-line monitoring electrical conductivity during wine fermentation Sophie S. Colombie , Eric Latrille , Jean-Marie J.-M. Sablayrolles European Food Research and Technology, 2008, 226 (6), pp.1553-1557. ⟨10.1007/s00217-007-0649-1⟩ Article dans une revue hal-02657621v1
	Online estimation of assimilable nitrogen by electrical conductivity measurement during alcoholic fermentation in enological conditions Sophie S. Colombie , Eric Latrille , Jean-Marie J.-M. Sablayrolles Journal of Bioscience and Bioengineering, 2007, 103 (3), pp.229-235. ⟨10.1263/jbb.103.229⟩ Article dans une revue hal-02662582v1
	Modeling of heat transfer in tanks during wine-making fermentation Sophie S. Colombie , Sophie Malherbe , Jean-Marie J.-M. Sablayrolles Food Control, 2007, 18 (8), pp.953-960. ⟨10.1016/j.foodcont.2006.05.016⟩ Article dans une revue hal-02666308v1
	Modeling alcoholic fermentation in enological conditions: Feasibility and interest Sophie S. Colombie , Sophie Malherbe , Jean-Marie J.-M. Sablayrolles American Journal of Enology and Viticulture, 2005, 56 (3), pp.238-245 Article dans une revue hal-02681151v1
	Nicotinic acid controls lactate production by K1-LDH: a Saccharomyces cerevisiae strain expressing a bacterial LDH gene Sophie S. Colombie , Jean-Marie J.-M. Sablayrolles Journal of Industrial Microbiology and Biotechnology, 2004, 31 (5), pp.209-215. ⟨10.1007/s10295-004-0138-5⟩ Article dans une revue hal-02678767v1
	Control of lactate production by Saccharomyces cerevisiae expressing a bacterial LDH gene Sophie S. Colombie , Sylvie S. Dequin , Jean-Marie Sablayrolles Enzyme and Microbial Technology, 2003, 33 (1), pp.38-46. ⟨10.1016/S0141-0229(03)00082-6⟩ Article dans une revue hal-02673211v1
	Water activity control: A way to improve the efficiency of continuous lipase esterification Sophie S. Colombie , R.J. Tweddell , J.S. Condoret , A. Marty Biotechnology and Bioengineering, 1998, 60 (3), pp.362-367 Article dans une revue hal-02690200v1

	Metabolic fluxes estimated by constraint-based modelling highlight specific response of susceptible tomato (Solanum lycopersicum) stems infected by Botrytis cinerea under gradual nitrogen nutrition Nathalie Lacrampe , Raphaël Lugan , Doriane Dumont , Philippe C. Nicot , François Lecompte 15. Journées scientifiques du réseau francophone de métabolomique et fluxomique (RFMF), Réseau francophone de métabolomique et fluxomique, May 2023, Perpignan, France Communication dans un congrès hal-04185066v1
	Increased metabolic fluxes in tomato stems infected by Botrytis cinerea Nathalie Lacrampe , Raphaël Lugan , Philippe C. Nicot , François Lecompte , Sophie S. Colombie 18. International Botrytis Symposium & 17. International Sclerotinia Workshop, Unité de pathologie végétale, Avignon, INRAE; Unité de recherche Plantes et systèmes de culture horticoles, INRAE; Unité Biologie gestion des risques en agriculture, INRAE; Avignon université, Jun 2022, Avignon, France Communication dans un congrès hal-03695796v1
	High expression of sucrose synthase and fructokinase genes accompanies the nitrogen-dependent resistance of tomato stems to Botrytis cinerea Nathalie Lacrampe , Raphaël Lugan , Sophie Colombie , Jérôme Olivares , Philippe C. Nicot Workshop on sugar allocation in plants, IJPB (Institut Jean Pierre Bourgin) - INRAE Versailles; EBI (Ecologie et Biologie des Interactions, CNRS/Université de Poitiers); Team SEVE (Laboratory CNRS-University, Transport de sucres et réponses des plantes aux contraintes abiotiques) - University of Poitiers., Oct 2021, Versailles, France Communication dans un congrès hal-03681107v1
	An integrated fruit model toolkit: combining fruit biophysical processes with central carbon metabolism J.L. Chen , Bertrand Beauvoit , Sophie Colombie , Léa Roch , Coffi Belmys Cakpo Symposium on Advanced Technologies and Management for Innovative Greenhouses: GreenSys2019, Jun 2019, Angers, France. pp.401-410, ⟨10.17660/ActaHortic.2020.1296.52⟩ Communication dans un congrès hal-03125090v1
	Peptide filtering differently affects the performances of XIC-based quantifcation methods Melisande Blein-Nicolas , Isma Belouah , Thierry Balliau , Yves Gibon , Michel Zivy Journées Protéome Vert, Apr 2018, Paris, France Communication dans un congrès hal-03879922v1
	HSM a reduced model of Central Carbon Metabolism: a dynamical approach Bertrand Beauvoit , Sophie Colombie , Razanne Issa , Jean-Pierre Mazat , Christine Nazaret advances in Systems and Synthetic Biology, Mar 2017, Lyon, France Communication dans un congrès hal-01709748v1
	Human-Scale Metabolic Network of Central Carbon Metabolism: application to serine metabolism from glutamine in Cancer Cells Bertrand Beauvoit , Sophie Colombie , Razanne Issa , Jean-Pierre Mazat , Christine Nazaret advances in Systems and Synthetic Biology, Mar 2016, Evry, France Communication dans un congrès hal-01709760v1
	Integrative and predictive biology outside the plant: linking computational tools to fleshy fruit systems Cecile Cabasson , Sophie Colombie , Bertrand Beauvoit , Christine Nazaret , Camille Benard Colloque Biologie synthétique et systémique, BioSynSys, Jun 2016, Bordeaux, France Communication dans un congrès hal-02739719v1
	Flux balance modelling in developing tomato fruit: the respiration climacteric as an emergent property Sophie S. Colombie , Bertrand Beauvoit , Christine Nazaret , Camille Bénard , Cécile Cabasson 10. journées scientifiques du Réseau Francophone de Métabolomique et Fluxomique RFMF 2016, Réseau Francophone de Métabolomique et Fluxomique (RFMF). FRA., May 2016, Montpellier, France Communication dans un congrès hal-02740471v1
	Using metabolomic approaches and modelling of central metabolic to study fleshy fruit quality Sophie S. Colombie , Bertrand Beauvoit , Dominique D. Rolin , Stéphane Bernillon , Camille Bénard 1. International Symposium on Metabolomics in Mexico, Jun 2015, Guadalajara, Mexico. 2 p Communication dans un congrès hal-02800371v1
	Reconstruction du réseau métabolique de la tomate Florence Maurier , Clément Frainay , Fabien Jourdan , Sophie S. Colombie 9. Journées scientifiques du RFMF, Réseau Francophone de Métabolomique et Fluxomique (RFMF). FRA., Jun 2015, Lille, France Communication dans un congrès hal-02742882v1
	Cellular and subcellular metabolomics reveal changes during tomato leaf development Clémence de Jaham , Benjamin Thiombiano , Camille Bénard , A.P. Alonso , J.C. Cocuron 9. Journées scientifiques du RFMF, Réseau Francophone de Métabolomique et Fluxomique (RFMF). FRA., Jun 2015, Lille, France Communication dans un congrès hal-02740382v1
	La métabolomique : un outil de la génomique fonctionnelle au service de la biologie des systèmes Dominique D. Rolin , Bertrand Beauvoit , Stéphane Bernillon , Camille Bénard , Patricia Ballias 8e Congrès Jeunes Chercheurs de la SFBV, Société Française de Biologie Végétale (SFBV). FRA., Jun 2014, Tours, France. 1 p Communication dans un congrès hal-02801036v1
	Modelling fluxes and metabolic network analysis of developing tomato fruits Sophie S. Colombie , Bertrand Beauvoit , Christine Nazaret , Martine Dieuaide Noubhani , Jean-Pierre Mazat Bordeaux Computational Biology and Bioinformatics, Nov 2014, Bordeaux, France Communication dans un congrès hal-02796388v1
	Systematic study of a metabolic network Bertrand P Beauvoit , Sophie Colombié , Jean-Pierre Mazat , Christine Nazaret , Sabine Pérès advances in Systems and Synthetic Biology, Mar 2014, Evry, France. 173 p Communication dans un congrès hal-01108859v1
	Using Topological Analysis to Study Metabolism of Heterotrophic Plant Cell Network Marie Beurton-Aimar , Vu Ngoc Tung Nguyen , Sophie S. Colombie BioNetVisA workshop (join with ECCB conference,, Oct 2014, Strasbourg, France Communication dans un congrès hal-02000486v1
	MetaboHUB and RFMF : two tools at the service of metabolomics and fluxomics in France Dominique Rolin , Floriant Bellvert , Justine Bertrand-Michel , Cécile Canlet , Richard Cole MERLION Metabolomics Workshop Singapore 2014, Nov 2014, Singapour, Singapore Communication dans un congrès hal-02798242v1
	Using developmental and diurnal compositional changes of tomato to study metabolism Camille Bénard , Stéphane Bernillon , Benoit Biais , Sonia Osorio-Algar , Mickael M. Maucourt 8. Journées Scientifiques du Réseau Français de Métabolomique et Fluxomique RFMF, May 2014, Lyon, France. 1 p Communication dans un congrès hal-02793195v1
	The tomato fruit development with a constraint-based model Sophie S. Colombie , Christine Nazaret , Bertrand Beauvoit , Marion Solé , Martine Dieuaide Noubhani Metabolic Pathway Analysis 2013, Sep 2013, Oxford, United Kingdom Communication dans un congrès hal-02804536v1
	MetaboHUB: a national infrastructure dedicated to metabolomics and fluxomics Dominique D. Rolin , Alice A. Agasse , Justine Bertrand-Michel , R. R. Cole , B. B. Colsch 7. Journées scientifiques du Réseau Français de Métabolomique et de Fluxomique (RFMF), Jun 2013, Amiens, France Communication dans un congrès hal-01002241v1
	MetaboHUB: a french infrastructure dedicated to metabolomics and fluxomics Dominique D. Rolin , Alice A. Agasse , Justine Bertrand-Michel , R. R. Cole , Sophie S. Colombie Metabolomics 2013 - 9. Annual conference of the Metabolomics Society, Jul 2013, Glasgow, United Kingdom Communication dans un congrès hal-01002247v1
	MetaboHUB: une infrastructure nationale au service de la métabolomique Dominique D. Rolin , Alice A. Agasse , Justine Bertrand-Michel , R. R. Cole , B. B. Colsch Séance thématique "La métabolomique : son application en recherche pharmaceutique et diagnostique", Académie Nationale de Pharmacie. FRA., Feb 2013, Paris, France Communication dans un congrès hal-01002248v1
	Implication of the vacuolar AtPAP26 in the sugars metabolism in Arabidopsis thaliana roots Antoine Monier , Sarah Monllor , Marie-Hélène Andrieu , Sophie S. Colombie , Frédéric Delmas 5. Journées scientifiques du Réseau Français de Métabolomique et Fluxomique, Labo/service de l'auteur, Ville service., May 2011, Paris, France Communication dans un congrès hal-02749345v1
	Elementary mode analysis of the central metabolism of plant cells Sophie S. Colombie , Bertrand Beauvoit , Nicolas Parisey , Katia Pianelli , François Vallée 4. Journées scientifiques du Réseau Français de Métabolomique et Fluxomique, May 2010, Marseille, France Communication dans un congrès hal-02752805v1
	Identification of functional hubs through metabolic networks M. Beurton-Aimar , N. Parisey , Francois F. Vallée , Sophie S. Colombie 12. International conference on the synthesis and simulation of lifing systems, Aug 2010, Odense, Denmark Communication dans un congrès hal-02754488v1
	Elementary flux mode analysis of the central metabolism of plant cells François Vallée , Sophie S. Colombie , Bertrand Beauvoit , Nicolas Parisey , Katia Pianelli 7. International workshop on Computational Systems Biology, Jun 2010, Luxembourg, Luxembourg Communication dans un congrès hal-02752087v1
	TIM/WIM: A Set of Tools to Interface Modelling in Biology. Francois Vallee , M. Beurton-Aimar , N. Parisey , Florent Collot , Sophie Colombié European Conference on Object-Oriented Programming, Jul 2009, Genova, Italy Communication dans un congrès hal-00629019v1
	Mise en place d'une approche de fluxomique dans le fruit de tomate Raphael Henri , Katia Pianelli , Marie-Hélène Andrieu , Bertrand Beauvoit , Sophie S. Colombie 3. Journées, Feb 2008, Bordeaux, France Communication dans un congrès hal-02757883v1
	TIM, une interface de saisie pour les données du métabolisme Nicolas Parisey , Florent Collot , Raphael Henri , Bertrand Beauvoit , Martine Dieuaide Noubhani 3. Journées scientifiques RFMF, Feb 2008, Bordeaux, France Communication dans un congrès hal-02752505v1
	Quantification de flux métaboliques dans le fruit de tomate Raphael Henri , Marie-Hélène Andrieu , Sophie S. Colombie , Philippe Raymond , Dominique D. Rolin 2. Journées, Dec 2006, Saint Sauves d'Auvergne, France Communication dans un congrès hal-02757225v1

	Nitrogen-mediated metabolic patterns of susceptibility to Botrytis cinerea infection in tomato (Solanum lycopersicum) stems Nathalie Lacrampe , Sophie Colombie , Doriane Dumont , Philippe C. Nicot , François Lecompte 15. Journées scientifiques du réseau francophone de métabolomique et fluxomique (RFMF), May 2023, Perpignan, France Poster de conférence hal-04185467v1
	Primary metabolism investigation of fleshy fruit species using 1H-NMR profiling Léa Roch , Coffi Belmys Cakpo , Catherine Deborde , Mickael Maucourt , Thierry Berton EUROMAR - European Magnetic Resonance Meeting, Jul 2018, Nantes, France. 2018 Poster de conférence hal-02737961v1
	Multiscale Fruit Modeling: integrating biophysical fruit growth with biochemical metabolisms in 10 fruits Zhanwu Dai , Bertrand Beauvoit , Sophie Colombie , Michel Génard , Gilles Vercambre 2. Annual Crops in silico Symposium and Workshop, Jun 2017, Oxford, United Kingdom. 2017 Poster de conférence hal-02735987v1
	How to optimize metabolites concentrations and fluxes in a metabolic pathway? Backgrounds and Basics Christine Nazaret , Sophie Colombié , Bertrand Beauvoit , Martine Dieuaide-Noubhani , Jean-Pierre Mazat International Study Group for Systems Biology meeting (ISGSB 2016) , Oct 2016, Jena, Germany. Poster de conférence hal-01445608v1
	Characterization of a plant cell suspension culture of Vitis vinifera: biomass composition assessment before C13-metabolic flux analysis Angela Machado Vieira , Stéphanie Cluzet , Catherine C. Deborde , Ghislaine Hilbert , Annick Moing 10. journées scientifiques du Réseau Francophone de Métabolomique et Fluxomique RFMF 2016, May 2016, Montpellier, France. 2016 Poster de conférence hal-02741756v1
	The timing of shifts in the transcriptome and proteome in relation to metabolic state during tomato fruit development Isma Belouah , Thierry Balliau , Camille Benard , Bertrand Beauvoit , Sophie Colombie Metabolomics 2016. 12. Annual Conference of the Metabolomics Society, Jun 2016, Dublin, Ireland. , 2016 Poster de conférence hal-01603579v1
	Assessment of metabolome compartmentation changes during tomato leaf development using nonaqueous fractionation Clémence de Jaham , Benjamin Thiombiano , Camille Benard , A. P. Alonso , J. C. Cocuron 12. Solanaceae Conference SOL 2015, Oct 2015, Bordeaux, France. 2015, SOL 2015 - Book of abstracts Poster de conférence hal-01603745v1
	Combining MS and proton NMR metabolomic profiling during tomato fruit development to study environment effect on metabolism Léa Roch , Stéphane Bernillon , Mickael Maucourt , Catherine Deborde , Camille Benard 12. Solanaceae Conference SOL 2015, Oct 2015, Bordeaux, France. 2015, SOL 2015 - Book of abstracts Poster de conférence hal-01606414v1
	Hub Reactions in Storage of Selected Compounds in Heterotrophic Plant Cell Network Vu Ngoctung Nguyen , Sophie S. Colombie , Marie Beurton-Aimar Metabolic Pathway Analysis 2015, Jun 2015, Braga, Portugal. , 1 p., 2015 Poster de conférence hal-02793442v1
	Primary metabolism intermediates of two tomato leaf tissues in contrasted light intensity conditions Stéphane Bernillon , Stéphanie Arrivault , Manuela Guenther , Regina Feil , Patricia Ballias 9. Journées scientifiques du RFMF, Jun 2015, Lille, France. 2015 Poster de conférence hal-02740588v1
	Modelling metabolic fluxes during tomato fruit development Sophie Colombie , Bertrand Beauvoit , Christine Nazaret , Camille Benard , Martine Dieuaide Noubhani 12. Solanaceae Conference SOL 2015, Oct 2015, Bordeaux, France. 2015, SOL 2015 Poster de conférence hal-01601445v1
	Reconstruction du réseau métabolique de la tomate Florence Maurier , Clément Frainay , Fabien Jourdan , Sophie S. Colombie 9. Journées scientifiques du RFMF, Jun 2015, Lille, France. 2015 Poster de conférence hal-02742705v1
	Combining MS and NMR metabolomic profiling during tomato fruit development to study environment effect on metabolism Léa Roch , Stéphane Bernillon , Mickael M. Maucourt , Catherine C. Deborde , Camille Bénard 9. Journées scientifiques du RFMF, Jun 2015, Lille, France. 2015 Poster de conférence hal-02739251v1
	Combining metabolite and enzymatic profiling during tomato fruit development Mickael M. Maucourt , Camille Bénard , Benoit Biais , Patricia Ballias , Catherine C. Deborde 8. Journées Scientifiques du Réseau Français de Métabolomique et Fluxomique RFMF, May 2014, Lyon, France. 1 p., 2014 Poster de conférence hal-02793996v1
	Flux balance analysis highlights cell energy and redox status as metabolic drivers for anthocyanin accumulation in grapevine GT3 cells under nitrogen starvation Eric Soubeyrand , Sophie Colombie , Zhanwu Dai , Stéphanie Cluzet , Ghislaine Hilbert Macrowine 2014, Sep 2014, Stellenbosch, South Africa. 2014 Poster de conférence hal-02739299v1
	Reconstruction du réseau métabolique de la tomate Florence Maurier , Fabien Jourdan , Sophie S. Colombie 8. Journées Scientifiques du Réseau Français de Métabolomique et Fluxomique RFMF, May 2014, Lyon, France. 1 p., 2014 Poster de conférence hal-02799581v1
	Flux Balance Analysis metabolic modelling highlights cell energy and redox status as a metabolic driver for anthocyanin accumulation in grapevine GT3 cells under nitrogen starvation E. Soubeyrand , Sophie S. Colombie , Zhanwu Z. Dai , S. Cluzet , Ghislaine Hilbert ICP 2014 - XXVIIth International Conference on Polyphenols, Sep 2014, Nagoya, Japan. 2014 Poster de conférence hal-02792547v1
	Heterotrophic plant cell network analysis: comparison between EFMs and MCSs V.N.T. Nguyen , Marie Beurton-Aymar , Sophie S. Colombie Metabolic Pathway Analysis 2013, Sep 2013, Oxford, United Kingdom. , 2013 Poster de conférence hal-02804631v1
	Minimal cut sets and its application to study metabolic pathway structures N.T.V. Nguyen , Marie Beurton-Aymar , Sophie S. Colombie Thematic Research School on the Advances in Systems and Synthetic Biology - Modelling Complex Biological Systems in the Context of Genomics, Mar 2013, La Colle-sur-Loup, France. 2013 Poster de conférence hal-02805827v1
	Towards a system biology approach of the effect of different levels of nitrogen supply on anthocyanin accumulation in grapevine cell suspensions Eric Soubeyrand , Sophie S. Colombie , Isabelle Merlin , Ghislaine Hilbert , Bertrand Beauvoit Plant Biology 2013, Jul 2013, Rhode Island, United States. 2013 Poster de conférence hal-02804615v1
	Kinetic modelling of the metabolism and compartmentation of sugars during tomato fruit development Bertrand Beauvoit , Sophie S. Colombie , Christine Nazaret , Marie-Hélène Andrieu , Martine Dieuaide Noubhani Metabolic Pathway Analysis 2013, Sep 2013, Oxford, United Kingdom. 2013 Poster de conférence hal-02809066v1
	A systems biology approach for the effect of nitrogen supply on anthocyanin accumulation in grapevine cell suspensions Eric Soubeyrand , Sophie S. Colombie , Isabelle Merlin , Ghislaine Hilbert , Bertrand Beauvoit 7. Journées scientifiques du Réseau Français de Métabolomique et Fluxomique, Jun 2013, Amiens, France. 2013 Poster de conférence hal-02810027v1
	Analysis of metabolic networks using minimal cut set computting Marie Beurton-Aimar , N.T. Nguyen-Vu , Sophie S. Colombie International Study Group for Systems Biology, Sep 2012, Ameland, Netherlands. 2012 Poster de conférence hal-02805260v1
	Compositional changes in fruit pericarp of water-stressed tomato in greenhouse Annick Moing , Benoit Biais , Mickael M. Maucourt , Camille Benard , Patricia Ballias Metabolomics 2012, Jun 2012, Washington, United States. 1 p., 2012 Poster de conférence hal-02805488v1
	A simple model of tomato metabolism Bertrand Beauvoit , Benoit Biais , Sophie S. Colombie , Martine Dieuaide , Yves Y. Gibon International Study Group for Systems Biology, Sep 2012, Ameland, Netherlands. 2012 Poster de conférence hal-02806898v1

	Metabolic network reconstruction and their topological analysis Marie Beurton-Aymar , Tung Vu-Ngoc Nguyen , Sophie S. Colombie Plant Metabolic Flux Analysis : Methods and Protocols, 1090, Springer Science+Business Media, 2014, Methods in Molecular Biology, 978-1-62703-687-0. ⟨10.1007/978-1-62703-688-7_2⟩ Chapitre d'ouvrage hal-02796948v1
	Metabolic Network Reconstruction and Their Topological Analysis Marie Beurton-Aimar , Vu Ngoc Tung Nguyen , Sophie Colombie Plant Metabolic Flux Analysis,, 2014 Chapitre d'ouvrage hal-02000462v1

	From fruit growth to ripening in plantain: a careful balance between carbohydrate synthesis and breakdown N.A. Campos , Sophie Colombie , Annick Moing , Cédric Cassan , D. Amah 2021 Pré-publication, Document de travail hal-03659204v1

	De l’optimisation de bioprocédés à l'étude du métabolisme des fruits axée sur la modélisation Sophie Colombie Biologie végétale. Université de Bordeaux, 2016 HDR tel-02796280v1

Sophie Colombié

Publications

Ecological and metabolic implications of the nurse effect of Maihueniopsis camachoi in the Atacama Desert

Modelling metabolic fluxes of tomato stems reveals that nitrogen shapes central metabolism for defence against Botrytis cinerea

Multi-regulated GDP-l-galactose phosphorylase calls the tune in ascorbate biosynthesis

Comparative constraint‐based modelling of fruit development across species highlights nitrogen metabolism in the growth‐defence trade‐off

Enzyme‐based kinetic modelling of ASC–GSH cycle during tomato fruit development reveals the importance of reducing power and ROS availability

Nitrogen-mediated metabolic patterns of susceptibility to Botrytis cinerea infection in tomato (Solanum lycopersicum) stems

From fruit growth to ripening in plantain: a careful balance between carbohydrate synthesis and breakdown

Protocole de marquage à l’azote 15N de fruits de tomate issus de plantes cultivées en condition standard

Regulation of sugar metabolism genes in the N-dependent susceptibility of tomato stems to Botrytis cinerea

Modelling predicts tomatoes can be bigger and sweeter if biophysical factors and transmembrane transports are fine‐tuned during fruit development

The Evolution of Leaf Function during Development Is Reflected in Profound Changes in the Metabolic Composition of the Vacuole

Biomass composition explains fruit relative growth rate and discriminates climacteric from non-climacteric species

Model-assisted comparison of sugar accumulation patterns in ten fleshy fruits highlights differences between herbaceous and woody species

Transcriptomic and proteomic data in developing tomato fruit

Modeling Protein Destiny in Developing Fruit

Get the Balance Right: ROS Homeostasis and Redox Signalling in Fruit

Peptide filtering differently affects the performances of XIC-based quantification methods

Regulation of Pyridine Nucleotide Metabolism During Tomato Fruit Development Through Transcript and Protein Profiling.

Putting primary metabolism into perspective to obtain better fruits

Constraint-based modeling highlights cell energy, redox status and α-ketoglutarate availability as metabolic drivers for anthocyanin accumulation in grape cells under nitrogen limitation

Fluxomics links cellular functional analyses to whole-plant phenotyping.

Respiration climacteric in tomato fruits elucidated by constraint-based modelling.

Modelling central metabolic fluxes by constraint-based optimization reveals metabolic reprogramming of developing Solanum lycopersicum (tomato) fruit.

Metabolomic profiling in tomato reveals diel compositional changes in fruit affected by source-sink relationships.

Remarkable reproducibility of enzyme activity profiles in tomato fruits grown under contrasting environments provides a roadmap for studies of fruit metabolism.

Model-Assisted Analysis of Sugar Metabolism throughout Tomato Fruit Development Reveals Enzyme and Carrier Properties in Relation to Vacuole Expansion.

Comparison between elementary flux modes analysis and 13C-metabolic fluxes measured in bacterial and plant cells

Interest of on-line monitoring electrical conductivity during wine fermentation

Online estimation of assimilable nitrogen by electrical conductivity measurement during alcoholic fermentation in enological conditions

Modeling of heat transfer in tanks during wine-making fermentation

Modeling alcoholic fermentation in enological conditions: Feasibility and interest

Nicotinic acid controls lactate production by K1-LDH: a Saccharomyces cerevisiae strain expressing a bacterial LDH gene

Control of lactate production by Saccharomyces cerevisiae expressing a bacterial LDH gene

Water activity control: A way to improve the efficiency of continuous lipase esterification

Metabolic fluxes estimated by constraint-based modelling highlight specific response of susceptible tomato (Solanum lycopersicum) stems infected by Botrytis cinerea under gradual nitrogen nutrition

Increased metabolic fluxes in tomato stems infected by Botrytis cinerea

High expression of sucrose synthase and fructokinase genes accompanies the nitrogen-dependent resistance of tomato stems to Botrytis cinerea

An integrated fruit model toolkit: combining fruit biophysical processes with central carbon metabolism

Peptide filtering differently affects the performances of XIC-based quantifcation methods

HSM a reduced model of Central Carbon Metabolism: a dynamical approach

Human-Scale Metabolic Network of Central Carbon Metabolism: application to serine metabolism from glutamine in Cancer Cells

Integrative and predictive biology outside the plant: linking computational tools to fleshy fruit systems

Flux balance modelling in developing tomato fruit: the respiration climacteric as an emergent property

Using metabolomic approaches and modelling of central metabolic to study fleshy fruit quality

Reconstruction du réseau métabolique de la tomate

Cellular and subcellular metabolomics reveal changes during tomato leaf development

La métabolomique : un outil de la génomique fonctionnelle au service de la biologie des systèmes

Modelling fluxes and metabolic network analysis of developing tomato fruits

Systematic study of a metabolic network

Using Topological Analysis to Study Metabolism of Heterotrophic Plant Cell Network

MetaboHUB and RFMF : two tools at the service of metabolomics and fluxomics in France

Using developmental and diurnal compositional changes of tomato to study metabolism

The tomato fruit development with a constraint-based model

MetaboHUB: a national infrastructure dedicated to metabolomics and fluxomics

MetaboHUB: a french infrastructure dedicated to metabolomics and fluxomics

MetaboHUB: une infrastructure nationale au service de la métabolomique

Implication of the vacuolar AtPAP26 in the sugars metabolism in Arabidopsis thaliana roots

Elementary mode analysis of the central metabolism of plant cells

Identification of functional hubs through metabolic networks

Elementary flux mode analysis of the central metabolism of plant cells

TIM/WIM: A Set of Tools to Interface Modelling in Biology.

Mise en place d'une approche de fluxomique dans le fruit de tomate

TIM, une interface de saisie pour les données du métabolisme

Quantification de flux métaboliques dans le fruit de tomate

Nitrogen-mediated metabolic patterns of susceptibility to Botrytis cinerea infection in tomato (Solanum lycopersicum) stems

Primary metabolism investigation of fleshy fruit species using 1H-NMR profiling

Multiscale Fruit Modeling: integrating biophysical fruit growth with biochemical metabolisms in 10 fruits

How to optimize metabolites concentrations and fluxes in a metabolic pathway? Backgrounds and Basics

Characterization of a plant cell suspension culture of Vitis vinifera: biomass composition assessment before C13-metabolic flux analysis

The timing of shifts in the transcriptome and proteome in relation to metabolic state during tomato fruit development

Assessment of metabolome compartmentation changes during tomato leaf development using nonaqueous fractionation

Combining MS and proton NMR metabolomic profiling during tomato fruit development to study environment effect on metabolism

Hub Reactions in Storage of Selected Compounds in Heterotrophic Plant Cell Network

Primary metabolism intermediates of two tomato leaf tissues in contrasted light intensity conditions

Modelling metabolic fluxes during tomato fruit development

Reconstruction du réseau métabolique de la tomate

Combining MS and NMR metabolomic profiling during tomato fruit development to study environment effect on metabolism

Combining metabolite and enzymatic profiling during tomato fruit development