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Olivier Loudet

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Publications

Natural variation in response to combined water and nitrogen deficiencies in Arabidopsis

Zeyun Xue , Marina Ferrand , Elodie Gilbault , Olivier Zurfluh , Gilles Clément
The Plant cell, 2024, ⟨10.1093/plcell/koae173⟩
Journal articles hal-04632972v1
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Resource allocation modeling for autonomous prediction of plant cell phenotypes

Anne Goelzer , Loïc Rajjou , Fabien Chardon , Olivier Loudet , Vincent Fromion
Metabolic Engineering, 2024, 83, pp.86-101. ⟨10.1016/j.ymben.2024.03.009⟩
Journal articles hal-04529640v2

Genomic Basis of Adaptation to a Novel Precipitation Regime

Ahmed Elfarargi , Elodie Gilbault , Nina Döring , Célia Neto , Andrea Fulgione
Molecular Biology and Evolution, 2023, 40 (3), ⟨10.1093/molbev/msad031⟩
Journal articles hal-04301973v1
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DiffSegR: an RNA-seq data driven method for differential expression analysis using changepoint detection

Arnaud Liehrmann , Etienne Delannoy , Alexandra Launay-Avon , Elodie Gilbault , Olivier Loudet
NAR Genomics and Bioinformatics, 2023, 5 (4), pp.lqad098. ⟨10.1093/nargab/lqad098⟩
Journal articles hal-04282211v2
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Protein kinase SnRK2 . 4 is a key regulator of aquaporins and root hydraulics in Arabidopsis

Zaigham Shahzad , Colette Tournaire-Roux , Matthieu Canut , Mattia Adamo , Jan Roeder
The Plant Journal, In press, 117 (1), pp.264-279. ⟨10.1111/tpj.16494⟩
Journal articles hal-04248273v2
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Genetic and environmental modulation of transposition shapes the evolutionary potential of Arabidopsis thaliana

Pierre Baduel , Basile Leduque , Amandine Ignace , Isabelle Gy , José Gil
Genome Biology, 2021, 22 (1), ⟨10.1186/s13059-021-02348-5⟩
Journal articles hal-03099067v3
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The Evolutionary Dynamics of Genetic Incompatibilities Introduced by Duplicated Genes in Arabidopsis thaliana

Wen-Biao Jiao , Vipul Patel , Jonas Klasen , Fang Liu , Petra Pecinkova
Molecular Biology and Evolution, 2021, 38 (4), pp.1225-1240. ⟨10.1093/molbev/msaa306⟩
Journal articles hal-03330176v1
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Mild drought in the vegetative stage induces phenotypic, gene expression and DNA methylation plasticity in Arabidopsis but no transgenerational effects

Tom Van J M Dooren , Amanda Bortolini Silveira , Elodie E. Gilbault , José Jimenez-Gomez , Antoine Martin
Journal of Experimental Botany, 2020, 71 (12), pp.3588-3602. ⟨10.1093/jxb/eraa132⟩
Journal articles hal-02535255v1
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Natural variation at FLM splicing has pleiotropic effects modulating ecological strategies in Arabidopsis thaliana

Mathieu Hanemian , François Vasseur , Elodie E. Marchadier , Elodie E. Gilbault , Justine Bresson
Nature Communications, 2020, 11 (1), ⟨10.1038/s41467-020-17896-w⟩
Journal articles hal-02945319v1
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The complex genetic architecture of shoot growth natural variation in Arabidopsis thaliana

Elodie Marchadier , Mathieu Hanemian , Sebastien S. Tisne , Lien Bach , Christos Bazakos
PLoS Genetics, 2019, 15 (4), ⟨10.1371/journal.pgen.1007954⟩
Journal articles hal-02629200v1
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Natural variation at XND1 impacts root hydraulics and trade-off for stress responses in Arabidopsis

Ning Tang , Zaigham Shahzad , Fabien Lonjon , Olivier Loudet , Fabienne Vailleau
Nature Communications, 2018, 9, ⟨10.1038/s41467-018-06430-8⟩
Journal articles hal-01918090v1
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High contiguity Arabidopsis thaliana genome assembly with a single nanopore flow cell

Todd P. Michael , Florian Jupe , Felix Bemm , S. Timothy Motley , Justin P. Sandoval
Nature Communications, 2018, 9, pp.1-8. ⟨10.1038/s41467-018-03016-2⟩
Journal articles hal-02626875v1
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Leaf segmentation and tracking in arabidopsis thaliana combined to an organ-scale plant model for genotypic differentiation

Gautier Viaud , Olivier Loudet , Paul-Henry Cournede
Frontiers in Plant Science, 2017, 7, pp.1-14. ⟨10.3389/fpls.2016.02057⟩
Journal articles hal-01602596v1

AraQTL - workbench and archive for systems genetics in Arabidopsis thaliana

Harm Nijveen , Wilco Ligterink , Joost Keurentjes , Olivier Loudet , Jiao Long
The Plant Journal, 2017, 89 (6), pp.1225-1235. ⟨10.1111/tpj.13457⟩
Journal articles hal-01532690v1
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An Arabidopsis natural epiallele maintained by a feed-forward silencing loop between histone and DNA

Astrid Agorio , Stéphanie Durand , Elisa Fiume , Cécile Brousse , Isabelle Gy
PLoS Genetics, 2017, 13 (1), pp.1-23. ⟨10.1371/journal.pgen.1006551⟩
Journal articles hal-01602603v1

New strategies and tools in quantitative genetics: how to go from the phenotype to the genotype

Christos Bazakos , Mathieu Hanemian , Charlotte Trontin , José M. Jimenez-Gomez , Olivier Loudet
Annual Review of Plant Biology, 2017, 68, pp.435-455. ⟨10.1146/annurev-arplant-042916-040820⟩
Journal articles hal-01607849v1
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A potassium-dependent oxygen sensing pathway regulates plant root hydraulics

Zaigham Shahzad , Matthieu Canut , Colette Tournaire-Roux , Alexandre Martiniere , Yann Boursiac
Cell, 2016, 167 (1), pp.87-98. ⟨10.1016/j.cell.2016.08.068⟩
Journal articles hal-01417732v1

A pair of receptor-like kinases is responsible for natural variation in shoot growth response to mannitol treatment in Arabidopsis thaliana

Charlotte Trontin , Seifollah Poormohammad Kiani , Jason A. Corwin , Kian Hematy , Jennifer Yansouni
The Plant Journal, 2014, 78 (1), pp.121-133. ⟨10.1111/tpj.12454⟩
Journal articles hal-01204062v1

Extensive [i]cis[/i]-regulatory variation robust to environmental perturbation in [i]Arabidopsis[/i]

Francisco A. Cubillos , Oliver Stegle , Cécile Grondin , Matthieu Canut , Sebastien Tisne
The Plant cell, 2014, 26 (11), pp.4298-4310. ⟨10.1105/tpc.114.130310⟩
Journal articles hal-01204141v1
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SHOOT GROWTH1 Maintains Arabidopsis Epigenomes by Regulating IBM1

Vincent Coustham , Daniela Loredan Vlad , Aurélie Deremetz , Isabelle Gy , Francisco Cubillos
PLoS ONE, 2014, 9, online (1), Non paginé. ⟨10.1371/journal.pone.0084687⟩
Journal articles hal-01019546v1
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Local Evolution of Seed Flotation in Arabidopsis

S. Saez Aguayo , Corinne C. Rondeau-Mouro , A. Macquet , I. Kronholm , M.C. Ralet
PLoS Genetics, 2014, 10 (3), 10 p. ⟨10.1371/journal.pgen.1004221⟩
Journal articles hal-00991499v1

Editorial Overview: Genome studies and molecular genetics: Genomic approaches to understanding evolution, development and the plant phenome

Kirsten Bomblies , Olivier Loudet
Current Opinion in Plant Biology, 2014, 18, pp.V - VI. ⟨10.1016/j.pbi.2014.03.005⟩
Journal articles hal-01204051v1

Phenoscope: an automated large-scale phenotyping platform offering high spatial homogeneity

Sebastien S. Tisne , Yann Y. Serrand , Lien L. Bach , Elodie E. Gilbault , Rachid R. Ben Ameur
The Plant Journal, 2013, 74 (3), pp.534 - 544. ⟨10.1111/tpj.12131⟩
Journal articles hal-01004455v1

Leaf fructose content is controlled by the vacuolar transporter SWEET17 in Arabidopsis.

Fabien Chardon , Magali Bedu , Fanny Calenge , Patrick a W Klemens , Lara Spinner
Current Biology - CB, 2013, 23 (8), pp.697-702. ⟨10.1016/j.cub.2013.03.021⟩
Journal articles hal-00860481v1

Natural Variation in the ATPS1 Isoform of ATP Sulfurylase Contributes to the Control of Sulfate Levels in Arabidopsis

Anna Koprivova , Marco Giovannetti , Patrycja Baraniecka , Bok-Rye Lee , Cécile Grondin
Plant Physiology, 2013, 163 (3), pp.1133 - 1141. ⟨10.1104/pp.113.225748⟩
Journal articles hal-01203997v1
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Extensive natural epigenetic variation at a [i]De Novo[/i] originated gene

Amanda Bortolini Silveira , Charlotte Trontin , Sandra Cortijo , Joan Barau , Luiz Eduardo Vieira del Bem
PLoS Genetics, 2013, 9 (4), ⟨10.1371/journal.pgen.1003437⟩
Journal articles hal-01190576v1
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Natural Variation at the FRD3 MATE Transporter Locus Reveals Cross-Talk between Fe Homeostasis and Zn Tolerance in Arabidopsis thaliana

Christophe Pineau , Stéphanie Loubet , Cécile Lefoulon , Claude Chalies , Cécile Fizames
PLoS Genetics, 2012, 8 (12), pp.e1003120. ⟨10.1371/journal.pgen.1003120⟩
Journal articles hal-02024149v1

Rapid establishment of genetic incompatibility through natural epigenetic variation

Stéphanie S. Durand , Nicolas N. Bouche , Elsa E. Perez Strand , Olivier O. Loudet , Christine C. Camilleri
Current Biology - CB, 2012, 22 (4), pp.326-331. ⟨10.1016/j.cub.2011.12.054⟩
Journal articles hal-00999980v1
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Allelic heterogeneity and trade-off shape natural variation for response to soil micronutrient

Seifollah Poormohammad Kiani , Charlotte Trontin , Matthew Andreatta , Matthieu Simon , Thierry Robert
PLoS Genetics, 2012, 8 (7), ⟨10.1371/journal.pgen.1002814⟩
Journal articles hal-01190766v1
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Metabolite profiling and quantitative genetics of natural variation for flavonoids in Arabidopsis

Jean-Marc J.-M. Routaboul , Christian C. Dubos , Gilles G. Beck , Catherine C. Marques , Przemyslaw P. Bidzinski
Journal of Experimental Botany, 2012, 63 (10), pp.3749-3764. ⟨10.1093/jxb/ers067⟩
Journal articles hal-01000367v1

Inférence de réseaux de régulation de gènes au travers de scores étendus dans les réseaux bayésiens

Jimmy Vandel , Brigitte Mangin , Matthieu Vignes , Damien Leroux , Olivier Loudet
Revue des Sciences et Technologies de l'Information - Série RIA : Revue d'Intelligence Artificielle, 2012, 26 (6), pp.679-708. ⟨10.3166/ria.26.679-708⟩
Journal articles hal-01197611v1
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Natural variation in seed very long chain fatty acid content is controlled by a new isoform of KCS18 in [i]Arabidopsis thaliana[/i]

Sophie Jasinski , Alain Lecureuil , Martine Miquel , Olivier Loudet , Sylvain Raffaele
PLoS ONE, 2012, 7 (11), ⟨10.1371/journal.pone.0049261⟩
Journal articles hal-01190708v1
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Expression variation in connected recombinant populations of Arabidopsis thaliana highlights distinct transcriptome architectures

Francisco Cubillos , Jennifer Yansouni , Ahmid Khalili , Sandrine Balzergue , Samira Elftieh
BMC Genomics, 2012, 13, pp.1-12. ⟨10.1186/1471-2164-13-117⟩
Journal articles hal-01189696v1

Lessons from eQTL mapping studies: non-coding regions and their role behind natural phenotypic variation in plants

Francisco F. Cubillos , Vincent Coustham , Olivier O. Loudet
Current Opinion in Plant Biology, 2012, 15 (2), pp.192 - 198. ⟨10.1016/j.pbi.2012.01.005⟩
Journal articles hal-01004213v1

DNA fingerprinting and new tools for fine-scale discrimination of Arabidopsis thaliana accessions

Matthieu Simon , Adeline Simon , Frédéric Martins , Lucy Botran , Sébastien Tisné
The Plant Journal, 2012, pp.69. ⟨10.1111/j.1365-313X.2011.04852.x⟩
Journal articles hal-04453792v1

DNA fingerprinting and new tools for fine-scale discrimination of Arabidopsis thaliana accessions

Matthieu M. Simon , Adeline A. Simon , Frédéric Martins Martins , Lucy Botran , Sebastien S. Tisne
The Plant Journal, 2012, 69 (6), pp.1094-1101. ⟨10.1111/j.1365-313X.2011.04852.x⟩
Journal articles hal-01000411v1
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Disentangling the Intertwined Genetic Bases of Root and Shoot Growth in Arabidopsis

Marie Bouteillé , Gaelle Rolland , Crispulo Balsera , Olivier Loudet , Bertrand Muller
PLoS ONE, 2012, 7 (2), ⟨10.1371/journal.pone.0032319⟩
Journal articles hal-01190638v1

What does Arabidopsis natural variation teach us (and does not teach us) about adaptation in plants?

Charlotte Trontin Trontin , Sebastien S. Tisne , Lien L. Bach , Olivier O. Loudet
Current Opinion in Plant Biology, 2011, 14 (3), pp.225-231. ⟨10.1016/j.pbi.2011.03.024⟩
Journal articles hal-01000536v1
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Influence of mutation rate on estimators of genetic differentiation-lessons from Arabidopsis thaliana

Ilkka Kronholm , Olivier Loudet , Juliette de Meaux
BMC Genetics, 2010, 11, pp.33. ⟨10.1186/1471-2156-11-88⟩
Journal articles hal-01203876v1
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The scale of population structure in Arabidopsis thaliana

A. Platt , M. Horton , Huang Y.S. , Li Y. , Anastasio A.E.
PLoS Genetics, 2010, 6 (2), pp.e1000843. ⟨10.1371/journal.pgen.1000843⟩
Journal articles hal-00457092v1
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Gene transposition causing natural variation for growth in [i]Arabidopsis thaliana[/i]

Daniela Loredan Vlad , Fabrice Rappaport , Matthieu Simon , Olivier Loudet
PLoS Genetics, 2010, 6 (5), ⟨10.1371/journal.pgen.1000945⟩
Journal articles hal-01203934v1

Divergent evolution of duplicate genes leads to genetic incompatibilities within A. thaliana

David Bikard , Dhaval Patel , Claire Le Mette , Veronica Giorgi , Christine Camilleri
Science, 2009, 323, pp.623-626. ⟨10.1126/science.1165917⟩
Journal articles hal-01203956v1

La spéciation, un processus toujours en cours

Carole Kerdelhue , Christian Burban , Jean-Christophe Simon , Flavie Vanlerberghe-Masutti , Olivier Loudet
INRA Magazine, 2009, 11, pp.X-XII
Journal articles hal-01203975v1

Analysis of Natural Allelic Variation Controlling Arabidopsis thaliana Seed Germinability in Response to Cold and Dark: Identification of Three Major Quantitative Trait Loci

Ping-Hong Meng , Audrey Macquet , Olivier Loudet , Annie Marion-Poll , Helen North
Molecular Plant, 2008, 1 (1), pp.145-154. ⟨10.1093/mp/ssm014⟩
Journal articles hal-04176796v1
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Identification of quantitative trait loci controlling symptom development during viral infection in Arabidopsis thaliana

Ophélie Sicard , Olivier O. Loudet , Joost J. B. Keurentjes , Thierry T. Candresse , Olivier O. Le Gall
Molecular Plant-Microbe Interactions, 2008, 21 (2), pp.198-207. ⟨10.1094/MPMI-21-2-0198⟩
Journal articles hal-02656693v1

Natural variation for sulfate content in Arabidopsis thaliana is highly controlled by APR2

Olivier O. Loudet , Véra Saliba-Colombani , Christine C. Camilleri , Fanny Calenge , Virginie Gaudon
Nature Genetics, 2007, 39 (7), pp.896-900. ⟨10.1038/ng2050⟩
Journal articles hal-02663317v1

A naturally occurring mutation in an Arabidopsis accession affects a beta-D-galactosidase that increases the hydrophilic potential of rhamnogalacturonan I in seed mucilage

Audrey Macquet , Marie-Christine Ralet , Olivier O. Loudet , Jocelyne Kronenberger , Gregory G. Mouille
The Plant cell, 2007, 19 (12), pp.3990-4006. ⟨10.1105/tpc.107050179⟩
Journal articles hal-02660522v1

Natural variation for carbohydrate content in Arabidopsis. Interaction with complex traits dissected by quantitative genetics

Fanny Calenge , Véra Saliba-Colombani , Stéphanie Mahieu , Olivier O. Loudet , Francoise Vedele Daniel-Vedele
Plant Physiology, 2006, 141 (4), pp.1630-1643. ⟨10.1104/pp.106.082396⟩
Journal articles hal-02655658v1

Identification of QTL controlling root growth response to phosphate starvation in Arabidopsis thaliana

Matthieu Reymond , Sergio Svistoonoff , Olivier O. Loudet , Laurent Nussaume , Thierry Desnos
Plant, Cell and Environment, 2006, 29 (1), pp.115-125. ⟨10.1111/j.1365-3040.2005.01405.x⟩
Journal articles hal-02659203v1

Leaf yellowing and anthocyanin accumulation are two genetically independent strategies in response to nitrogen limitation in Arabidopsis thaliana

Celine Diaz , Véra Saliba-Colombani , Olivier O. Loudet , Pierre Belluomo , Laurence Moreau
Plant and Cell Physiology, 2006, 47 (1), pp.74-83. ⟨10.1093/pcp/pci225⟩
Journal articles hal-02661380v1

Quantitative trait loci analysis of primary cell wall composition in arabidopsis

Gregory G. Mouille , Hanna Witucka-Wall , Marie-Pierre Bruyant , Olivier O. Loudet , Sandra S. Pelletier
Plant Physiology, 2006, 141 (3), pp.1035-1044. ⟨10.1104/pp.106.079384⟩
Journal articles hal-02659437v1

Quantitative Trait Loci Analysis of Primary Cell Wall Composition in Arabidopsis

Grégory Mouille , Hanna Witucka-Wall , Marie-Pierre Bruyant , Olivier Loudet , Sandra Pelletier
Plant Physiology, 2006, 141 (3), pp.1035-1044. ⟨10.1104/pp.106.079384⟩
Journal articles hal-04373071v1
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Identification of QTLs controlling gene expression networks defined a priori

Daniel J. Kliebenstein , Marilyn Al West , Hans van Leeuwen , Olivier O. Loudet , R.W. Doerge
BMC Bioinformatics, 2006, 7 (308), n.p. ⟨10.1186/1471-2105-7-308⟩
Journal articles hal-02661319v1

Quantitative trait loci controlling root growth and architecture in Arabidopsis thaliana confirmed by heterogeneous inbred family

Olivier O. Loudet , Virginie Gaudon , Alain Trubuil , Francoise Vedele Daniel-Vedele
TAG Theoretical and Applied Genetics, 2005, 110 (4), pp.742-753. ⟨10.1007/s00122-004-1900-9⟩
Journal articles hal-02678339v1

Light-response quantitative trait loci identified with composite interval and extreme array mapping in Arabidopsis thaliana

D.J. Wolyn , J.O. Borevitz , Olivier O. Loudet , C. Schwartz , J. Maloof
Genetics, 2004, 167, pp.907-917
Journal articles hal-02678846v1

Quantitative trait loci analysis of water and anion contents in interaction with nitrogen availability in Arabidopsis thaliana

Olivier O. Loudet , Sylvain S. Chaillou , Annemarie Krapp , Francoise Daniel Vedele
Genetics, 2003, 163, pp.711-722
Journal articles hal-02676580v1

Quantitative trait loci analysis of nitrogen use efficiency in Arabidopsis

Olivier O. Loudet , Sylvain S. Chaillou , Patricia Mérigout , Joel Talbotec , Francoise Daniel Vedele
Plant Physiology, 2003, 131, pp.345-358. ⟨10.1104/pp.102.010785⟩
Journal articles hal-02682611v1

Bay-O X Shahdara recombinant inbred line population : a powerful tool for the genetic dissection of complex traits in Arabidopsis

Olivier O. Loudet , Sylvain S. Chaillou , Christine C. Camilleri , David D. Bouchez , Francoise Daniel Vedele
TAG Theoretical and Applied Genetics, 2002, 104 (6-7), pp.1173-1184
Journal articles hal-02678717v1

The response of root/shoot partitioning and root morphology to light reduction in maize genotypes

E. Guingo , Olivier O. Loudet
Crop Science, 2001, 41 (2), pp.363-371
Journal articles hal-02672556v1

Plant water transport in a changing environment: from aquaporin regulation to root hydraulic architecture

Christophe Maurel , Zaigham Shahzad , Louai Rishmawi , Olivier Rodrigues , Virginia Protto
19th International Workshop on Plant Membrane Biology, Mar 2023, Tapei, Taiwan
Conference papers hal-04452119v1

Natural variation for Arabidopsis response to stress and stress combination: complex interactions !

Olivier Loudet
'Plant Sugars' Summer School, Jul 2022, Saint Lambert des Bois, France
Conference papers hal-04506725v1

Complex genetic bases for growth dynamics and responses to the environment in Arabidopsis

Olivier Loudet
2nd EIG Concert-Japan workshop 'Plant performance under stress', Jun 2019, Versailles, France
Conference papers hal-04506733v1

Quantitative genetics dissection of root hydraulics uncovers novel pathways for plant adaptation to stresses

Christophe Maurel , Zaigham Shahzad , Ning Tang , Colette Tournaire-Roux , Miguel Angel Rosales Villegas
10th Symposium of the International Society of Root Research, https://www.ortra.com/events/isrr10/Home.aspx, Jul 2018, Jérusalem, Israel
Conference papers hal-02954548v1

Root hydraulics: a key trait in plant adaptation to stresses

Christophe Maurel , Zaigham Shahzad , Ning Tang , Colette Tournaire-Roux , Miguel Angel Rosales Villegas
2nd Workshop on Plant Development & Drought Stress, Nov 2017, Pacific Grove, United States
Conference papers hal-01840965v1

Quantitative genetics analysis of root hydraulics uncovers novel pathways of plant adaptation to the environment

Christophe Maurel , Zaigham Shahzad , Ning Tang , Colette Tournaire-Roux , Alexandre Martiniere
VIB Conference 'At the Forefront of Plant Research', 2017, Ghent, Belgium
Conference papers hal-01840959v1

Regulation of root water transport under flooding

Christophe Maurel , Zaigham Shahzad , Colette Tournaire-Roux , Alexandre Martiniere , Yann Boursiac
XIX International Botanical Congress, 2017, Shenzhen, China
Conference papers hal-01840973v1

Hydraulic Conductivity of Root 1 controls potassium-dependent oxygen sensing to regulate root hydraulic

Zaigham Shahzad , Matthieu Canut , Colette Tournaire-Roux , Alexandre Martiniere , Olivier Loudet
GARnet Natvar2016‘Natural variation as a tool for gene discovery and crop improvement’, Dec 2016, Cambridge, United Kingdom
Conference papers hal-01594807v1

Natural variation in the polysaccharide components of Arabidopsis seed coat epidermal cells

Helen North , Marie-Christine Ralet , Susana S. Saez Aguayo , Joseph Tran , Dominique Poulain
13. Cell Wall Meeting, Institut National de Recherche Agronomique (INRA). UR Biopolymères, Interactions Assemblages (1268)., Jul 2013, Nantes, France
Conference papers hal-02747713v1

Recherche des déterminants génétiques de la plante hôte et du virus contrôlant l'apparition des symptômes dans le pathosystème Arabidopsis thaliana / Plum pox virus

Ophélie Sicard , Olivier O. Loudet , Thierry T. Candresse , Olivier O. Le Gall , Frederic Revers
11. Rencontres de virologie végétale, Jan 2007, Aussois, France
Conference papers hal-02753583v1