Frédéric Choulet

Identifiants chercheurs

IdHAL :

frederic-choulet

ORCID :

0000-0003-1788-7288

IdRef :

111370639

Présentation

Frédéric Choulet est Ingénieur de Recherche du département Biologie et Amélioration des Plantes d’INRAE. Après une thèse à l’Université de Nancy en génomique bactérienne, il a rejoint l’unité GDEC (Génétique, Diversité, Ecophysiologie des Céréales) UMR INRAE-Université Clermont Auvergne en 2007 en postdoc puis en tant qu’IR en 2009. Sa spécialité est la bioinformatique des génomes. Il a été impliqué dans le séquençage du génome du blé tendre, une espèce hexaploïde au génome complexe, dans le cadre d’une initiative internationale qui a mobilisé la communauté scientifique fédérée au sein du consortium IWGSC. Au-delà des aspects méthodologiques, des développements bioinformatiques, Frédéric mène des recherches qui visent à caractériser la composition du génome et surtout sa variabilité aux échelles inter- et intra-spécifiques. Il s’intéresse notamment aux éléments transposables, à leur dynamique évolutive, leur contribution à la variabilité génomique et à l’adaptation chez cette espèce.

Publications

Article dans une revue (60)

TaRECQ4 contributes to maintain both homologous and homoeologous recombination during wheat meiosis Jeanne Bazile,Isabelle Nadaud,Pauline Lasserre-Zuber,Jonathan Kitt,Romain de Oliveiraet al. Frontiers in Plant Science, 2024, 14, ⟨10.3389/fpls.2023.1342976⟩ Article dans une revue hal-04488399v1
Genomes of Aegilops umbellulata provide new insights into unique structural variations and genetic diversity in the U‐genome for wheat improvement Jatinder Singh,Santosh Gudi,Peter J Maughan,Zhaohui Liu,James Kolmeret al. Plant Biotechnology Journal, 2024, pp.1-15. ⟨10.1111/pbi.14470⟩ Article dans une revue hal-04707299v1
A second‐generation capture panel for cost‐effective sequencing of genome regulatory regions in wheat and relatives Junli Zhang,Juan M Debernardi,Germán F Burguener,Frédéric Choulet,Etienne Pauxet al. Plant Genome, 2023, 16 (1), ⟨10.1002/tpg2.20296⟩ Article dans une revue hal-04090043v1
All families of transposable elements were active in the recent wheat genome evolution and polyploidy had no impact on their activity Nathan Papon,Pauline Lasserre-Zuber,Hélène Rimbert,Romain de Oliveira,Etienne Pauxet al. Plant Genome, 2023, ⟨10.1002/tpg2.20347⟩ Article dans une revue hal-04143737v1
Capturing Wheat Phenotypes at the Genome Level Babar Hussain,Bala A Akpınar,Michael Alaux,Ahmed M Algharib,Deepmala Sehgalet al. Frontiers in Plant Science, 2022, 13, ⟨10.3389/fpls.2022.851079⟩ Article dans une revue hal-03740520v1
Location and Identification on Chromosome 3B of Bread Wheat of Genes Affecting Chiasma Number Benoit Darrier,Isabelle Colas,Hélène Rimbert,Frédéric Choulet,Jeanne Bazileet al. Plants, 2022, 11, ⟨10.3390/plants11172281⟩ Article dans une revue hal-03766369v1
Long-read and chromosome-scale assembly of the hexaploid wheat genome achieves high resolution for research and breeding Jean-Marc Aury,Stefan Engelen,Benjamin Istace,Cécile Monat,Pauline Lasserre-Zuberet al. GigaScience, 2022, 11, pp.1-18. ⟨10.1093/gigascience/giac034⟩ Article dans une revue hal-03658639v1
New insights into homoeologous copy number variations in the hexaploid wheat genome Caroline Juery,Lorenzo Concia,Romain de Oliveira,Nathan Papon,Ricardo Ramírez‐gonzálezet al. Plant Genome, 2021, 14 (1), pp.e20069. ⟨10.1002/tpg2.20069⟩ Article dans une revue hal-03084292v1
Optical maps refine the bread wheat Triticum aestivum cv. Chinese Spring genome assembly Tingting Zhu,Le Wang,Hélène Rimbert,Juan Rodriguez,Karin Dealet al. The Plant Journal, 2021, ⟨10.1111/tpj.15289⟩ Article dans une revue hal-03285883v1
Deciphering carbohydrate metabolism during wheat grain development via integrated transcriptome and proteome dynamics Ayesha Tahir,Jun Kang,Frédéric Choulet,Catherine Ravel,Isabelle Romeufet al. Molecular Biology Reports, 2020, 47 (7), pp.5439-5449. ⟨10.1007/s11033-020-05634-w⟩ Article dans une revue (article de synthèse) hal-02904006v1
Structural variations affecting genes and transposable elements of chromosome 3B in wheats Romain de Oliveira,Hélène Rimbert,François Balfourier,Jonathan Kitt,Emeric Dynomantet al. Frontiers in Genetics, 2020, 11, 891/15 p. ⟨10.3389/fgene.2020.00891⟩ Article dans une revue hal-02917729v1
Worldwide phylogeography and history of wheat genetic diversity François Balfourier,Sophie Bouchet,Sandra Robert,Romain de Oliveira,Hélène Rimbertet al. Science Advances , 2019, 5 (5), pp.eaav0536. ⟨10.1126/sciadv.aav0536⟩ Article dans une revue hal-02172516v1
The transcriptional landscape of polyploid wheat R. H. Ramírez-González,P. Borrill,D. Lang,S. A. Harrington,J. Brintonet al. Science, 2018, 361 (6403), pp.eaar6089. ⟨10.1126/science.aar6089⟩ Article dans une revue hal-02629204v1
Annotation, classification, genomic organization and expression of the Vitis vinifera CYPome Tina Ilc,Gautier Arista,Raquel Tavares,Nicolas Navrot,Eric Duchêneet al. PLoS ONE, 2018, 13 (6), pp.e0199902. ⟨10.1371/journal.pone.0199902⟩ Article dans une revue hal-02269561v1
Impact of transposable elements on genome structure and evolution in bread wheat Thomas Wicker,Heidrun Gundlach,Manuel Spannagl,Cristobal Uauy,Philippa Borrillet al. Genome Biology, 2018, 19 (1), ⟨10.1186/s13059-018-1479-0⟩ Article dans une revue hal-02624812v1
Linking the International Wheat Genome Sequencing Consortium bread wheat reference genome sequence to wheat genetic and phenomic data Michael Alaux,Jane Rogers,Thomas Letellier,Raphaël Flores,Françoise Alfamaet al. Genome Biology, 2018, 19 (1), pp.905-911. ⟨10.1186/s13059-018-1491-4⟩ Article dans une revue hal-02278879v1
Optical and physical mapping with local finishing enables megabase-scale resolution of agronomically important regions in the wheat genome Gabriel Keeble-Gagnère,Philippe Rigault,Josquin Tibbits,Raj Pasam,Matthew Haydenet al. Genome Biology, 2018, 19, 18 p. ⟨10.1186/s13059-018-1475-4⟩ Article dans une revue hal-01869898v1
High throughput SNP discovery and genotyping in hexaploid wheat Hélène Rimbert,Benoît Darrier,Julien Navarro,Jonathan Kitt,Frédéric Chouletet al. PLoS ONE, 2018, 13 (1), pp.1-19. ⟨10.1371/journal.pone.0186329⟩ Article dans une revue hal-02628543v1
Shifting the limits in wheat research and breeding using a fully annotated reference genome Rudi Appels,Kellye Eversole,Nils Stein,Catherine Feuillet,Beat Kelleret al. Science, 2018, 361 (6403), ⟨10.1126/science.aar7191⟩ Article dans une revue hal-04331004v1
Shifting the limits in wheat research and breeding using a fully annotated reference genome . International Wheat Genome Sequencing Consortium (iwgsc),Arnaud Bellec,Helene Berges,Sonia Vautrin,Michael Alauxet al. Science, 2018, 361 (6403), pp.7191. ⟨10.1126/science.aar7191⟩ Article dans une revue hal-01885399v1
Identification, molecular cloning, and functional characterization of a wheat udp-glucosyltransferase involved in resistance to fusarium head blight and to mycotoxin accumulation Miriam Gatti,Frédéric Choulet,Catherine Macadre,Florence Guerard,Jean Marc Senget al. Frontiers in Plant Science, 2018, 9, pp.1853. ⟨10.3389/fpls.2018.01853⟩ Article dans une revue hal-02159611v1
High-Resolution Mapping of Crossover Events in the Hexaploid Wheat Genome Suggests a Universal Recombination Mechanism Benoit Darrier,Hélène Rimbert,François Balfourier,Lise Pingault,Ambre-Aurore Josselinet al. Genetics, 2017, 206 (3), pp.1373-1388. ⟨10.1534/genetics.116.196014⟩ Article dans une revue hal-04686468v1
De novo annotation of transposable elements : tackling the fat genome issue Véronique Jamilloux,Josquin Daron,Frédéric Choulet,Hadi Quesneville Proceedings of the IEEE, 2017, 105 (3), pp.474-481. ⟨10.1109/JPROC.2016.2590833⟩ Article dans une revue hal-02622009v1
De Novo Annotation of Transposable Elements: Tackling the Fat Genome Issue Véronique Jamilloux,Josquin Daron,Frédéric Choulet,Hadi Quesneville Proceedings of the IEEE, 2017, 105 (5), pp.978-978. ⟨10.1109/JPROC.2017.2680218⟩ Article dans une revue hal-02618951v1
Exploiting the repetitive fraction of the wheat genome for high-throughput single-nucleotide polymorphism discovery and Genotyping Nelly Cubizolles,Elodie Rey,Frédéric Choulet,Hélène Rimbert,Christel C. Laugieret al. PLANT GENOME, 2016, 9 (1), ⟨10.3835/plantgenome2015.09.0078⟩ Article dans une revue hal-02635405v1
Major gene for field stem rust resistance co-locates with resistance gene Sr12 in 'thatcher' wheat Colin W. Hiebert,James A. Kolmer,Curt A. Mccartney,Jordan Briggs,Tom Fetchet al. PLoS ONE, 2016, 11 (6), pp.1-16. ⟨10.1371/journal.pone.0157029⟩ Article dans une revue hal-01608811v1
Deep transcriptome sequencing provides new insights into the structural and functional organization of the wheat genome Lise Pingault,Frédéric Choulet,Adriana A. Alberti,Natasha Marie Glover,Patrick Winckeret al. Genome Biology, 2015, 16 (1), n.p. ⟨10.1186/s13059-015-0601-9⟩ Article dans une revue hal-02635440v1
Small-scale gene duplications played a major role in the recent evolution of wheat chromosome 3B Natasha Marie Glover,Josquin Daron,Lise Pingault,Klaas Vandepoele,Etienne Pauxet al. Genome Biology, 2015, 16 (188), ⟨10.1186/s13059-015-0754-6⟩ Article dans une revue hal-01244498v1
Fine mapping of a large-effect QTL conferring Fusarium crown rot resistance on the long arm of chromosome 3B in hexaploid wheat Zhi Zheng,Jian Ma,Jiri Stiller,Qiang Zhao,Qi Fenget al. BMC Genomics, 2015, 16 (850), 7 p. ⟨10.1186/s12864-015-2105-0⟩ Article dans une revue hal-02637545v1
QTug.sau-3B Is a Major Quantitative Trait Locus for Wheat Hexaploidization Ming Hao,Jiangtao Luo,Deying Zeng,Li Zhang,Shunzong Ninget al. G3, 2014, 4 (10), pp.1943-1953. ⟨10.1534/g3.114.013078⟩ Article dans une revue hal-02633053v1
Transcriptome and Allele Specificity Associated with a 3BL Locus for &lt;em&gt;Fusarium&lt;/em&gt; Crown Rot Resistance in Bread Wheat Jian Ma,Jiri Stiller,Qiang Zhao,Qi Feng,Colin Cavanaghet al. PLoS ONE, 2014, 9 (11), ⟨10.1371/journal.pone.0113309⟩ Article dans une revue hal-02637351v1
Structural and Functional Partitioning of Bread Wheat Chromosome 3B Frédéric Choulet,Adriana A. Alberti,Sébastien Theil,Natasha Marie Glover,Valérie Barbeet al. Science, 2014, 345 (6194), ⟨10.1126/science.1249721⟩ Article dans une revue hal-02638189v1
Meiotic Gene Evolution: Can You Teach a New Dog New Tricks? Andrew Lloyd,Marion Ranoux,Sonia S. Vautrin,Natasha Marie Glover,Joëlle Fourmentet al. Molecular Biology and Evolution, 2014, 31 (7), pp.1724-1727. ⟨10.1093/molbev/msu119⟩ Article dans une revue hal-02635778v1
High-resolution analysis of a QTL for resistance to Stagonospora nodorum glume blotch in wheat reveals presence of two distinct resistance loci in the target interval Margarita Shatalina,Monika Messmer,Catherine C. Feuillet,Fabio Mascher,Etienne Pauxet al. TAG Theoretical and Applied Genetics, 2014, 127 (3), pp.573-586. ⟨10.1007/s00122-013-2240-4⟩ Article dans une revue hal-02633712v1
Genotyping by sequencing transcriptomes in an evolutionary pre-breeding durum wheat population Jacques David,Yan Holtz,Vincent Ranwez,Sylvain Santoni,Gautier Sarahet al. Molecular Breeding, 2014, 34 (4), pp.1531-1548. ⟨10.1007/s11032-014-0179-z⟩ Article dans une revue hal-01123443v1
Genome interplay in the grain transcriptome of hexaploid bread wheat Matthias Pfeifer,Karl G. Kugler,Simen R. Sandve,Bujie Zhan,Heidi Rudiet al. Science, 2014, 345 (6194), pp.287-287. ⟨10.1126/science.1250091⟩ Article dans une revue hal-02889033v1
Ancient hybridizations among the ancestral genomes of bread wheat T. Marcussen,S. Sandve,L. Heier,M. Spannagl,M. Pfeiferet al. Science, 2014, 345 (6194), pp.1250092-1250092. ⟨10.1126/science.1250092⟩ Article dans une revue hal-02889053v1
A chromosome-based draft sequence of the hexaploid bread wheat (Triticum aestivum) genome . International Wheat Genome Sequencing Consortium (iwgsc),Michael M. Alaux,Françoise F. Alfama-Depauw,Frédéric Choulet,Loïc Coudercet al. Science, 2014, 345 (6194), pp.1251788. ⟨10.1126/science.1251788⟩ Article dans une revue hal-02640843v1
Organization and evolution of transposable elements along the bread wheat chromosome 3B Josquin Daron,Natasha Glover,Lise Pingault,Sébastien Theil,Véronique Jamillouxet al. Genome Biology, 2014, 15 (12), pp.1-15. ⟨10.1186/s13059-014-0546-4⟩ Article dans une revue hal-02630315v1
A high density physical map of chromosome 1BL supports evolutionary studies, map-based cloning and sequencing in wheat Romain Philippe,Etienne Paux,Isabelle Bertin,Pierre Sourdille,Frédéric Chouletet al. Genome Biology, 2013, 14 (6), ⟨10.1186/gb-2013-14-6-r64⟩ Article dans une revue hal-01189907v1
Wheat centromeric retrotransposons: the new ones take a major role in centromeric structure Baochun B. Li,Frédéric Choulet,Yanfang Y. Heng,Weiwei W. Hao,Etienne Pauxet al. The Plant Journal, 2013, 73 (6), pp.952-965. ⟨10.1111/tpj.12086⟩ Article dans une revue hal-00964447v1
dbWFA: a web-based database for functional annotation of Triticum aestivum transcripts Jonathan J. Vincent,Zhanwu Z. Dai,Catherine Ravel,Frédéric Choulet,Saïd S. Mouzeyaret al. Database - The journal of Biological Databases and Curation, 2013, 2013, 12 p. ⟨10.1093/database/bat014⟩ Article dans une revue hal-00964169v1
A high density physical map of chromosome 1BL supports evolutionary studies, map-based cloning and sequencing in wheat Romain Philippe,Etienne Paux,Isabelle Bertin,Pierre Sourdille,Frédéric Chouletet al. Genome Biology, 2013, 14 (6), pp.R64. ⟨10.1186/gb-2013-14-6-r64⟩ Article dans une revue hal-04198495v1
TriAnnot: A Versatile and High Performance Pipeline for the Automated Annotation of Plant Genomes. Philippe Leroy,Nicolas Guilhot,Hiroaki Sakai,Aurélien Bernard,Frédéric Chouletet al. Frontiers in Plant Science, 2012, 3, pp.5. ⟨10.3389/fpls.2012.00005⟩ Article dans une revue hal-00753407v1
Whole Genome Profiling provides a robust framework for physical mapping and sequencing in the highly complex and repetitive wheat genome Romain Philippe,Frédéric Choulet,Etienne Paux,Jan van Oeveren,Jifeng Tanget al. BMC Genomics, 2012, 13, ⟨10.1186/1471-2164-13-47⟩ Article dans une revue hal-01190822v1
Intraspecific sequence comparisons reveal similar rates of non-collinear gene insertion in the B and D genomes of bread wheat Jan Bartos,Cestmir Vlcek,Frédéric Choulet,Maria Dzunkova,Katerina Cvikovaet al. BMC Plant Biology, 2012, 12, ⟨10.1186/1471-2229-12-155⟩ Article dans une revue hal-01190732v1
Genome-level identification of cell wall invertase genes in wheat for the study of drought tolerance Hollie H. Webster,Gabriel G. Keeble,Bernard B. Dell,John J. Fosu-Nyarko,Y. Y. Mukaiet al. Functional Plant Biology, 2012, 39 (7), pp.569 - 579. ⟨10.1071/FP12083⟩ Article dans une revue hal-00964353v1
Frequent Gene Movement and Pseudogene Evolution Is Common to the Large and Complex Genomes of Wheat, Barley, and Their Relatives Thomas T. Wicker,Klaus F. X. K. F. X. Mayer,Heidrun H. Gundlach,Mihaela M. Martis,Burkhard B. Steuernagelet al. The Plant cell, 2011, 23 (5), pp.1706 - 1718. ⟨10.1105/tpc.111.086629⟩ Article dans une revue hal-00964455v1
A 3,000-Loci Transcription Map of Chromosome 3B Unravels the Structural and Functional Features of Gene Islands in Hexaploid Wheat Camille Rustenholz,Frédéric Choulet,Christel Laugier,Jan Šafář,Hana Šimkováet al. Plant Physiology, 2011, 157 (4), pp.1596-1608. ⟨10.1104/pp.111.183921⟩ Article dans une revue hal-04198534v1
Variation in crossover rates across a 3-Mb contig of bread wheat (Triticum aestivum) reveals the presence of a meiotic recombination hotspot Cyrille C. Saintenac,Sébastien S. Faure,Arnaud A. Remay,Frédéric Choulet,Catherine Ravelet al. Chromosoma Biology of the Nucleus, 2011, 120 (2), pp.185 - 198. ⟨10.1007/s00412-010-0302-9⟩ Article dans une revue istex hal-00964315v1
A 3,000-Loci transcription map of chromosome 3B unravels the structural and functional features of gene islands in hexaploid wheat Camille C. Rustenholz,Frédéric Choulet,Christel C. Laugier,Jan J. Safar,Hana H. Simkovaet al. Plant Physiology, 2011, 157 (4), pp.1596 - 1608. ⟨10.1104/pp.111.183921⟩ Article dans une revue hal-00964456v1
Insertion site-based polymorphism markers open new perspectives for genome saturation and marker-assisted selection in wheat Etienne Paux,Sébastien S. Faure,Frédéric Choulet,Delphine D. Roger,Valérie V. Gauthieret al. Plant Biotechnology Journal, 2010, 8 (2), pp.196-210. ⟨10.1111/j.1467-7652.2009.00477.x⟩ Article dans une revue hal-00964403v1
Megabase level sequencing reveals contrasted organization and evolution patterns of the wheat gene and transposable element spaces Frédéric Choulet,Thomas T. Wicker,Camille C. Rustenholz,Etienne Paux,Jerome Salseet al. The Plant cell, 2010, 22 (6), pp.1686-1701. ⟨10.1105/tpc.110.074187⟩ Article dans une revue hal-00964451v1
Specific patterns of gene space organisation revealed in wheat by using the combination of barley and wheat genomic resources Camille Rustenholz,Pete E. Hedley,Jenny Morris,Frédéric Choulet,Catherine Feuilletet al. BMC Genomics, 2010, 11, ⟨10.1186/1471-2164-11-714⟩ Article dans une revue hal-01189739v1
Genetic diversity and linkage disequilibrium studies on a 3.1-Mb genomic region of chromosome 3B in European and Asian bread wheat (Triticum aestivum L.) populations C.Y. C.Y. Hao,Marie-Reine M.-R. Perretant,Frédéric Choulet,L.F. L.F. Wang,Etienne Pauxet al. TAG Theoretical and Applied Genetics, 2010, 121 (7), pp.1209-1225. ⟨10.1007/s00122-010-1382-x⟩ Article dans une revue istex hal-00964128v1
Conjugative Transfer of the Integrative Conjugative Elements ICESt1 and ICESt3 from Streptococcus thermophilus Xavier Bellanger,Adam P Roberts,Catherine Morel,Frédéric Choulet,Guillaume Pavlovicet al. Journal of Bacteriology, 2009, 191 (8), pp.2764 - 2775. ⟨10.1128/JB.01412-08⟩ Article dans une revue hal-01659303v1
A Physical Map of the 1-Gigabase Bread Wheat Chromosome 3B Etienne Paux,Pierre Sourdille,Jerome J. Salse,Cyrille C. Saintenac,Frédéric Chouletet al. Science, 2008, 322 (5898), pp.101-104. ⟨10.1126/science.1161847⟩ Article dans une revue hal-00964135v1
Evolution of the terminal regions of the streptomyces linear chromosome Frédéric Choulet,Bertrand Aigle,Alexandre Gallois,Sophie Mangenot,Claude Gerbaudet al. Molecular Biology and Evolution, 2006, 23 (12), pp.2361-2369. ⟨10.1093/molbev/msl108⟩ Article dans une revue hal-02661267v1
Intraspecific Variability of the Terminal Inverted Repeats of the Linear Chromosome of Streptomyces ambofaciens Frédéric Choulet,Alexandre Gallois,B. Aigle,Sophie Mangenot,Claude Gerbaudet al. Journal of Bacteriology, 2006, 188 (18), pp.6599 - 6610. ⟨10.1128/JB.00734-06⟩ Article dans une revue hal-01659064v1
Characterization and evolution of a family of integrative and potentially conjugative or mobilizable elements from Streptococcus thermophilus Guillaume Pavlovic,Vincent Burrus,Alexandre Toulmay,Frédéric Choulet,Bernard Decariset al. Le Lait, 2004, 84 (1-2), pp.7-14. ⟨10.1051/lait:2003042⟩ Article dans une revue hal-00895527v1

Communication dans un congrès (55)

Preliminary Results from the IWGSC Wheat Diversity Project Joshua C Stein,Kevin Fengler,Victor Llaca,Elodie Belmonte,Vincent Pailleret al. PAG 33, Jan 2026, San diego, United States Communication dans un congrès hal-05518160v1
Wheat genomics of immunity using Kinnex™ Full-length RNAs Frédéric Choulet Colloque INRAE Genomics, Plateforme Gentyane, Jun 2025, Clermont-Ferrand, France Communication dans un congrès hal-05273176v1
Dynamics of transposable elements in the hexaploid wheat genome Frédéric Choulet Conference Jacques Monod - Evolutionary and ecological genomics of polyploidy in plants, Malika Ainouche, Jonathan Wendel, Sep 2025, Roscoff, France Communication dans un congrès hal-05273187v1
Sequencing complex genomes of Triticeae Frédéric Choulet Pacbio PRISM 2024, Pacbio, Apr 2024, Lisbonne, Portugal Communication dans un congrès hal-04584678v1
CONTROLLING HOMOLOGOUS AND HOMOEOLOGOUS RECOMBINATION IN BREAD WHEAT TO ENHANCE THE DEVELOPMENT OF ORIGINAL AND PRODUCTIVE WHEAT VARIETIES Pierre Sourdille,Heïdi Serra,Jeanne Bazile,Chiara Di Dio,Isabelle Nadaudet al. International Wheat Conference, Encanta Events, Sep 2024, Perth, Australia Communication dans un congrès hal-04747803v1
Wheat genome sequence Frédéric Choulet RegeneCrop Meeting, UMR GDEC, INRAE-UCA, Jun 2023, Clermont-Ferrand, France Communication dans un congrès hal-04603994v1
Sequencing complex genomes of wheat wild relatives Frédéric Choulet,Vincent Pailler Gentyane Revio Launch Day, Pacbio, Dec 2023, Clermont-Ferrand, France Communication dans un congrès hal-04565559v1
Sequencing the genome of the French wheat variety Renan Frédéric Choulet IWGSC Webinar, IWGSC - International Wheat Genome Sequencing Consortium, Sep 2022, Clermont-Ferrand, France Communication dans un congrès hal-04090088v1
Genome Bioinformatics at GDEC Frédéric Choulet AuBi-NGS Annual Meeting, AuBi - Auvergne Bioinformatique, Dec 2022, Clermont-Ferrand, France Communication dans un congrès hal-04090099v1
Annotation des gènes et des éléments transposables chez le blé Frédéric Choulet Rencontres Science et Partenariat, Plant2Pro Institut Carnot, Jun 2022, Paris, France Communication dans un congrès hal-04603981v1
Sequencing, annotation, and pangenomics in wheat Frédéric Choulet Webinaire de l'AFBV, Association Française des Biotechnologies Végétales, May 2022, Clermont-Ferrand, France Communication dans un congrès hal-04090082v1
IWGSC RefSeq v2.1 Annotation Frédéric Choulet Plant and Animal Genome 2020, Sherago, Jan 2020, San diego (Californie), United States Communication dans un congrès hal-04603973v1
Structural Variations and Dynamics of Transposable Elements in the Wheat Genome Frédéric Choulet Journée Pangénomique Végétale, GIS Biologie Végétale, Jul 2019, Paris, France Communication dans un congrès hal-04603988v1
Dynamics of transposable elements in the 16 Gb hexaploid wheat genome Frédéric Choulet Congrès National des Eléments Transposables (CNET) 2018, Jul 2018, Clermont-Ferrand, France Communication dans un congrès hal-02293544v1
Dynamics of transposable elements in the 16 Gb hexaploid wheat genome Frédéric Choulet Journée annotation structurale et fonctionnelle des génomes eukaryotes, Nov 2018, Paris, France Communication dans un congrès hal-02786910v1
The reference sequence for the bread wheat genome Frédéric Choulet PAG XXVI - Plant and Animal Genome Conference, Jan 2018, San Diego, United States Communication dans un congrès hal-02786732v1
The IWGSC Data repository and wheat data resources hosted at URGI: Overview and perspectives Michael Alaux,Jane Rogers,Thomas Letellier,Raphaël Flores,Cyril Pommieret al. PAG XXVI - Plant and Animal Genome Conference, Jan 2018, San Diego, United States. pp.32 slides Communication dans un congrès hal-02788401v1
Challenges of gene and repeat annotation of the wheat genome sequence Frédéric Choulet Plant and Animal Genome XXV Conference; IWGSC Standards and Protocoles Workshop, 2017, San Diego, CA, United States Communication dans un congrès hal-02340462v1
Identifying sequence features impacting recombination in wheat: lessons from chromosome 3B Pierre Sourdille,Benoît Darrier,Frédéric Choulet,François Balfourier,Hélène Rimbertet al. 13. Int. Wheat Genet. Symp, Apr 2017, Tulln, France Communication dans un congrès hal-02340493v1
The IWGSC Reference genome browser, data mining and beyond Michael Alaux,Thomas Letellier,Françoise Alfama Depauw,Jane Rogers,Frédéric Chouletet al. PAG XXV - Plant and Animal Genome Conference, Jan 2017, San Diego, United States Communication dans un congrès hal-02788141v1
Bread wheat whole genome sequence assembly Frédéric Choulet Colloque EPGV 2016, Détection Gestion et Analyse du Polymorphisme des Génomes Végétaux, Oct 2016, Angers, France Communication dans un congrès hal-02306175v1
Positional cloning of a QTL, qDHY.3BL, on chromosome 3BL for drought and heat tolerance in bread wheat Pauline M.L. Thomelin,Julien Bonneau,Julian D. Taylor,Frédéric Choulet,Pierre Sourdilleet al. Plant and Animal Genomie Conference XXIV, Jan 2016, San Diego, United States Communication dans un congrès hal-02340444v1
Unlocking the cross-incompatibility between wheat and rye? Véronique Lesage,Walid Alfares,Tanja Gerjets,Sonia Vautrin,Helene Bergeset al. 24. International Congress on Sexual Plant Reproduction, International Association of Sexual Plant Reproduction Research (IASPRR). RUS., Mar 2016, Tucson, United States Communication dans un congrès hal-02795864v1
Assessing structural variations of the hexaploid wheat genome Frédéric Choulet Plant and Animal Genome XXIV Conference; Trticeae Genetics and Genomics Workshop, Jan 2016, San Diego, CA, United States Communication dans un congrès hal-02299630v1
Structure and dynamics of the hexaploid wheat genome Frédéric Choulet TGAC Seminar, Genome Analysis Centre (TGAC). GBR., Jan 2016, Norwich, United Kingdom Communication dans un congrès hal-02340474v1
Sequencing and Analysis of Wheat Chromosome 1B Frédéric Choulet,Hélène Rimbert,Ambre-Aurore Josselin,Benoît Darrier,Pierre Sourdilleet al. Plant and Animal Genome XXIV Conference; IWGSC Standards and Protocoles Workshop, Jan 2016, San Diego, United States Communication dans un congrès hal-02306172v1
Exploitation of the 5BS physical map to complete the SKr crossability locus Véronique Lesage,Frédéric Choulet,Sonia Vautrin,Elena A. Salina,Marie-Claire Deboteet al. 24. Plant and Animal Genome Conference (PAG XXIV), Scherago International Inc. USA., Jan 2016, San Diego, United States. 1 p Communication dans un congrès hal-02796150v1
Overview of Actual and Ancestral Recombination in Relationship with the Sequence in Wheat: Focus on 3B Chromosome Benoît Darrier,Alain Loussert,Hélène Rimbert,Julien Navarro,Frédéric Chouletet al. Plant and Animals Genomics Conference XXIV / Recombination Mechanism Workshop, Jan 2016, San Diego, United States Communication dans un congrès hal-02340468v1
IWGSC Sequence Repository: Moving towards tools to facilitate data integration for the reference sequence of wheat Michael Alaux,Thomas Letellier,Françoise Alfama-Depauw,Véronique Jamilloux,Jane Rogerset al. PAG XXIV - Plant and Animal Genome Conference, Jan 2016, San Diego, United States Communication dans un congrès hal-01266518v1
Wheat genome sequencing: initiatives, resources, knowledge Frédéric Choulet Séminaire du Groupe Céréales, Institut National de Recherche Agronomique (INRA). UMR Génétique Diversité et Ecophysiologie des Céréales (1095)., Apr 2015, Clermont-Ferrand, France Communication dans un congrès hal-02795895v1
A reference sequence of bread wheat chromosome 3B Frédéric Choulet JOBIM Journées Ouvertes en Biologie, Informatique et Mathématiques, Université d'Auvergne - Clermont-Ferrand I (UdA). FRA., Jul 2015, Clermont-Ferrand, France Communication dans un congrès hal-02299635v1
Structure and evolution of the wheat genome Frédéric Choulet Seminar GReD, Feb 2015, Clermont-Ferrand, France Communication dans un congrès hal-02299625v1
IWGSC sequence repository : how to facilitate pseudomolecule assembly? Michael M. Alaux,Frédéric Choulet,Loïc Couderc,Françoise F. Alfama-Depauw,Véronique Jamillouxet al. PAG XXIII - Plant and Animal Genome Conference, Jan 2015, San Diego, United States Communication dans un congrès hal-02741662v1
Structural variations of the hexaploid wheat chromosome 3B Emeric Dynomant,Hélène Rimbert,Jan Vrána,Marie Kubaláková,Jaroslav Dolezelet al. 9. International Wheat Conference, ICMS Australasia. AUS., Sep 2015, Sydney, Australia. 195 p Communication dans un congrès hal-02740939v1
A reference sequence of wheat chromosome 3B Frédéric Choulet,Adriana A. Alberti,Sébastien Theil,Natasha Marie Glover,Valérie Barbeet al. 3. Plant Genomics Congress, May 2015, London, United Kingdom Communication dans un congrès hal-02740971v1
Characterization of recombination hot spots in bread wheat: Example of chromosome 3B Benoît Darrier,Alain Loussert,Hélène Rimbert,Marie-Claire Debote,Frédéric Chouletet al. Workshop Series DynaGeV (Dynamique des Génomes Végétaux), May 2015, Toulouse, France Communication dans un congrès hal-01318721v1
Structural variations along the bread wheat genome Frédéric Choulet 3. Plant Genomics Congress, May 2015, London, United Kingdom Communication dans un congrès hal-02740167v1
A reference sequence of wheat chromosome 3B F. Choulet Séminaire du Département de Biologie et Amélioration des Plantes, Apr 2014, Pont Royal en Provence, France Communication dans un congrès hal-02797269v1
The IWGSC: Strategies and activities to sequence the bread wheat genome Frédéric Choulet Plant Genomes' Day, Institut National de Recherche Agronomique (INRA). US Centre National de Ressources Génomiques Végétales (1258)., Jun 2014, Toulouse, France Communication dans un congrès hal-02795856v1
A reference sequence of wheat chromosome 3B Frédéric Choulet,Adriana A. Alberti,Sébastien Theil,Natasha Marie Glover,Valérie Barbeet al. 22. Conference on Plant and Animal Genome, Jan 2014, San Diego, United States Communication dans un congrès hal-02742303v1
Impact des caractéristiques de la séquence sur la localisation des points chauds de recombinaison et la répartition du déséquilibre de liaison le long du chromosome 3B du blé tendre Benoît Darrier,Alain Loussert,Marie-Claire Debote,François Balfourier,Frédéric Chouletet al. Séminaire Selgen, Dec 2014, Paris, France Communication dans un congrès hal-02340473v1
Assembling a pseudomolecule for a wheat chromosome: the 3B experience Frédéric Choulet,Adriana A. Alberti,Valérie Barbe,Sébastien Theil,Pierre Sourdilleet al. 22. Conference on Plant and Animal Genome, Jan 2014, San Diego, United States Communication dans un congrès hal-02743902v1
Séquençage, assemblage et analyse du chromosome 3B du blé tendre Frédéric Choulet Séminaire INRIA Symbiose, Institut National de Recherche en Informatique et en Automatique (INRIA). FRA., Feb 2013, Rennes, France Communication dans un congrès hal-02744514v1
Sequencing and Assembling a Reference Sequence of the 1 Gb Wheat Chromosome 3B Frédéric Choulet,Sébastien Theil,Josquin Daron,Natasha Marie Glover,Nicolas N. Guilhotet al. IWGSC Wheat Genome Sequencing Strategy and Funding Workshop, International Wheat Genome Sequencing Consortium (IWGSC). USA., Apr 2013, Evry, France Communication dans un congrès hal-02747374v1
A strategy to assemble a reference sequence of the 1 Gb wheat chromosome 3B Frédéric Choulet,Sébastien Theil,Josquin Daron,Natasha Marie Glover,Nicolas N. Guilhotet al. TGAC/ESF-LESC workshop, Strategies for de novo assemblies of complex crop genomes, Genome Analysis Centre (TGAC). Norwich, GBR., Oct 2012, Norwich, United Kingdom Communication dans un congrès hal-02809032v1
Towards a reference sequence of the 1 Gb wheat chromosome 3B Frédéric Choulet,Sébastien Theil,Adriana A. Alberti,Valérie Barbe,Sophie Mangenotet al. 16. Annual Advances in Genome Biology and Technology (AGBT), Feb 2012, Marco Island, United States Communication dans un congrès hal-02807639v1
Report on sequencing the wheat chromosome 3B Frédéric Choulet,Patrick Wincker,Hadi Quesneville,Dominique D. Brunel,Bikram S. Gillet al. 19. Plant and Animal Genome Conference, Jan 2011, San Diego, Californie, United States. 1 p Communication dans un congrès hal-02808854v1
Sequencing and Analyses of the Hexaploid Wheat Chromosome 3B Frédéric Choulet,P. Wincker,Hadi Quesneville,Dominique D. Brunel,B. Gillet al. 19. Conference on Plant and Animal Genome, Jan 2011, San Diego, CA, United States Communication dans un congrès hal-02747876v1
Sequencing and molecular analysis of a 12 cM locus carrying multiple durable disease resistance genes on chromosome 3BS in hexaploid wheat Frédéric Choulet,Catherine C. Feuillet Séminaire Génoplante 2010, Mar 2010, Mallemort de Provence, France Communication dans un congrès hal-02812696v1
Sequencing and analyses of the hexaploid wheat chromosome 3B Frédéric Choulet,Etienne Paux,Philippe Leroy,Arnaud Couloux,Michaël Alauxet al. 10. conference on Genome Informatics, Sep 2010, Hinxton, United Kingdom Communication dans un congrès hal-02753841v1
Towards sequencing the 1 Gb wheat chromosome 3B Frédéric Choulet,Etienne Paux,Philippe Leroy,Pierre Sourdille,Stéphane Schlubet al. 1. Workshop of StatSeq COST Action TD0801, Oct 2009, Barcelona, Spain Communication dans un congrès hal-02818225v1
Sequencing, annotation and characterization of 17 Mb of chromosome 3B contigs provide novel insights into the wheat genome organization and evolution Frédéric Choulet,Etienne Paux,Jerome J. Salse,Philippe Leroy,Ghislaine Magdelenatet al. 19. International Triticeae Mapping Initiative - 3rd COST Tritigen, 2009, Clermont-Ferrand, France Communication dans un congrès hal-02818223v1
The wheat genome: swimming in an ocean of transposable elements Frédéric Choulet,Thomas Wicker,Etienne Paux,Cyrille C. Saintenac,Pierre Sourdilleet al. ICTE 2008: International Congress on Transposable Elements, Apr 2008, Saint Malo, France Communication dans un congrès hal-02820796v1
Sequencing and analysis of megabase-sized genomic regions from wheat Frédéric Choulet,Thomas Wicker,Etienne Paux,Cyrille C. Saintenac,Pierre Sourdilleet al. 16. Plant and Animal Genome Conference, Jan 2008, San Diego, Californie, United States Communication dans un congrès hal-02820795v1
Sequence analyses of Megabase-sized contigs of the wheat genome Frédéric Choulet,Philippe Leroy,Franck Giacomoni,Jerome J. Salse,Etienne Pauxet al. 2. Workshop on TritiGEN. COST Action FA604, Apr 2008, Albena, Bulgaria Communication dans un congrès hal-02818229v1

Poster de conférence (13)

BReIF: une e-infrastructure pour accélérer l'utilisation de ressources biologiques diversifiées Anne-Françoise Adam-Blondon,Christine Gaspin,Michèle Tixier-Boichard,Hélène Chiapello,Frédéric Chouletet al. Trans Numériques 2026, Feb 2026, Rennes, France. Poster de conférence hal-05514911v1
Preliminary Results from the IWGSC Wheat Diversity Project Joshua C Stein,Catalina Johnson,Victor Llaca,Kevin Fengler,Isabelle Caugantet al. PAG 33, Jan 2026, San Diego, United States Poster de conférence hal-05519131v1
IWGSC 2.0: Wheat Genome Curation for Future Crop Resilience The International Wheat Genome Sequencing Consortium Catalina Johnson,Joshua C Stein,Victor Llaca,Kevin Fengler,Isabelle Caugantet al. PAG32, 2025, San Diego, United States Poster de conférence hal-05519247v1
A Strategy for Balanced Haplotype-Resolved De Novo Assembly of the Autotetraploid Genome of Medicago sativa Adela Poublan-Couzardot,Bernadette Julier,Marie Pégard,Simon De Givry,Christine Gaspinet al. JOBIM 2025 (Journées ouvertes de Bio-Informatique 2025), Jul 2025, Bordeaux, France Poster de conférence hal-05208435v1
Analyse de diversité d'un panel de pré-breeding de blé tendre par une approche transcriptomique Hélène Rimbert,Frédéric Choulet,Odile Argillier,Jérôme Auzanneau,Mark Daveyet al. 9 ème rencontres du FSOV -2024, Apr 2024, Paris, France Poster de conférence hal-04712172v1
IWGSC 2.0: Implementing the Wheat Diversity Project Joshua C Stein,Victor Llaca,Kevin Fengler,Catalina Johnson,Isabelle Caugantet al. PAG 2024 Australia, Sep 2024, Perth, Australia Poster de conférence hal-04913949v1
Deciphering strucutral variation in wheat genome using resequencing data Romain de Oliveira,Emeric Dynomant,Hélène Rimbert,Jaroslav Dolezel,Federica Cattonaroet al. PAG XXVI - Plant and Animal Genome Conference, Jan 2018, San Diego, United States. , 2018 Poster de conférence hal-02787820v1
Linking genomic and epigenomic features in the hexaploid wheat genome Caroline Juéry,Etienne Paux,Frédéric Choulet 2. International Wheat Innovation Workshop, Mar 2018, Clermont-Ferrand, France. , 2018 Poster de conférence hal-02293572v1
Impact of meiotic recombination on gene admixture for wheat improvement Benoît Darrier,Frédéric Choulet,Natasha Marie Glover,Adriana A. Alberti,Sébastien Theilet al. 9. International Wheat Conference, Sep 2015, Sydney, Australia. 195 p., 2015, 9th International Wheat Conference 20-25 September 2015, Sydney, Australia : Program and Abstracts Poster de conférence hal-02741010v1
SKr, a major QTL involved in crossability of wheat with rye Véronique S. Lesage,Walid Alfares,Tanja Gerjets,Sonia S. Vautrin,Helene H. Bergeset al. 23. congress on Sexual Plant Reproduction, Jul 2014, Porto, Portugal. 2014 Poster de conférence hal-02800353v1
The TriAnnot pipeline and its application to the wheat chromosome 3B annotation Aurélien Bernard,Nicolas N. Guilhot,Frédéric Choulet,Lise Pingault,Josquin Daronet al. European Conference on Computational Biology, Sep 2014, Strasbourg, France. , 2014, European Conference on Computational Biology Poster de conférence hal-02738964v1
SMART: Sequencing and molecular analysis of a 12 cM locus carrying multiple durable disease resistance genes on chromosome 3BS in hexaploid wheat Frédéric Choulet,Etienne Paux,Bikram Gill,Rudi Appels,Beat Kelleret al. Séminaire GENOPLANTE 2008, 2008, Arles, France. , 2008 Poster de conférence hal-02820797v1
Evidence for a High Heterogeneity Between the Terminal Regions of the Chromosomes of Two Phylogenetically Close Species, Streptomyces ambofaciens and Streptomyces coelicolor by Genome Comparison Frédéric Choulet,Bertrand Aigle,F. X. Francou,Alexandre Gallois,Céline Fourrieret al. Streptomyces dissemination meeting, Jul 2003, Guilford, United Kingdom. 2003, Streptomyces dissemination meeting Poster de conférence hal-01182814v1

Chapitre d'ouvrage (2)

Structural and Functional Annotation of the Wheat Genome Frédéric Choulet,Xi Wang,Manuel Spannagl,David Swarbreck,Hélène Rimbertet al. Rudi Appels, Kellye Eversole, Catherine Feuillet, Dusti Gallagher. The Wheat Genome, Springer International Publishing, pp.51-73, 2024, Compendium of Plant Genomes, ⟨10.1007/978-3-031-38294-9_4⟩ Chapitre d'ouvrage hal-04297331v1
The Wheat Black Jack : advances towards sequencing the 21 chromosomes of the bread wheat genome Frédéric Choulet,Mario Caccamo,Jon Wright,Michael M. Alaux,Philippe Leroyet al. Genomics of Plant Genetic Resources, Editions Springer, 704 p., 2014, 978-94-007-7571-8. ⟨10.1007/978-94-007-7572-5_17⟩ Chapitre d'ouvrage hal-02797297v1

Rapport (1)

DéBAT : Analyse de Diversité d'un panel de pré-breeding de Blé tendre par une approche Transcriptomique-projet FSOV 2018 M Hélène Rimbert,Frédéric Choulet,Odile Argillier,Jerome Auzanneau,Mark Daveyet al. INRAE. 2024 Rapport (rapport contrat/projet) hal-04713932v1

Thèse (1)

Evolution du génome des Streptomyces : transfert horizontal et variabilité des extrémités chromosomiques Frédéric Choulet Génomique, Transcriptomique et Protéomique [q-bio.GN]. Université Henri Poincaré - Nancy 1, 2006. Français. ⟨NNT : 2006NAN10122⟩ Thèse tel-01754311v1

Logiciel (1)

Pan1c (Pangenome at chromosome level) Alexis Mergez,Martin Racoupeau,Christophe Klopp,Christine Gaspin,Fabrice Legeaiet al. 2024, ⟨swh:1:dir:c0488c055238c5436ecd16007b018041b52be37c;origin=https://hal.archives-ouvertes.fr/hal-05034842;visit=swh:1:snp:181d70393b5e0afaaeb079e5f3aea770378d1427;anchor=swh:1:rel:23b2f168566f279e7605b4db88d4a7c140f04985;path=/⟩ Logiciel hal-05034842v1