FC

Frédéric Choulet

127
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Affiliation actuelle
  • Génétique Diversité et Ecophysiologie des Céréales (GDEC)
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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.


Compétences

Bioinformatics Genomics Evolution Plant Science

Publications

Publications

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TaRECQ4 contributes to maintain both homologous and homoeologous recombination during wheat meiosis

Jeanne Bazile , Isabelle Nadaud , Pauline Lasserre-Zuber , Jonathan Kitt , Romain de Oliveira et al.
Frontiers in Plant Science, 2024, 14, ⟨10.3389/fpls.2023.1342976⟩
Article dans une revue hal-04488399 v1
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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 Kolmer et al.
Plant Biotechnology Journal, 2024, pp.1-15. ⟨10.1111/pbi.14470⟩
Article dans une revue hal-04707299 v1
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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 Paux et al.
Plant Genome, 2023, 16 (1), ⟨10.1002/tpg2.20296⟩
Article dans une revue hal-04090043 v1
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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 Paux et al.
Plant Genome, 2023, ⟨10.1002/tpg2.20347⟩
Article dans une revue hal-04143737 v1
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Capturing Wheat Phenotypes at the Genome Level

Babar Hussain , Bala A Akpınar , Michael Alaux , Ahmed M Algharib , Deepmala Sehgal et al.
Frontiers in Plant Science, 2022, 13, ⟨10.3389/fpls.2022.851079⟩
Article dans une revue hal-03740520 v1
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Location and Identification on Chromosome 3B of Bread Wheat of Genes Affecting Chiasma Number

Benoit Darrier , Isabelle Colas , Hélène Rimbert , Frédéric Choulet , Jeanne Bazile et al.
Article dans une revue hal-03766369 v1
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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-Zuber et al.
GigaScience, 2022, 11, pp.1-18. ⟨10.1093/gigascience/giac034⟩
Article dans une revue hal-03658639 v1
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New insights into homoeologous copy number variations in the hexaploid wheat genome

Caroline Juery , Lorenzo Concia , Romain de Oliveira , Nathan Papon , Ricardo Ramírez‐gonzález et al.
Plant Genome, 2021, 14 (1), pp.e20069. ⟨10.1002/tpg2.20069⟩
Article dans une revue hal-03084292 v1
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Optical maps refine the bread wheat Triticum aestivum cv. Chinese Spring genome assembly

Tingting Zhu , Le Wang , Hélène Rimbert , Juan Rodriguez , Karin Deal et al.
The Plant Journal, 2021, ⟨10.1111/tpj.15289⟩
Article dans une revue hal-03285883 v1

Deciphering carbohydrate metabolism during wheat grain development via integrated transcriptome and proteome dynamics

Ayesha Tahir , Jun Kang , Frédéric Choulet , Catherine Ravel , Isabelle Romeuf et al.
Molecular Biology Reports, 2020, 47 (7), pp.5439-5449. ⟨10.1007/s11033-020-05634-w⟩
Article dans une revue (article de synthèse) hal-02904006 v1
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Structural variations affecting genes and transposable elements of chromosome 3B in wheats

Romain de Oliveira , Hélène Rimbert , François Balfourier , Jonathan Kitt , Emeric Dynomant et al.
Frontiers in Genetics, 2020, 11, 891/15 p. ⟨10.3389/fgene.2020.00891⟩
Article dans une revue hal-02917729 v1
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Worldwide phylogeography and history of wheat genetic diversity

François Balfourier , Sophie Bouchet , Sandra Robert , Romain de Oliveira , Hélène Rimbert et al.
Science Advances , 2019, 5 (5), pp.eaav0536. ⟨10.1126/sciadv.aav0536⟩
Article dans une revue hal-02172516 v1
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Annotation, classification, genomic organization and expression of the Vitis vinifera CYPome

T Ilc , Gautier Arista , Raquel Tavares , Nicolas Navrot , Eric Duchêne et al.
PLoS ONE, 2018, 13 (6)
Article dans une revue hal-02269561 v1

The transcriptional landscape of polyploid wheat

R. H. Ramírez-González , P. Borrill , D. Lang , S. A. Harrington , J. Brinton et al.
Science, 2018, 361 (6403), pp.eaar6089. ⟨10.1126/science.aar6089⟩
Article dans une revue hal-02629204 v1
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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 Alfama et al.
Genome Biology, 2018, 19 (1), pp.905-911. ⟨10.1186/s13059-018-1491-4⟩
Article dans une revue hal-02278879 v1
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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 Hayden et al.
Genome Biology, 2018, 19, 18 p. ⟨10.1186/s13059-018-1475-4⟩
Article dans une revue hal-01869898 v1
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Annotation, classification, genomic organization and expression of the Vitis vinifera CYPome

Tina Ilc , Gautier Arista , Raquel Tavares , Nicolas Navrot , Eric Duchêne et al.
PLoS ONE, 2018, 13 (6), pp.e0199902. ⟨10.1371/journal.pone.0199902⟩
Article dans une revue inserm-02270765 v1
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Impact of transposable elements on genome structure and evolution in bread wheat

Thomas Wicker , Heidrun Gundlach , Manuel Spannagl , Cristobal Uauy , Philippa Borrill et al.
Genome Biology, 2018, 19 (1), ⟨10.1186/s13059-018-1479-0⟩
Article dans une revue hal-02624812 v1

Shifting the limits in wheat research and breeding using a fully annotated reference genome

Rudi Appels , Kellye Eversole , Nils Stein , Catherine Feuillet , Beat Keller et al.
Science, 2018, 361 (6403), ⟨10.1126/science.aar7191⟩
Article dans une revue hal-04331004 v1
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High throughput SNP discovery and genotyping in hexaploid wheat

Hélène Rimbert , Benoît Darrier , Julien Navarro , Jonathan Kitt , Frédéric Choulet et al.
PLoS ONE, 2018, 13 (1), pp.1-19. ⟨10.1371/journal.pone.0186329⟩
Article dans une revue hal-02628543 v1

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 Alaux et al.
Science, 2018, 361 (6403), pp.7191. ⟨10.1126/science.aar7191⟩
Article dans une revue hal-01885399 v1
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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 Seng et al.
Frontiers in Plant Science, 2018, 9, pp.1853. ⟨10.3389/fpls.2018.01853⟩
Article dans une revue hal-02159611 v1

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 Josselin et al.
Genetics, 2017, 206 (3), pp.1373-1388. ⟨10.1534/genetics.116.196014⟩
Article dans une revue hal-04686468 v1
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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-02622009 v1

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-02618951 v1

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. Laugier et al.
PLANT GENOME, 2016, 9 (1), ⟨10.3835/plantgenome2015.09.0078⟩
Article dans une revue hal-02635405 v1
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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 Fetch et al.
PLoS ONE, 2016, 11 (6), pp.1-16. ⟨10.1371/journal.pone.0157029⟩
Article dans une revue hal-01608811 v1
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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 Paux et al.
Genome Biology, 2015, 16 (188), ⟨10.1186/s13059-015-0754-6⟩
Article dans une revue hal-01244498 v1
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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 Wincker et al.
Genome Biology, 2015, 16 (1), n.p. ⟨10.1186/s13059-015-0601-9⟩
Article dans une revue hal-02635440 v1
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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 Feng et al.
BMC Genomics, 2015, 16 (850), 7 p. ⟨10.1186/s12864-015-2105-0⟩
Article dans une revue hal-02637545 v1
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QTug.sau-3B Is a Major Quantitative Trait Locus for Wheat Hexaploidization

Ming Hao , Jiangtao Luo , Deying Zeng , Li Zhang , Shunzong Ning et al.
G3, 2014, 4 (10), pp.1943-1953. ⟨10.1534/g3.114.013078⟩
Article dans une revue hal-02633053 v1
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Transcriptome and Allele Specificity Associated with a 3BL Locus for <em>Fusarium</em> Crown Rot Resistance in Bread Wheat

Jian Ma , Jiri Stiller , Qiang Zhao , Qi Feng , Colin Cavanagh et al.
PLoS ONE, 2014, 9 (11), ⟨10.1371/journal.pone.0113309⟩
Article dans une revue hal-02637351 v1
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Structural and Functional Partitioning of Bread Wheat Chromosome 3B

Frédéric Choulet , Adriana A. Alberti , Sébastien Theil , Natasha Marie Glover , Valérie Barbe et al.
Science, 2014, 345 (6194), ⟨10.1126/science.1249721⟩
Article dans une revue hal-02638189 v1

Genotyping by sequencing transcriptomes in an evolutionary pre-breeding durum wheat population

Jacques David , Yan Holtz , Vincent Ranwez , Sylvain Santoni , Gautier Sarah et al.
Molecular Breeding, 2014, 34 (4), pp.1531-1548. ⟨10.1007/s11032-014-0179-z⟩
Article dans une revue hal-01123443 v1

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 Paux et al.
TAG Theoretical and Applied Genetics, 2014, 127 (3), pp.573-586. ⟨10.1007/s00122-013-2240-4⟩
Article dans une revue hal-02633712 v1
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Meiotic Gene Evolution: Can You Teach a New Dog New Tricks?

Andrew Lloyd , Marion Ranoux , Sonia S. Vautrin , Natasha Marie Glover , Joëlle Fourment et al.
Molecular Biology and Evolution, 2014, 31 (7), pp.1724-1727. ⟨10.1093/molbev/msu119⟩
Article dans une revue hal-02635778 v1

Genome interplay in the grain transcriptome of hexaploid bread wheat

Matthias Pfeifer , Karl G. Kugler , Simen R. Sandve , Bujie Zhan , Heidi Rudi et al.
Science, 2014, 345 (6194), pp.287-287. ⟨10.1126/science.1250091⟩
Article dans une revue hal-02889033 v1

Ancient hybridizations among the ancestral genomes of bread wheat

T. Marcussen , S. Sandve , L. Heier , M. Spannagl , M. Pfeifer et al.
Science, 2014, 345 (6194), pp.1250092-1250092. ⟨10.1126/science.1250092⟩
Article dans une revue hal-02889053 v1

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 Couderc et al.
Science, 2014, 345 (6194), pp.1251788. ⟨10.1126/science.1251788⟩
Article dans une revue hal-02640843 v1
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Organization and evolution of transposable elements along the bread wheat chromosome 3B

Josquin Daron , Natasha Glover , Lise Pingault , Sébastien Theil , Véronique Jamilloux et al.
Genome Biology, 2014, 15 (12), pp.1-15. ⟨10.1186/s13059-014-0546-4⟩
Article dans une revue hal-02630315 v1

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 Paux et al.
The Plant Journal, 2013, 73 (6), pp.952-965. ⟨10.1111/tpj.12086⟩
Article dans une revue hal-00964447 v1
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dbWFA: a web-based database for functional annotation of Triticum aestivum transcripts

Jonathan J. Vincent , Zhanwu Z. Dai , Catherine Ravel , Frédéric Choulet , Saïd S. Mouzeyar et al.
Database - The journal of Biological Databases and Curation, 2013, 2013, 12 p. ⟨10.1093/database/bat014⟩
Article dans une revue hal-00964169 v1
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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 Choulet et al.
Genome Biology, 2013, 14 (6), ⟨10.1186/gb-2013-14-6-r64⟩
Article dans une revue hal-01189907 v1

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 Choulet et al.
Genome Biology, 2013, 14 (6), pp.R64. ⟨10.1186/gb-2013-14-6-r64⟩
Article dans une revue hal-04198495 v1
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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 Tang et al.
BMC Genomics, 2012, 13, ⟨10.1186/1471-2164-13-47⟩
Article dans une revue hal-01190822 v1
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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 Cvikova et al.
BMC Plant Biology, 2012, 12, ⟨10.1186/1471-2229-12-155⟩
Article dans une revue hal-01190732 v1
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TriAnnot: A Versatile and High Performance Pipeline for the Automated Annotation of Plant Genomes.

Philippe Leroy , Nicolas Guilhot , Hiroaki Sakai , Aurélien Bernard , Frédéric Choulet et al.
Frontiers in Plant Science, 2012, 3, pp.5. ⟨10.3389/fpls.2012.00005⟩
Article dans une revue hal-00753407 v1

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. Mukai et al.
Functional Plant Biology, 2012, 39 (7), pp.569 - 579. ⟨10.1071/FP12083⟩
Article dans une revue hal-00964353 v1

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. Steuernagel et al.
The Plant cell, 2011, 23 (5), pp.1706 - 1718. ⟨10.1105/tpc.111.086629⟩
Article dans une revue hal-00964455 v1

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 Šimková et al.
Plant Physiology, 2011, 157 (4), pp.1596-1608. ⟨10.1104/pp.111.183921⟩
Article dans une revue hal-04198534 v1

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 Ravel et al.
Chromosoma, 2011, 120 (2), pp.185 - 198. ⟨10.1007/s00412-010-0302-9⟩
Article dans une revue istex hal-00964315 v1
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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. Simkova et al.
Plant Physiology, 2011, 157 (4), pp.1596 - 1608. ⟨10.1104/pp.111.183921⟩
Article dans une revue hal-00964456 v1

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. Gauthier et al.
Plant Biotechnology Journal, 2010, 8 (2), pp.196-210. ⟨10.1111/j.1467-7652.2009.00477.x⟩
Article dans une revue hal-00964403 v1
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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 Feuillet et al.
BMC Genomics, 2010, 11, ⟨10.1186/1471-2164-11-714⟩
Article dans une revue hal-01189739 v1
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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 Salse et al.
The Plant cell, 2010, 22 (6), pp.1686-1701. ⟨10.1105/tpc.110.074187⟩
Article dans une revue hal-00964451 v1

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 Paux et al.
TAG Theoretical and Applied Genetics, 2010, 121 (7), pp.1209-1225. ⟨10.1007/s00122-010-1382-x⟩
Article dans une revue istex hal-00964128 v1
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Conjugative Transfer of the Integrative Conjugative Elements ICESt1 and ICESt3 from Streptococcus thermophilus

Xavier Bellanger , Adam P Roberts , Catherine Morel , Frédéric Choulet , Guillaume Pavlovic et al.
Journal of Bacteriology, 2009, 191 (8), pp.2764 - 2775. ⟨10.1128/JB.01412-08⟩
Article dans une revue hal-01659303 v1

A Physical Map of the 1-Gigabase Bread Wheat Chromosome 3B

Etienne Paux , Pierre Sourdille , Jerome J. Salse , Cyrille C. Saintenac , Frédéric Choulet et al.
Science, 2008, 322 (5898), pp.101-104. ⟨10.1126/science.1161847⟩
Article dans une revue hal-00964135 v1

Evolution of the terminal regions of the streptomyces linear chromosome

Frédéric Choulet , Bertrand Aigle , Alexandre Gallois , Sophie Mangenot , Claude Gerbaud et al.
Molecular Biology and Evolution, 2006, 23 (12), pp.2361-2369. ⟨10.1093/molbev/msl108⟩
Article dans une revue hal-02661267 v1
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Intraspecific Variability of the Terminal Inverted Repeats of the Linear Chromosome of Streptomyces ambofaciens

Frédéric Choulet , Alexandre Gallois , B. Aigle , Sophie Mangenot , Claude Gerbaud et al.
Journal of Bacteriology, 2006, 188 (18), pp.6599 - 6610. ⟨10.1128/JB.00734-06⟩
Article dans une revue hal-01659064 v1
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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 Decaris et al.
Le Lait, 2004, 84 (1-2), pp.7-14. ⟨10.1051/lait:2003042⟩
Article dans une revue hal-00895527 v1
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Sequencing complex genomes of Triticeae

Frédéric Choulet
Pacbio PRISM 2024, Pacbio, Apr 2024, Lisbonne, Portugal
Communication dans un congrès hal-04584678 v1
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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 Nadaud et al.
International Wheat Conference, Encanta Events, Sep 2024, Perth, Australia
Communication dans un congrès hal-04747803 v1

Wheat genome sequence

Frédéric Choulet
RegeneCrop Meeting, UMR GDEC, INRAE-UCA, Jun 2023, Clermont-Ferrand, France
Communication dans un congrès hal-04603994 v1

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-04565559 v1
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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-04090088 v1
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Genome Bioinformatics at GDEC

Frédéric Choulet
AuBi-NGS Annual Meeting, AuBi - Auvergne Bioinformatique, Dec 2022, Clermont-Ferrand, France
Communication dans un congrès hal-04090099 v1

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-04603981 v1
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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-04090082 v1

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-04603973 v1

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-04603988 v1

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-02293544 v1

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-02786910 v1

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-02786732 v1
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The IWGSC Data repository and wheat data resources hosted at URGI: Overview and perspectives

Michael Alaux , Jane Rogers , Thomas Letellier , Raphaël Flores , Cyril Pommier et al.
PAG XXVI - Plant and Animal Genome Conference, Jan 2018, San Diego, United States. pp.32 slides
Communication dans un congrès hal-02788401 v1

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-02340462 v1

The IWGSC Reference genome browser, data mining and beyond

Michael Alaux , Thomas Letellier , Françoise Alfama Depauw , Jane Rogers , Frédéric Choulet et al.
PAG XXV - Plant and Animal Genome Conference, Jan 2017, San Diego, United States
Communication dans un congrès hal-02788141 v1

Identifying sequence features impacting recombination in wheat: lessons from chromosome 3B

Pierre Sourdille , Benoît Darrier , Frédéric Choulet , François Balfourier , Hélène Rimbert et al.
13. Int. Wheat Genet. Symp, Apr 2017, Tulln, France
Communication dans un congrès hal-02340493 v1

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-02306175 v1

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 Sourdille et al.
Plant and Animal Genomie Conference XXIV, Jan 2016, San Diego, United States
Communication dans un congrès hal-02340444 v1

Unlocking the cross-incompatibility between wheat and rye?

Véronique Lesage , Walid Alfares , Tanja Gerjets , Sonia Vautrin , Helene Berges et 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-02795864 v1

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-02299630 v1

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-02340474 v1

Sequencing and Analysis of Wheat Chromosome 1B

Frédéric Choulet , Hélène Rimbert , Ambre-Aurore Josselin , Benoît Darrier , Pierre Sourdille et al.
Plant and Animal Genome XXIV Conference; IWGSC Standards and Protocoles Workshop, Jan 2016, San Diego, CA, United States
Communication dans un congrès hal-02306172 v1

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 Rogers et al.
PAG XXIV - Plant and Animal Genome Conference, Jan 2016, San Diego, United States
Communication dans un congrès hal-01266518 v1

Exploitation of the 5BS physical map to complete the SKr crossability locus

Véronique Lesage , Frédéric Choulet , Sonia Vautrin , Elena A. Salina , Marie-Claire Debote et 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-02796150 v1

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 Choulet et al.
Plant and Animals Genomics Conference XXIV / Recombination Mechanism Workshop, Jan 2016, San Diego, United States
Communication dans un congrès hal-02340468 v1

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-02299635 v1

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-02795895 v1

Structure and evolution of the wheat genome

Frédéric Choulet
Seminar GReD, Feb 2015, Clermont-Ferrand, France
Communication dans un congrès hal-02299625 v1
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IWGSC sequence repository : how to facilitate pseudomolecule assembly?

Michael M. Alaux , Frédéric Choulet , Loïc Couderc , Françoise F. Alfama-Depauw , Véronique Jamilloux et al.
PAG XXIII - Plant and Animal Genome Conference, Jan 2015, San Diego, United States
Communication dans un congrès hal-02741662 v1

A reference sequence of wheat chromosome 3B

Frédéric Choulet , Adriana A. Alberti , Sébastien Theil , Natasha Marie Glover , Valérie Barbe et al.
3. Plant Genomics Congress, May 2015, London, United Kingdom
Communication dans un congrès hal-02740971 v1

Structural variations of the hexaploid wheat chromosome 3B

Emeric Dynomant , Hélène Rimbert , Jan Vrána , Marie Kubaláková , Jaroslav Dolezel et al.
9. International Wheat Conference, ICMS Australasia. AUS., Sep 2015, Sydney, Australia. 195 p
Communication dans un congrès hal-02740939 v1

Characterization of recombination hot spots in bread wheat: Example of chromosome 3B

Benoît Darrier , Alain Loussert , Hélène Rimbert , Marie-Claire Debote , Frédéric Choulet et al.
Workshop Series DynaGeV (Dynamique des Génomes Végétaux), May 2015, Toulouse, France
Communication dans un congrès hal-01318721 v1

Structural variations along the bread wheat genome

Frédéric Choulet
3. Plant Genomics Congress, May 2015, London, United Kingdom
Communication dans un congrès hal-02740167 v1

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-02797269 v1

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-02795856 v1
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A reference sequence of wheat chromosome 3B

Frédéric Choulet , Adriana A. Alberti , Sébastien Theil , Natasha Marie Glover , Valérie Barbe et al.
22. Conference on Plant and Animal Genome, Jan 2014, San Diego, United States
Communication dans un congrès hal-02742303 v1
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Assembling a pseudomolecule for a wheat chromosome: the 3B experience

Frédéric Choulet , Adriana A. Alberti , Valérie Barbe , Sébastien Theil , Pierre Sourdille et al.
22. Conference on Plant and Animal Genome, Jan 2014, San Diego, Californie, United States
Communication dans un congrès hal-02743902 v1

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 Choulet et al.
Séminaire Selgen, Dec 2014, Paris, France
Communication dans un congrès hal-02340473 v1
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Sequencing and Assembling a Reference Sequence of the 1 Gb Wheat Chromosome 3B

Frédéric Choulet , Sébastien Theil , Josquin Daron , Natasha Marie Glover , Nicolas N. Guilhot et 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-02747374 v1
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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-02744514 v1
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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. Guilhot et 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-02809032 v1
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Towards a reference sequence of the 1 Gb wheat chromosome 3B

Frédéric Choulet , Sébastien Theil , Adriana A. Alberti , Valérie Barbe , Sophie Mangenot et al.
16. Annual Advances in Genome Biology and Technology (AGBT), Feb 2012, Marco Island, Floride, United States
Communication dans un congrès hal-02807639 v1
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Report on sequencing the wheat chromosome 3B

Frédéric Choulet , Patrick Wincker , Hadi Quesneville , Dominique D. Brunel , Bikram S. Gill et al.
19. Plant and Animal Genome Conference, Jan 2011, San Diego, Californie, United States. 1 p
Communication dans un congrès hal-02808854 v1
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Sequencing and Analyses of the Hexaploid Wheat Chromosome 3B

Frédéric Choulet , P. Wincker , Hadi Quesneville , Dominique D. Brunel , B. Gill et al.
19. Conference on Plant and Animal Genome, Jan 2011, San Diego, CA, United States
Communication dans un congrès hal-02747876 v1

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-02812696 v1
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Sequencing and analyses of the hexaploid wheat chromosome 3B

Frédéric Choulet , Etienne Paux , Philippe Leroy , Arnaud Couloux , Michaël Alaux et al.
10. conference on Genome Informatics, Sep 2010, Hinxton, United Kingdom
Communication dans un congrès hal-02753841 v1
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Towards sequencing the 1 Gb wheat chromosome 3B

Frédéric Choulet , Etienne Paux , Philippe Leroy , Pierre Sourdille , Stéphane Schlub et al.
1. Workshop of StatSeq COST Action TD0801, Oct 2009, Barcelona, Spain
Communication dans un congrès hal-02818225 v1
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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 Magdelenat et al.
19. International Triticeae Mapping Initiative - 3rd COST Tritigen, 2009, Clermont-Ferrand, France
Communication dans un congrès hal-02818223 v1
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The wheat genome: swimming in an ocean of transposable elements

Frédéric Choulet , Thomas Wicker , Etienne Paux , Cyrille C. Saintenac , Pierre Sourdille et al.
ICTE 2008: International Congress on Transposable Elements, Apr 2008, Saint Malo, France
Communication dans un congrès hal-02820796 v1
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Sequencing and analysis of megabase-sized genomic regions from wheat

Frédéric Choulet , Thomas Wicker , Etienne Paux , Cyrille C. Saintenac , Pierre Sourdille et al.
16. Plant and Animal Genome Conference, Jan 2008, San Diego, Californie, United States
Communication dans un congrès hal-02820795 v1
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Sequence analyses of Megabase-sized contigs of the wheat genome

Frédéric Choulet , Philippe Leroy , Franck Giacomoni , Jerome J. Salse , Etienne Paux et al.
2. Workshop on TritiGEN. COST Action FA604, Apr 2008, Albena, Bulgaria
Communication dans un congrès hal-02818229 v1
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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 Davey et al.
9 ème rencontres du FSOV -2024, Apr 2024, Paris, France
Poster de conférence hal-04712172 v1
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IWGSC 2.0: Implementing the Wheat Diversity Project

Joshua C Stein , Victor Llaca , Kevin Fengler , Catalina Johnson , Isabelle Caugant et al.
PAG 2024 Australia, Sep 2024, Perth, Australia
Poster de conférence hal-04913949 v1

Deciphering strucutral variation in wheat genome using resequencing data

Romain de Oliveira , Emeric Dynomant , Hélène Rimbert , Jaroslav Dolezel , Federica Cattonaro et al.
PAG XXVI - Plant and Animal Genome Conference, Jan 2018, San Diego, United States. , 2018
Poster de conférence hal-02787820 v1

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-02293572 v1

Impact of meiotic recombination on gene admixture for wheat improvement

Benoît Darrier , Frédéric Choulet , Natasha Marie Glover , Adriana A. Alberti , Sébastien Theil et 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-02741010 v1

SKr, a major QTL involved in crossability of wheat with rye

Véronique S. Lesage , Walid Alfares , Tanja Gerjets , Sonia S. Vautrin , Helene H. Berges et al.
23. congress on Sexual Plant Reproduction, Jul 2014, Porto, Portugal. 2014
Poster de conférence hal-02800353 v1

The TriAnnot pipeline and its application to the wheat chromosome 3B annotation

Aurélien Bernard , Nicolas N. Guilhot , Frédéric Choulet , Lise Pingault , Josquin Daron et al.
European Conference on Computational Biology, Sep 2014, Strasbourg, France. , 2014, European Conference on Computational Biology
Poster de conférence hal-02738964 v1

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 Keller et al.
Séminaire GENOPLANTE 2008, 2008, Arles, France. , 2008
Poster de conférence hal-02820797 v1

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 Fourrier et al.
Streptomyces dissemination meeting, Jul 2003, Guilford, United Kingdom. 2003, Streptomyces dissemination meeting
Poster de conférence hal-01182814 v1
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Structural and Functional Annotation of the Wheat Genome

Frédéric Choulet , Xi Wang , Manuel Spannagl , David Swarbreck , Hélène Rimbert et 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-04297331 v1

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 Leroy et 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-02797297 v1
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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-01754311 v1