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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⟩
Journal articles hal-03658639v1
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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⟩
Journal articles hal-02622009v1

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
Conference papers hal-02293544v1

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⟩
Journal articles hal-02904006v1

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⟩
Journal articles hal-02633712v1

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
Conference papers hal-02299635v1
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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
Conference papers hal-02809032v1

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
Conference papers hal-02340462v1
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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.
Journal articles hal-03766369v1
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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⟩
Journal articles hal-02635440v1
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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⟩
Journal articles hal-01244498v1
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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
Conference papers hal-02818223v1

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
Conference papers hal-02299630v1
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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.
Plant Journal, 2021, ⟨10.1111/tpj.15289⟩
Journal articles hal-03285883v1
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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⟩
Journal articles hal-01659064v1
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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
Conference papers hal-02747876v1
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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⟩
Journal articles hal-02917729v1

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
Conference papers hal-02786910v1
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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⟩
Journal articles hal-02172516v1

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⟩
Journal articles hal-01885399v1
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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
Conference papers hal-02741662v1
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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
Conference papers hal-02742303v1
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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⟩
Journal articles hal-03740520v1

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 communications hal-02820797v1
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Transcriptome and Allele Specificity Associated with a 3BL Locus for Fusarium 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⟩
Journal articles hal-02637351v1
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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⟩
Journal articles hal-02638189v1

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⟩
Journal articles hal-02635778v1
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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⟩
Journal articles hal-02633053v1

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
Conference papers hal-02795856v1
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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)
Journal articles hal-02269561v1