Florent Murat

Publications

Article dans une revue (45)

Parent-of-origin regulation by maternal auts2 shapes neurodevelopment and behavior in fish Antoine Clement,Constance Merdrignac,Sergi Roig Puiggros,Dorine Sévère,Aurélien Brionneet al. Genome Biology, 2025, 26 (1), pp.125. ⟨10.1186/s13059-025-03600-y⟩ Article dans une revue hal-05079847v1
Gene duplication contributes to liver evolution Francisca Hervas-Sotomayor,Florent Murat Nature Ecology & Evolution, 2024, ⟨10.1038/s41559-024-02509-2⟩ Article dans une revue hal-04677357v1
FEVER: an interactive web-based resource for evolutionary transcriptomics across fishes Jérôme Montfort,Francisca Hervas-Sotomayor,Aurélie Le Cam,Florent Murat Nucleic Acids Research, 2024, 52 (W1), pp.W65-W69. ⟨10.1093/nar/gkae264⟩ Article dans une revue hal-04537581v1
Cellular development and evolution of the mammalian cerebellum Mari Sepp,Kevin Leiss,Florent Murat,Konstantin Okonechnikov,Piyush Joshiet al. Nature, 2024, 625, pp.788-796. ⟨10.1038/s41586-023-06884-x⟩ Article dans une revue hal-04315980v1
The molecular evolution of spermatogenesis across mammals Florent Murat,Noe Mbengue,Sofia Boeg Winge,Timo Trefzer,Evgeny Leushkinet al. Nature, 2023, 613, pp.308-316. ⟨10.1038/s41586-022-05547-7⟩ Article dans une revue hal-03910315v1
A lamprey neural cell type atlas illuminates the origins of the vertebrate brain Francesco Lamanna,Francisca Hervas-Sotomayor,A. Phillip Oel,David Jandzik,Daniel Sobrido-Cameánet al. Nature Ecology & Evolution, 2023, ⟨10.1038/s41559-023-02170-1⟩ Article dans une revue hal-04208085v1
Mapping pediatric brain tumors to their origins in the developing cerebellum Konstantin Okonechnikov,Piyush Joshi,Mari Sepp,Kevin Leiss,Ioannis Sarropouloset al. Neuro-Oncology, 2023, 25 (10), pp.1895-1909. ⟨10.1093/neuonc/noad124⟩ Article dans une revue hal-04181467v1
auts2 Features and Expression Are Highly Conserved during Evolution despite Different Evolutionary Fates Following Whole Genome Duplication Constance Merdrignac,Antoine Clement,Jérôme Montfort,Florent Murat,Julien Bobe Cells, 2022, 11 (17), pp.2694. ⟨10.3390/cells11172694⟩ Article dans une revue hal-03777731v1
Exploring the rapid evolution of the mammalian testis Noe Mbengue,Florent Murat Nature, 2022, ⟨10.1038/d41586-022-04221-2⟩ Article dans une revue hal-03910316v1
Oak genome reveals facets of long lifespan Christophe Plomion,Jean-Marc Aury,Joelle Amselem,Thibault Leroy,Florent Muratet al. Nature Plants, 2018, 4 (7), pp.440-452. ⟨10.1038/s41477-018-0172-3⟩ Article dans une revue hal-01820559v1
The Physcomitrella patens chromosome-scale assembly reveals moss genome structure and evolution Daniel Lang,Kristian Ullrich,Florent Murat,Jörg Fuchs,Jerry Jenkinset al. The Plant Journal, 2018, 93 (3), pp.515 - 533. ⟨10.1111/tpj.13801⟩ Article dans une revue hal-01760352v1
Reconstructing the genome of the most recent common ancestor of flowering plants Florent Murat,Alix Armero Villanueva,Caroline Pont,Christophe Klopp,Jerome Salse Nature Genetics, 2017, 49, pp.490-496. ⟨10.1038/ng.3813⟩ Article dans une revue hal-01605642v1
The sunflower genome provides insights into oil metabolism, flowering and Asterid evolution Hélène Badouin,Jerome Gouzy,Christopher Grassa,Florent Murat,S Evan Statonet al. Nature, 2017, 546 (7656), pp.148-152. ⟨10.1038/nature22380⟩ Article dans une revue hal-01603287v1
Reconciling the evolutionary origin of bread wheat (Triticum aestivum) Moaine El Baidouri,Florent Murat,Maeva Veyssière,Mélanie Molinier,Raphaël-Gauthier Floreset al. New Phytologist, 2016, 213 (3), ⟨10.1111/nph.14113⟩ Article dans une revue hal-01361976v1
Erratum to :&quot;Understanding Brassicaceae evolution through ancestral genome reconstruction&quot; (vol 16, 262, 2015) Florent Murat,Alexandra Louis,Florian Maumus,Alix Armero,Richard Cookeet al. Genome Biology, 2016, 17 (64), ⟨10.1186/s13059-016-0887-2⟩ Article dans une revue hal-02630062v1
Evidence of intense chromosomal shuffling during conifer evolution Marina de Miguel,Jérôme Bartholome,François Ehrenmann,Florent Murat,Yoshinari Moriguchiet al. Genome Biology and Evolution, 2015, 7 (10), pp.evv185. ⟨10.1093/gbe/evv185⟩ Article dans une revue hal-02285512v1
GenomicusPlants: a web resource to study genome evolution in flowering plants Alexandra Louis,Florent Murat,Jerome Salse,Hugues Roest Crollius Plant and Cell Physiology, 2015, 56 (1), pp.e4. ⟨10.1093/pcp/pcu177⟩ Article dans une revue hal-01168460v1
The oak gene expression atlas: insights into Fagaceae genome evolution and the discovery of genes regulated during bud dormancy release Isabelle Lesur,Grégoire G. Le Provost,Pascal Bento,Corinne da Silva,Jean-Charles Lepléet al. BMC Genomics, 2015, 16 (1), pp.112. ⟨10.1186/s12864-015-1331-9⟩ Article dans une revue hal-02285504v1
FRIZZY PANICLE drives supernumerary spikelets in bread wheat (T. aestivum L.) Oxana Dobrovolskaya,Caroline Pont,Richard Sibout,Petr Martinek,Ekaterina Badaevaet al. Plant Physiology, 2015, 167 (1), pp.189-199. ⟨10.1104/pp.114.250043⟩ Article dans une revue hal-01204099v1
Decoding the oak genome: public release of sequence data, assembly, annotation and publication strategies. Christophe Plomion,Jean-Marc Aury,Joëlle Amselem,Tina Alaeitabar,Valérie Barbeet al. Molecular Ecology Resources, 2015, 16 (1), pp.254-265. ⟨10.1111/1755-0998.12425⟩ Article dans une revue istex hal-01579667v1
Understanding Brassicaceae evolution through ancestral genome reconstruction Florent Murat,Alexandra Louis,Florian Maumus,Alix Armero Villanueva,Richard Cookeet al. Genome Biology, 2015, 16 (262), ⟨10.1186/s13059-015-0814-y⟩ Article dans une revue hal-01281832v1
Karyotype and Gene Order Evolution from ReconstructedExtinct Ancestors Highlight Contrasts in Genome Plasticity ofModern Rosid Crops Florent Murat,Rongzhi R. Zhang,Sébastien Guizard,Haris Gavranovic,Raphael Floreset al. Genome Biology and Evolution, 2015, 7 (3), pp.735-749. ⟨10.1093/gbe/evv014⟩ Article dans une revue hal-01133906v1
The genome of Eucalyptus grandis Alexander Myburg,Dario Grattapaglia,Gerald Tuskan,Uffe Hellsten,Richard Hayeset al. Nature, 2014, 510 (7505), pp.356-362. ⟨10.1038/nature13308⟩ Article dans une revue hal-02285478v1
Paleo-evolutionary plasticity of plant disease resistance genes Rongzhi R. Zhang,Florent Murat,Caroline Pont,Thierry Langin,Jerome Salse BMC Genomics, 2014, 15 (1), pp.187. ⟨10.1186/1471-2164-15-187⟩ Article dans une revue hal-02285469v1
Paleogenomics in Triticeae for translational research Florent Murat,Caroline Pont,Jérôme Salse Current Plant Biology, 2014, 1, pp.34-39. ⟨10.1016/j.cpb.2014.08.003⟩ Article dans une revue hal-02285486v1
Sequencing of diverse mandarin, pummelo and orange genomes reveals complex history of admixture during citrus domestication G Albert Wu,Simon Prochnik,Jerry Jenkins,Jérôme Salse,Uffe Hellstenet al. Nature Biotechnology, 2014, 32 (7), pp.656-662. ⟨10.1038/nbt.2906⟩ Article dans une revue hal-02285484v1
The draft genome of watermelon (Citrullus lanatus) and resequencing of 20 diverse accessions Shaogui Guo,Jianguo Zhang,Honghe Sun,Jerome Salse,William J. Lucaset al. Nature Genetics, 2013, 45 (1), pp.51 - U82. ⟨10.1038/ng.2470⟩ Article dans une revue hal-01190670v1
Wheat syntenome unveils new evidences of contrasted evolutionary plasticity between paleo- and neoduplicated subgenomes Caroline C. Pont,Florent Murat,Sébastien S. Guizard,Raphaël-Gauthier R.-G. Flores,Séverine S. Foucrieret al. The Plant Journal, 2013, pp.1-29. ⟨10.1111/tpj.12366⟩ Article dans une revue hal-00964421v1
Shared subgenome dominance following polyploidization explains grass genome evolutionary plasticity from a seven protochromosome ancestor with 16K protogenes. Florent Murat,Rongzhi Zhang,Sébastien Guizard,Raphael Flores,Alix Armeroet al. Genome Biology and Evolution, 2013, 6 (1), pp.12-33 Article dans une revue hal-01218128v1
Shared sub-genome dominance following polyploidization explains grass genome evolutionary plasticity from a 7 protochromosome ancestor with 16K protogenes Florent Murat,Rongzhi R. Zhang,Sébastien S. Guizard,Raphaël-Gauthier R.-G. Flores,Alix A. Armero Villanuevaet al. Genome Biology and Evolution, 2013, 6 (1), pp.12-33. ⟨10.1093/gbe/evt200⟩ Article dans une revue hal-00964190v1
Comparative mapping in the Fagaceae and beyond with EST-SSRs Catherine Bodenes-Brezard Bodénès,Emilie E. Chancerel,Oliver O. Gailing,Giovanni G. G. G. Vendramin,Francesca F. Bagnoliet al. BMC Plant Biology, 2012, 12 (153), 40 p. ⟨10.1186/1471-2229-12-153⟩ Article dans une revue hal-00964224v1
Grass MicroRNA Gene Paleohistory Unveils New Insights into Gene Dosage Balance in Subgenome Partitioning after Whole-Genome Duplication Michaël M. Abrouk,Rongzhi R. Zhang,Florent Murat,Aili A. Li,Caroline C. Pontet al. The Plant cell, 2012, 24 (5), pp.1776 - 1792. ⟨10.1105/tpc.112.095752⟩ Article dans une revue hal-00964371v1
Decoding Plant and Animal Genome Plasticity from Differential Paleo-Evolutionary Patterns and Processes Florent Murat,Yves Y. van de Peer,Jerome J. Salse Genome Biology and Evolution, 2012, 4 (9), pp.917 - 928. ⟨10.1093/gbe/evs066⟩ Article dans une revue hal-00964328v1
Deciphering the genomic structure, function and evolution of carotenogenesis related phytoene synthases in grasses Bianca Dibari,Florent Murat,Audrey Chosson,Véronique Gautier,Charles C. Poncetet al. BMC Genomics, 2012, 13 (1), pp.221. ⟨10.1186/1471-2164-13-221⟩ Article dans une revue hal-02285438v1
Combined meta-genomics analyses unravel candidate genes for the grain dietary fiber content in bread wheat (Triticum aestivum L.) Umar Masood Quraishi Masood-Quraishi,Florent Murat,Michaël M. Abrouk,Caroline C. Pont,Carole C. Confolentet al. Functional and Integrative Genomics, 2011, 11 (1), pp.71 - 83. ⟨10.1007/s10142-010-0183-2⟩ Article dans une revue istex hal-00964164v1
RNA-seq in grain unveils fate of neo- and paleopolyploidization events in bread wheat (Triticum aestivum L.) Caroline Pont,Florent Murat,Carole Confolent,Sandrine Balzergue,Jerome Salse Genome Biology, 2011, 12 (12), ⟨10.1186/gb-2011-12-12-r119⟩ Article dans une revue hal-01190508v1
Translational Genomics in Legumes Allowed Placing In Silico 5460 Unigenes on the Pea Functional Map and Identified Candidate Genes in Pisum sativum L. Amandine A. Bordat,Vincent V. Savois,Marie M. Nicolas,Jerome J. Salse,Aurelie A. Chauveauet al. G3, 2011, 1 (juillet), pp.93-103. ⟨10.1534/g3.111.000349⟩ Article dans une revue hal-00964213v1
Unlocking the barley genome by chromosomal and comparative genomics Klaus F. X. K. F. X. Mayer,Mihaela M. Martis,Pete E. P. E. Hedley,Hana H. Simkova,Hui H. Liuet al. The Plant cell, 2011, 23 (4), pp.1249-1263. ⟨10.1105/tpc.110.082537⟩ Article dans une revue hal-00964348v1
The genome of Theobroma cacao. Xavier Argout,Jerome Salse,Jean-Marc Aury,Mark J Guiltinan,Gaetan Drocet al. Nature Genetics, 2011, 43 (2), pp.101-8. ⟨10.1038/ng.736⟩ Article dans une revue hal-00855922v1
Cross-genome map based dissection of a nitrogen use efficiency ortho-metaQTL in bread wheat unravels concerted cereal genome evolution Umar Masood Quraishi Masood-Quraishi,Michaël M. Abrouk,Florent Murat,Caroline C. Pont,Séverine S. Foucrieret al. The Plant Journal, 2011, 65 (5), pp.745 - 756. ⟨10.1111/j.1365-313X.2010.04461.x⟩ Article dans une revue hal-00964149v1
Ancestral grass karyotype reconstruction unravels new mechanisms of genome shuffling as a source of plant evolution. Florent Murat,Jian-Hong Xu,Eric Tannier,Michael Abrouk,Nicolas Guilhotet al. Genome Research, 2010, 20 (11), pp.1545-57. ⟨10.1101/gr.109744.110⟩ Article dans une revue hal-00680636v1
Bioinformatic analysis of ESTs collected by Sanger and pyrosequencing methods for a keystone forest tree species: oak. Saneyoshi Ueno,Grégoire Le Provost,Valérie Léger,Christophe Klopp,Céline Noirotet al. BMC Genomics, 2010, 11, pp.650. ⟨10.1186/1471-2164-11-650⟩ Article dans une revue hal-00645933v1
Genome sequencing and analysis of the model grass Brachypodium distachyon Jerome J. Salse,Florent Murat,Michaël M. Abrouk,Elisabeth E.J. Chapman,Richard Siboutet al. Nature, 2010, 463, pp.763-768. ⟨10.1038/nature08747⟩ Article dans une revue hal-00964370v1
Palaeogenomics of plants: synteny-based modelling of extinct ancestors. Michael Abrouk,Florent Murat,Caroline Pont,Joachim Messing,Scott Jacksonet al. Trends in Plant Science, 2010, 15 (9), pp.479-87. ⟨10.1016/j.tplants.2010.06.001⟩ Article dans une revue istex hal-00681093v1
Improved criteria and comparative genomics tool provide new insights into grass paleogenomics Jerome J. Salse,Michaël M. Abrouk,Florent Murat,Umar Masood Quraishi Masood-Quraishi,Catherine C. Feuillet Briefings in Bioinformatics, 2009, 10 (6), pp.619-630. ⟨10.1093/bib/bbp037⟩ Article dans une revue hal-00964321v1

Pré-publication, Document de travail (7)

The evolution of gene regulatory programs controlling gonadal development in primates Nils Trost,Amir Fallahshahroudi,Ioannis Sarropoulos,Céline Schneider,Julia Schmidtet al. 2025 Pré-publication, Document de travail hal-05134895v1
FEVER: An interactive web-based resource for evolutionary transcriptomics across fishes Jérôme Montfort,Francisca Hervas-Sotomayor,Aurélie Le Cam,Florent Murat 2024 Pré-publication, Document de travail hal-04536177v1
Autism-related gene intergenerationally regulates neurodevelopment and behavior in fish through non-genetic mechanisms Antoine Clement,Constance Merdrignac,Sergi Ruig Puiggros,Aurélien Brionne,Thuy Thao Vi Nguyenet al. 2024 Pré-publication, Document de travail (preprint/prepublication) hal-04693265v1
Reconstructing the ancestral vertebrate brain using a lamprey neural cell type atlas Francesco Lamanna,Francisca Hervas-Sotomayor,A. Phillip Oel,David Jandzik,Daniel Sobrido-Cameánet al. 2022 Pré-publication, Document de travail hal-03593464v1
The molecular evolution of spermatogenesis across mammals Florent Murat,Noe Mbengue,Sofia Boeg Winge,Timo Trefzer,Evgeny Leushkinet al. 2022 Pré-publication, Document de travail hal-03516462v1
Mapping pediatric brain tumors to their origins in the developing cerebellum Konstantin Okonechnikov,Piyush Joshi,Mari Sepp,Kevin Leiss,Ioannis Sarropouloset al. 2022 Pré-publication, Document de travail (preprint/prepublication) hal-03516521v1
Cellular development and evolution of the mammalian cerebellum Mari Sepp,Kevin Leiss,Ioannis Sarropoulos,Florent Murat,Konstantin Okonechnikovet al. 2022 Pré-publication, Document de travail hal-03516528v1

Communication dans un congrès (13)

Evolution of Gene Content and Expression Following Various Whole Genome Duplication Events in Vertebrates Jérôme Monfort,Francisca Hervas-Sotomayor,Aurélie Le Cam,Florent Murat Congress of the European Society for Evolutionary Biology (ESEB) 2025, Aug 2025, Barcelone, Spain Communication dans un congrès hal-05233267v1
The Role of Sperm Competition and Genome Duplication in Cell Type Diversity in Fish Gonads Francisca Hervas-Sotomayor,Jérôme Montfort,Aurélie Le Cam,Florent Murat The Congress of the European Society for Evolutionary Biology (ESEB) 2025, Aug 2025, Barcelone, Spain Communication dans un congrès hal-05233434v1
Sex Determination in Medaka (Oryzias latipes): When Epigenetics Overrides Genetic Determinants Alexandra Depince,Florent Murat,Violette Thermes,Aurélien Brionne,Manfred Schartlet al. 3. European Symposium on Sex Determination in Vertebrates, Nov 2024, La colle sur Loup, France Communication dans un congrès hal-04780055v1
Transgenerational inheritance of DNA methylation alterations after gdf6b+/- -induced sex reversal in the medaka (Oryzias latipes) Alexandra Depince,Florent Murat,Violette Thermes,Aurélien Brionne,Manfred Schartlet al. IX. International Workshop on the Biology of Fish Gametes, Jul 2024, Leon, Spain Communication dans un congrès hal-04657868v1
Challenging the paradigm of an amniote-restricted mesonephric contribution to the gonad. -of the pronephric field contribution to the gonads in teleosts Alexandra Depince,Fanny Blanc,Claudia Bevilacqua,Florent Murat,Manfred Schartlet al. European Symposium on Sex Determination in Vertebrates (ESSDV), Nov 2024, Vence, France Communication dans un congrès hal-04780403v1
The molecular evolution of spermatogenesis across mammals Florent Murat ReproSciences, May 2023, Paris, France Communication dans un congrès hal-04093483v1
Integrating TGF-β signalling pathways and epigenetic modulations for controlling sex determination in medaka Amaury Herpin,Alexandra Depince,Florent Murat,Mateus Adolfi,Jérôme Montfortet al. 9. International Symposium on the Biology of Vertebrate Sex Determination, Apr 2023, Kona, Big Island, Hawaii, United States Communication dans un congrès hal-04089746v1
The molecular evolution of spermatogenesis across mammals Florent Murat 2. European Symposium on Sex Determination in Vertebrates, Oct 2022, Hyères, France Communication dans un congrès hal-03910317v1
Integrating TGF-beta signalling pathways and epigenetic modulations for controlling sex determination in medaka Alexandra Depince,Florent Murat,Mateus Contar Adolfi,Violette Thermes,Yann Guiguenet al. 2. European Symposium on Sex Determination in Vertebrates, Oct 2022, Giens, France Communication dans un congrès hal-03833209v1
An integrated information system dedicated to oak genomics and genetics Joëlle Amselem,Nicolas Francillonne,Célia Michotey,Thomas Letellier,Jean-Marc Auryet al. PAG XXVI Plant and Animal Genome Conference, Jan 2018, San Diego, United States. pp.27 slides Communication dans un congrès hal-01839185v1
Oak genome sequencing and evolution Jerome J. Salse,Jean Marc Aury,Florent Murat,Sébastien Faye,Karine Labadieet al. Genomics and Forest Tree Genetics Conference, Institut National de Recherche Agronomique (INRA). UMR Biodiversité, Gènes et Communautés (1202)., May 2016, Arcachon, France. 134 p Communication dans un congrès hal-02741698v1
Evidence of intense chromosomal shuffling during conifer evolution Marina de Miguel,Jérôme Bartholome,François Ehrenmann,Florent Murat,Yoshinari Moriguchiet al. ProCoGen final open conference, Promoting Conifer Genomic Resources, Nov 2015, Orléans, France. 75 p Communication dans un congrès hal-02741312v1
Bioinformatic analysis of Sanger and 454 ESTs in oak Saneyoshi S. Ueno,Grégoire G. Le Provost,Valérie V. Léger,Christophe Klopp,Celine C. Noirotet al. Conference on Forest Ecosystem Genomics and Adaptation, Jun 2010, Madrid, Spain. pp.73 Communication dans un congrès hal-00964385v1

Poster de conférence (3)

Investigating the role of gene duplication in fish phenotypic evolution Jérôme Montfort,Yann Guiguen,Florent Murat The evolution of animal genomes / EMBO workshop, Sep 2023, Sevilla, Spain Poster de conférence hal-04320410v1
auts2 expression is highly conserved during evoluion despite different evolutionary fates following whole genome duplication Constance Merdrignac,Antoine Clement,Jérôme Montfort,Florent Murat,Julien Bobe International Congres on the Biology of Fish, Jun 2022, Montpellier, France Poster de conférence hal-03777897v1
From whole-genome scans for divergence to the discovery of speciation genes in oaks Thibault Leroy,Jean Marc Aury,Catherine Bodenes-Brezard Bodénès,Laure Villate,Grégoire G. Le Provostet al. 15. Congress of the European Society for Evolutionary Biology (ESEB), Aug 2015, Lausanne, Switzerland. , 1 p., 2015 Poster de conférence hal-02797182v1

Brevet (1)

Improvement of the grain filling of wheat through the modulation of NADH-glutamate synthase activity Jerome Salse,Umar Masood Quraishi,Caroline C. Pont,Florent Murat,Jacques Le Gouiset al. France, Patent n° : WO/2011/095958. 2010 Brevet hal-02809507v1

Thèse (1)

Etude de la plasticité évolutive et structurale des génomes de plantes Florent Murat Sciences du Vivant [q-bio]. Université Blaise Pascal (Clermont Ferrand 2), 2016. Français. ⟨NNT : ⟩ Thèse tel-02796944v1

HDR (1)

From Genomes to Organs and Cell Types: Exploring Evolutionary Trajectories Across Species Florent Murat Life Sciences [q-bio]. Université de Rennes, 2025 HDR tel-05178158v1