Christophe KLOPP

389
Documents
Affiliation actuelle
  • Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)

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Publications

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Building a reliable 16S mini-barcode library of wild bees from Occitania, south-west of France

Anaïs Marquisseau , Kamila Canale-Tabet , Emmanuelle Labarthe , Géraldine Pascal , Christophe Klopp et al.
Biodiversity Data Journal, 2025, 13, pp.e137540. ⟨10.5883/DS-BCWBS16S⟩
Article dans une revue hal-04877671 v1
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Pig and quail CpG methylation datasets from short and long read sequencing technologies

Paul Terzian , Céline Vandecasteele , Joanna Lledo , Rémy-Félix Serre , Jules Sabban et al.
Scientific Data , 2025, 12 (1), pp.556. ⟨10.1038/s41597-025-04769-4⟩
Article dans une revue hal-05039144 v1
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Enriched atlas of lncRNA and protein-coding genes for the GRCg7b chicken assembly and its functional annotation across 47 tissues

Fabien Degalez , Mathieu Charles , Sylvain Foissac , Haijuan Zhou , Dailu Guan et al.
Scientific Reports, 2024, 14 (1), pp.6588. ⟨10.1038/s41598-024-56705-y⟩
Article dans une revue hal-04575157 v1
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Soluble CD14 produced by bovine mammary epithelial cells modulates their response to full length LPS

Mégane Védrine , Florence Gilbert , Sarah Maman , Christophe Klopp , Christophe Gitton et al.
Veterinary Research, 2024, 55 (1), pp.76. ⟨10.1186/s13567-024-01329-3⟩
Article dans une revue hal-04631265 v1
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Analysis of a shark reveals ancient, Wnt-dependent, habenular asymmetries in vertebrates

Maxence Lanoizelet , Léo Michel , Ronan Lagadec , Hélène Mayeur , Lucile Guichard et al.
Nature Communications, 2024, 15 (1), pp.10194. ⟨10.1038/s41467-024-54042-2⟩
Article dans une revue hal-04810399 v1
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Massive detection of cryptic recessive genetic defects in dairy cattle mining millions of life histories

Florian Besnard , Ana Guintard , Cécile Grohs , Laurence Guzylack-Piriou , Margarita Cano et al.
Genome Biology, 2024, 25 (1), pp.248. ⟨10.1186/s13059-024-03384-7⟩
Article dans une revue hal-04714371 v1
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The genome of the simultaneously hermaphroditic snail Lymnaea stagnalis reveals an evolutionary expansion of FMRFamide-like receptors

Joris M Koene , Daniel J. Jackson , Yumi Nakadera , Nicolas Cerveau , Mohammed‐amin Madoui et al.
Scientific Reports, 2024, 14 (1), pp.29213. ⟨10.1038/s41598-024-78520-1⟩
Article dans une revue hal-04465013 v2
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Multi-genome comparisons reveal gain-and-loss evolution of anti-Mullerian hormone receptor type 2 as a candidate master sex-determining gene in Percidae

Heiner Kuhl , Peter Euclide , Christophe Klopp , Cédric Cabau , Margot Zahm et al.
BMC Biology, 2024, 22 (1), pp.141. ⟨10.1186/s12915-024-01935-9⟩
Article dans une revue hal-04638789 v1
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A candidate sex determination locus in amphibians which evolved by structural variation between X- and Y-chromosomes

Heiner Kuhl , Wen Hui Tan , Christophe Klopp , Wibke Kleiner , Baturalp Koyun et al.
Nature Communications, 2024, 15 (1), pp.4781. ⟨10.1038/s41467-024-49025-2⟩
Article dans une revue hal-04814640 v1
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OROSOMUCOID PROTEIN 1 regulation of sphingolipid synthesis is required for nodulation in Aeschynomene evenia

Nico Nouwen , Marjorie Pervent , Franck El M’chirgui , Frédérique Tellier , Maëlle Rios et al.
Plant Physiology, 2024, 194, pp.1611 - 1630. ⟨10.1093/plphys/kiad642⟩
Article dans une revue hal-04531112 v1
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Adaptive gene loss in the common bean pan-genome during range expansion and domestication

Gaia Cortinovis , Leonardo Vincenzi , Robyn Anderson , Giovanni Marturano , Jacob Ian Marsh et al.
Nature Communications, 2024, 15 (1), pp.6698. ⟨10.1038/s41467-024-51032-2⟩
Article dans une revue hal-04718855 v1
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Insights into the molecular mechanisms of pesticide tolerance in the Aporrectodea caliginosa earthworm

Audrey Barranger , Christophe Klopp , Barbara Le Bot , Gaëlle Saramito , Lise Dupont et al.
Environmental Pollution, 2023, 319, pp.120945. ⟨10.1016/j.envpol.2022.120945⟩
Article dans une revue hal-03927240 v1
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DNAModAnnot: a R toolbox for DNA modification filtering and annotation

Alexis Hardy , Mélody Matelot , Amandine Touzeau , Christophe Klopp , Céline Lopez-Roques et al.
Bioinformatics, 2023, 37 (17), pp.2738-2740. ⟨10.1093/bioinformatics/btab032⟩
Article dans une revue hal-04126944 v1
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Fourth report on chicken genes and chromosomes 2022

Jacqueline Smith , James Alfieri , Nick Anthony , Peter Arensburger , Giridhar Athrey et al.
Cytogenetic and Genome Research, 2023, 162 (8-9), pp.405-528. ⟨10.1159/000529376⟩
Article dans une revue (article de synthèse) hal-04217636 v1
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Whole genome sequencing reveals signals of adaptive admixture in Creole cattle

Slim Ben-Jemaa , Gabriele Adam , Mekki Boussaha , Philippe Bardou , Christophe Klopp et al.
Scientific Reports, 2023, 13 (1), pp.12155. ⟨10.1038/s41598-023-38774-7⟩
Article dans une revue hal-04186791 v1

Multidisciplinary approach to explore interactions in odor mixture perception

Thierry Thomas-Danguin , Anne-Marie Le Bon , Olivier Taboureau , David Jarriault , Frédérique Datiche et al.
Chemical Senses, 2023, 48, pp.bjad029.16
Article dans une revue hal-04473367 v1
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Genome structures resolve the early diversification of teleost fishes

Elise Parey , Alexandra Louis , Jérôme Montfort , Olivier Bouchez , Céline Roques et al.
Science, 2023, 379 (6632), pp.572-575. ⟨10.1101/2022.04.07.487469⟩
Article dans une revue hal-03765882 v1
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Generation of a chromosome‐level genome assembly for Pacific halibut ( Hippoglossus stenolepis ) and characterization of its sex‐determining genomic region

Andrew J. Jasonowicz , Anna Simeon , Margot Zahm , Cédric Cabau , Christophe Klopp et al.
Molecular Ecology Resources, 2022, 22 (7), pp.2685-2700. ⟨10.1111/1755-0998.13641⟩
Article dans une revue hal-03737450 v1
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Impacts of Mycoplasma agalactiae restriction-modification systems on pan-epigenome dynamics and genome plasticity

Emilie Dordet-Frisoni , Céline Vandecasteele , Rachel Contarin , Eveline Sagné , Eric Baranowski et al.
Microbial Genomics, 2022, 8 (5), pp.000829. ⟨10.1099/mgen.0.000829⟩
Article dans une revue hal-03716470 v2
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Venomics survey of six myrmicine ants provides insights into the molecular and structural diversity of their peptide toxins

Valentine Barassé , Nathan Téné , Christophe Klopp , Françoise Paquet , Niklas Tysklind et al.
Insect Biochemistry and Molecular Biology, 2022, 151, pp. 103876. ⟨10.1016/j.ibmb.2022.103876⟩
Article dans une revue hal-04446316 v1
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A chromosome-level, haplotype-phased Vanilla planifolia genome highlights the challenge of partial endoreplication for accurate whole-genome assembly

Quentin Piet , Gaetan Droc , William Marande , Gautier Sarah , Stéphanie Bocs et al.
Plant Communications, 2022, 3 (5), pp.100330. ⟨10.1016/j.xplc.2022.100330⟩
Article dans une revue hal-03678239 v1
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Mosaic Evolution of Molecular Pathways for Sex Pheromone Communication in a Butterfly

Caroline M Nieberding , Patrícia Beldade , Véronique Baumlé , Gilles San Martin , Alok Arun et al.
Genes, 2022, 13 (8), pp.1372. ⟨10.3390/genes13081372⟩
Article dans une revue hal-03990268 v1
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An ancient truncated duplication of the anti‐Müllerian hormone receptor type 2 gene is a potential conserved master sex determinant in the Pangasiidae catfish family

Ming Wen , Qiaowei Pan , Elodie Jouanno , Jérôme Montfort , Margot Zahm et al.
Molecular Ecology Resources, 2022, 22 (6), pp.2411-2428. ⟨10.1111/1755-0998.13620⟩
Article dans une revue hal-03652234 v1
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A mutant-based analysis of the establishment of Nod-independent symbiosis in the legume Aeschynomene evenia

Johan Quilbé , Nico Nouwen , Marjorie Pervent , Rémi Guyonnet , Julie Cullimore et al.
Plant Physiology, 2022, 190 (2), pp.1400-1417. ⟨10.1093/plphys/kiac325⟩
Article dans une revue hal-03791400 v1
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Watch out for a second SNP: focus on multi-nucleotide variants in coding regions and rescued stop-gained

Fabien Degalez , Frédéric Jehl , Kévin Muret , Maria Bernard , Frédéric Lecerf et al.
Frontiers in Genetics, 2021, 12, pp.659287. ⟨10.3389/fgene.2021.659287⟩
Article dans une revue hal-03280040 v1
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RNA-Seq Data for Reliable SNP Detection and Genotype Calling

Frédéric Jehl , Fabien Degalez , Frédéric Lecerf , Maria Bernard , Laetitia Lagoutte et al.
Frontiers in Genetics, 2021, 12, pp.655707. ⟨10.3389/fgene.2021.655707⟩
Article dans une revue hal-03276149 v1
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A 180 Myr-old female-specific genome region in sturgeon reveals the oldest known vertebrate sex determining system with undifferentiated sex chromosomes

Heiner Kuhl , Yann Guiguen , Christin Höhne , Eva Kreuz , Kang Du et al.
Philosophical Transactions of the Royal Society B: Biological Sciences, 2021, 376 (1832), pp.20200089. ⟨10.1098/rstb.2020.0089⟩
Article dans une revue hal-03329961 v1
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Neurodevelopment vs. the immune system: Complementary contributions of maternally-inherited gene transcripts and proteins to successful embryonic development in fish

Daniel Żarski , Aurelie Le Cam , Thomas Frohlich , Miwako Kösters , Christophe Klopp et al.
Genomics, 2021, 113 (6), pp.3811-3826. ⟨10.1016/j.ygeno.2021.09.003⟩
Article dans une revue hal-03342588 v2
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Genetics of nodulation in Aeschynomene evenia uncovers mechanisms of the rhizobium-legume symbiosis

Johan Quilbé , Léo Lamy , Laurent Brottier , Philippe Leleux , Joël Fardoux et al.
Nature Communications, 2021, 12, ⟨10.1038/s41467-021-21094-7⟩
Article dans une revue hal-03141624 v1
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Development of a polymerase chain reaction (PCR)-based genetic sex identification method in the chub mackerel Scomber japonicus and blue mackerel S. australasicus

Reoto Tani , Wataru Kawamura , Tetsuro Morita , Christophe Klopp , Marine Milhes et al.
Fisheries Science, 2021, 87 (6), pp.785-793. ⟨10.1007/s12562-021-01548-z⟩
Article dans une revue hal-03338956 v1
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MINTIA: a metagenomic INserT integrated assembly and annotation tool

Philippe Bardou , Sandrine Laguerre , Sarah Maman Haddad , Sabrina Legoueix , Elisabeth Laville et al.
PeerJ, 2021, 9, 13 p. ⟨10.7717/peerj.11885⟩
Article dans une revue hal-03407218 v1

RADSex: a computational workflow to study sex determination using Restriction Site‐Associated DNA Sequencing data

Romain Feron , Qiaowei Pan , Ming Wen , Boudjema Imarazene , Elodie Jouanno et al.
Molecular Ecology Resources, 2021, 21 (5), pp.1715-1731. ⟨10.1111/1755-0998.13360⟩
Article dans une revue hal-03150035 v1
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The immune system of sturgeons and paddlefish (Acipenseriformes): a review with new data from a chromosome‐scale sturgeon genome

Christin Höhne , Dmitry Prokopov , Heiner Kuhl , Kang Du , Christophe Klopp et al.
Reviews in Aquaculture, 2021, 13 (3), pp.1709-1729. ⟨10.1111/raq.12542⟩
Article dans une revue hal-04126879 v1
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A duplicated copy of id2b is an unusual sex-determining candidate gene on the Y chromosome of arapaima (Arapaima gigas)

Mateus Adolfi , Kang Du , Susanne Kneitz , Cédric Cabau , Margot Zahm et al.
Scientific Reports, 2021, 11 (1), pp.21544. ⟨10.1038/s41598-021-01066-z⟩
Article dans une revue hal-03521507 v1
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Contrasting gene decay in subterranean vertebrates: insights from cavefishes and fossorial mammals

Maxime Policarpo , Julien Fumey , Philippe Lafargeas , Delphine Naquin , Claude Thermes et al.
Molecular Biology and Evolution, 2021, 38 (2), pp.589-605. ⟨10.1093/molbev/msaa249⟩
Article dans une revue hal-02968373 v1
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Transcriptome Profiling of the Pacific Oyster Crassostrea gigas Visceral Ganglia over a Reproduction Cycle Identifies Novel Regulatory Peptides

Emilie Réalis-Doyelle , Julie Schwartz , Cédric Cabau , Lorane Le Franc , Benoit Bernay et al.
Marine drugs, 2021, 19 (8), pp.452. ⟨10.3390/md19080452⟩
Article dans une revue hal-03330324 v1
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The rise and fall of the ancient northern pike master sex-determining gene

Qiaowei Pan , Romain Feron , Elodie Jouanno , Hugo Darras , Amaury Herpin et al.
eLife, 2021, 10, pp.e62858. ⟨10.7554/eLife.62858⟩
Article dans une revue hal-03139073 v2
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A supernumerary “B-sex” chromosome drives male sex determination in the Pachón cavefish, Astyanax mexicanus

Boudjema Imarazene , Kang Du , Séverine Beille , Elodie Jouanno , Romain Feron et al.
Current Biology, 2021, 31 (21), pp.4800-4809.e9. ⟨10.1016/j.cub.2021.08.030⟩
Article dans une revue hal-03337251 v1

Vespa Velutina - Les virus du frelon, une menace ou un espoir ?

Anne Dalmon , Philippe Gayral , Damien Decante , Christophe Klopp , D. Bigot et al.
La Santé de l'Abeille, 2020, 296, pp.141-145
Article dans une revue (article de synthèse) hal-03113994 v1
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The sterlet sturgeon genome sequence and the mechanisms of segmental rediploidization

Kang Du , Matthias Stöck , Susanne Kneitz , Christophe Klopp , Joost Woltering et al.
Nature Ecology & Evolution, 2020, 4 (6), pp.841-852. ⟨10.1038/s41559-020-1166-x⟩
Article dans une revue hal-02640938 v1
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Conserved white rot enzymatic mechanism for wood decay in the Basidiomycota genus Pycnoporus

Shingo Miyauchi , Hayat Hage , Elodie Drula , Laurence Lesage-Meessen , Jean-Guy Berrin et al.
DNA Research, 2020, ⟨10.1093/dnares/dsaa011⟩
Article dans une revue hal-02868456 v2
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Characterization of a Y‐specific duplication/insertion of the anti‐Mullerian hormone type II receptor gene based on a chromosome‐scale genome assembly of yellow perch, Perca flavescens

Romain Feron , Margot Zahm , Cédric Cabau , Christophe Klopp , Céline Roques et al.
Molecular Ecology Resources, 2020, 20 (2), pp.531-543. ⟨10.1111/1755-0998.13133⟩
Article dans une revue hal-02623895 v1
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Transfer and Transcriptomic Profiling in Liver and Brain of European Eels ( Anguilla anguilla ) After Diet‐borne Exposure to Gold Nanoparticles

Fanny Perrier , Anthony Bertucci , Fabien Pierron , Agnès Feurtet‐mazel , Olivier Simon et al.
Environmental Toxicology and Chemistry, 2020, 39 (12), pp.2450-2461. ⟨10.1002/etc.4858⟩
Article dans une revue (article de synthèse) hal-02975506 v1
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Multi-tissue Siberian sturgeon RNA sequencing data

Christophe Klopp , Cédric Cabau , André Lasalle , Santiago Di Landro , Gonzalo Greif et al.
Data in Brief, 2020, 31, ⟨10.1016/j.dib.2020.105820⟩
Article dans une revue (data paper) hal-03157670 v1
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Sex chromosome and sex locus characterization in goldfish, Carassius auratus (Linnaeus, 1758)

Ming Wen , Romain Feron , Qiaowei Pan , Justine Guguin , Elodie Jouanno et al.
BMC Genomics, 2020, 21 (1), pp.1-12. ⟨10.1186/s12864-020-06959-3⟩
Article dans une revue hal-02937875 v1
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Biological rhythms in the deep-sea hydrothermal mussel Bathymodiolus azoricus

Audrey Mat , Jozée Sarrazin , Gabriel Markov , Vincent Apremont , Christine Dubreuil et al.
Nature Communications, 2020, 11 (1), ⟨10.1038/s41467-020-17284-4⟩
Article dans une revue hal-02907599 v1
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Meta-omics Provides Insights into the Impact of Hydrocarbon Contamination on Microbial Mat Functioning

Johanne Aubé , Pavel Senin , Patricia Bonin , Olivier Pringault , Céline Jeziorski et al.
Microbial ecology, 2020, 80 (2), pp.286-295. ⟨10.1007/s00248-020-01493-x⟩
Article dans une revue hal-03065790 v1
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Genome insights of mercury methylation among Desulfovibrio and Pseudodesulfovibrio strains

Marisol Goñi , Christophe Klopp , Magali Ranchou-Peyruse , Anthony Ranchou-Peyruse , Mathilde Monperrus et al.
Research in Microbiology, 2020, 171 (1), pp.3-12. ⟨10.1016/j.resmic.2019.10.003⟩
Article dans une revue hal-02390352 v1
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Responses to iron oxide and zinc oxide nanoparticles in echinoderm embryos and microalgae: uptake, growth, morphology, and transcriptomic analysis

Anne-Marie Genevière , Evelyne Derelle , Marie-Line Escande , Nigel Grimsley , Christophe Klopp et al.
Nanotoxicology, 2020, pp.1-20. ⟨10.1080/17435390.2020.1827074⟩
Article dans une revue (article de synthèse) hal-02978528 v1
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Independent origin of XY and ZW sex determination mechanisms in Mosquitofish sister species

Verena A. Kottler , Romain Feron , Indrajit Nanda , Christophe Klopp , Kang Du et al.
Genetics, 2020, 214 (1), pp.193-209. ⟨10.1534/genetics.119.302698⟩
Article dans une revue hal-02624941 v1
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Molecular signatures of muscle growth and composition deciphered by the meta-analysis of age-related public transcriptomics data

Jeanne Bazile , Florence Jaffrezic , Patrice Dehais , Matthieu Reichstadt , Christophe Klopp et al.
Physiological Genomics, 2020, 52 (8), pp.322-332. ⟨10.1152/physiolgenomics.00020.2020⟩
Article dans une revue hal-02937790 v1

Venom peptide repertoire of the european myrmicine ant manica rubida: identification of insecticidal toxins

Axel Touchard , Samira R Aili , Nathan Téné , Valentine Barassé , Christophe Klopp et al.
Journal of Proteome Research, 2020, 19 (4), pp.1800-1811. ⟨10.1021/acs.jproteome.0c00048⟩
Article dans une revue (article de synthèse) hal-02570243 v1
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RNA-Seq transcriptome data of undifferentiated and differentiated gonads of Siberian sturgeon

Christophe Klopp , André Lasalle , Santiago Di Landro , Denise Vizziano-Cantonnet
Data in Brief, 2020, 31, ⟨10.1016/j.dib.2020.105741⟩
Article dans une revue (data paper) hal-03182864 v1
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An integrative atlas of chicken long non-coding genes and their annotations across 25 tissues

Frédéric Jehl , Kévin Muret , Maria Bernard , Morgane Boutin , Laetitia Lagoutte et al.
Scientific Reports, 2020, 10 (1), pp.1-17. ⟨10.1038/s41598-020-77586-x⟩
Article dans une revue hal-03039897 v1
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Siberian sturgeon multi-tissue reference transcriptome database

Christophe Klopp , Cédric Cabau , Gonzalo Greif , André Lasalle , Santiago Di Landro et al.
Database - The journal of Biological Databases and Curation, 2020, 2020, pp.1-8. ⟨10.1093/database/baaa082⟩
Article dans une revue (article de synthèse) hal-03157672 v1
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Domestication modulates the expression of genes involved in neurogenesis in high‐quality eggs of Sander lucioperca

Daniel Żarski , Aurélie Le Cam , Joanna Nynca , Christophe Klopp , Sławomir Ciesielski et al.
Molecular Reproduction and Development, 2020, 87 (9), pp.934-951. ⟨10.1002/mrd.23414⟩
Article dans une revue hal-02935418 v1
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CSA: A high-throughput chromosome-scale assembly pipeline for vertebrate genomes

Heiner Kuhl , Ling Li , Sven Wuertz , Matthias Stöck , Xu-Fang Liang et al.
GigaScience, 2020, 9 (5), ⟨10.1093/gigascience/giaa034⟩
Article dans une revue hal-03182981 v1
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Genome structure and content of the rice root‐knot nematode ( Meloidogyne graminicola )

Ngan Thi Phan , Julie Orjuela , Etienne Danchin , Christophe Klopp , Laetitia Perfus‐barbeoch et al.
Ecology and Evolution, 2020, 10 (20), pp.11006-11021. ⟨10.1002/ece3.6680⟩
Article dans une revue hal-02988764 v1
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Genome sequence of the euryhaline Javafish Medaka, Oryzias javanicus: A small aquarium fish model for studies on adaptation to salinity

Yusuke Takehana , Margot Zahm , Cédric Cabau , Christophe Klopp , Céline Roques et al.
G3, 2020, 10 (3), pp.907-915. ⟨10.1534/g3.119.400725⟩
Article dans une revue hal-02624885 v1
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Le projet « Mille Génomes Gallus » : partager les données de séquences pour mieux les utiliser

Michèle Tixier-Boichard , Frédéric Lecerf , Frédéric Herault , Philippe Bardou , Christophe Klopp
INRAE Productions Animales, 2020, 33 (3), pp.189-202. ⟨10.20870/productions-animales.2020.33.3.4564⟩
Article dans une revue hal-03103324 v1
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Environmental transcriptomes of invasive dreissena, a model species in ecotoxicology and invasion biology

Romain Péden , Pascal Poupin , Bénédicte Sohm , Justine Flayac , Laure Giambérini et al.
Scientific Data , 2019, 6 (1), pp.234. ⟨10.1038/s41597-019-0252-x⟩
Article dans une revue (data paper) hal-02337309 v1
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Transcriptome variation in response to gastrointestinal nematode infection in goats

Hadeer Aboshady , Nathalie Mandonnet , Michaël Stear , Rémy Arquet , Malia Bédèrina et al.
PLoS ONE, 2019, 14 (6), Non paginé. ⟨10.1371/journal.pone.0218719⟩
Article dans une revue hal-02620106 v1
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Arctic charr brain transcriptome strongly affected by summer seasonal growth but only subtly by feed deprivation

Anja Striberny , Even H Jørgensen , Christophe Klopp , Elodie Magnanou
BMC Genomics, 2019, 20 (1), ⟨10.1186/s12864-019-5874-z⟩
Article dans une revue (article de synthèse) hal-02182476 v1
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Transcription Profiling of Monocyte-Derived Macrophages Infected In Vitro With Two Strains of Streptococcus agalactiae Reveals Candidate Pathways Affecting Subclinical Mastitis in Cattle

Anna Monika Lewandowska-Sabat , Trygve Roger Solberg , Anna Monika Lewandowska-Sabat , Elena Kirsanova , Christophe Klopp et al.
Frontiers in Genetics, 2019, 10, ⟨10.3389/fgene.2019.00689⟩
Article dans une revue hal-03114992 v1
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Viruses in the Invasive Hornet Vespa velutina

Anne Dalmon , Philippe Gayral , Damien Decante , Christophe Klopp , Diane Bigot et al.
Viruses, 2019, 11 (11), pp.1041. ⟨10.3390/v11111041⟩
Article dans une revue hal-02388796 v1
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Identification of the master sex determining gene in Northern pike (Esox lucius) reveals restricted sex chromosome differentiation

Qiaowei Pan , Romain Feron , Ayaka Yano , René Guyomard , Elodie Jouanno et al.
PLoS Genetics, 2019, 15 (8), pp.e1008013. ⟨10.1371/journal.pgen.1008013⟩
Article dans une revue inserm-02279967 v1
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The genome of the arapaima (Arapaima gigas) provides insights into gigantism, fast growth and chromosomal sex determination system

Kang Du , Sven Wuertz , Mateus Adolfi , Susanne Kneitz , Matthias Stöck et al.
Scientific Reports, 2019, 9 (1), pp.5293. ⟨10.1038/s41598-019-41457-x⟩
Article dans une revue hal-02090589 v1
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Draft genome assembly and annotation of the gila topminnow Poeciliopsis occidentalis

Mariana Mateos , Du Kang , Christophe Klopp , Hugues Parrinello , Mateo Garcia-Olazabal et al.
Frontiers in Ecology and Evolution, 2019, 7, pp.1-7. ⟨10.3389/fevo.2019.00404⟩
Article dans une revue (data paper) hal-02620825 v1
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Identification of potential chemosignals in the European water vole Arvicola terrestris

Patricia Nagnan-Le Meillour , Amandine Descamps , Chrystelle Le Danvic , Maurane Grandmougin , Jean-Michel Saliou et al.
Scientific Reports, 2019, 9 (18378), ⟨10.1038/s41598-019-54935-z⟩
Article dans une revue hal-02400712 v1
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Multi-species annotation of transcriptome and chromatin structure in domesticated animals

Sylvain Foissac , Sarah Djebali , Kylie Munyard , Nathalie Vialaneix , Andrea Rau et al.
BMC Biology, 2019, 17 (1), 25 p. ⟨10.1186/s12915-019-0726-5⟩
Article dans une revue hal-02437599 v1
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RNA-seq analysis of hepatic gene expression of common Pekin, Muscovy, mule and hinny ducks fed ad libitum or overfed

Frédéric Herault , Nathalie Houee-Bigot , Elisabeth Baéza , Olivier Bouchez , Diane Esquerré et al.
BMC Genomics, 2019, 20 (13), pp.1-14. ⟨10.1186/s12864-018-5415-1⟩
Article dans une revue hal-02135884 v1
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Transcriptomic view of detached lettuce leaves during storage: A crosstalk between wounding, dehydration and senescence

Julie Ripoll , Florence Charles , Véronique Vidal , Sandrine Laurent , Christophe Klopp et al.
Postharvest Biology and Technology, 2019, 152, pp.73-88. ⟨10.1016/j.postharvbio.2019.02.004⟩
Article dans une revue hal-02063254 v1
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Chicken adaptive response to low energy diet: main role of the hypothalamic lipid metabolism revealed by a phenotypic and multi-tissue transcriptomic approach

Frédéric Jehl , Colette Désert , Christophe Klopp , Mathias Brenet , Andrea Rau et al.
BMC Genomics, 2019, 20 (1), ⟨10.1186/s12864-019-6384-8⟩
Article dans une revue hal-02463367 v1
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The Peptide Venom Composition of the Fierce Stinging Ant Tetraponera aethiops (Formicidae: Pseudomyrmecinae)

Valentine Barassé , Axel Touchard , Nathan Téné , Maurice Tindo , Martin Kenne et al.
Toxins, 2019, 11 (12), pp.732. ⟨10.3390/toxins11120732⟩
Article dans une revue hal-03115116 v1
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Domestication may affect the maternal mRNA profile in unfertilized eggs, potentially impacting the embryonic development of Eurasian perch (Perca fluviatilis)

Taina Rocha de Almeida , Maud Alix , Aurélie Le Cam , Christophe Klopp , Jérôme Montfort et al.
PLoS ONE, 2019, 14 (12), pp.1-25. ⟨10.1371/journal.pone.0226878⟩
Article dans une revue hal-02627554 v1
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Structure of the intergenic spacers in chicken ribosomal DNA

Alexander Dyomin , Svetlana Galkina , Valerie Fillon , Stephane Cauet , Celine Lopez-Roques et al.
Genetics Selection Evolution, 2019, 51 (1), pp.59. ⟨10.1186/s12711-019-0501-7⟩
Article dans une revue hal-02334969 v1
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Highly promiscuous oxidases discovered in the bovine rumen microbiome

Lisa Ufarté , Gabrielle Veronese , Davide Cecchini , Alexandra Tauzin , Angeline Rizzo et al.
Frontiers in Microbiology, 2018, 9, ⟨10.3389/fmicb.2018.00861⟩
Article dans une revue hal-01886471 v1

De novo transcriptome analysis to search for sex-differentiation genes in the Siberian sturgeon

Denise Vizziano-Cantonnet , Andre Lasalle , Santiago Di Landro , Christophe Klopp , Clémence Genthon
General and Comparative Endocrinology, 2018, 268, pp.96 - 109. ⟨10.1016/j.ygcen.2018.08.007⟩
Article dans une revue hal-02621654 v1
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Transcriptomic analysis reveals specific metabolic pathways of enterohemorrhagic Escherichia coli O157:H7 in bovine digestive contents

Audrey Segura , Marine Bertoni , Pauline Auffret , Christophe Klopp , Olivier Bouchez et al.
BMC Genomics, 2018, 19 (1), ⟨10.1186/s12864-018-5167-y⟩
Article dans une revue hal-02628554 v1
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Ten steps to get started in Genome Assembly and Annotation

Victoria Dominguez del Angel , Erik Hjerde , Lieven Sterck , Salvadors Capella-Gutierrez , Cedric Notredame et al.
F1000Research, 2018, 7, pp.148-19. ⟨10.12688/f1000research.13598.1⟩
Article dans une revue (article de synthèse) hal-01712874 v1
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Whole-genome sequencing of Aspergillus tubingensis G131 and overview of its secondary metabolism potential

Élodie Choque , Christophe Klopp , Sophie Valiere , José Raynal , Florence Mathieu
BMC Genomics, 2018, 19 (1), pp.0. ⟨10.1186/s12864-018-4574-4⟩
Article dans une revue hal-02143190 v1
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One complete and three draft genome sequences of four Brochothrix thermosphacta strains, CD 337, TAP 175, BSAS1 3 and EBP 3070

Nassima Illikoud , Christophe Klopp , Alain Roulet , Olivier Bouchez , Nathalie Marsaud et al.
Standards in Genomic Sciences, 2018, 13 (1), pp.1-12. ⟨10.1186/s40793-018-0333-z⟩
Article dans une revue hal-02154348 v1
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Oak genome reveals facets of long lifespan

Christophe Plomion , Jean-Marc Aury , Joelle Amselem , Thibault Leroy , Florent Murat et al.
Nature Plants, 2018, 4 (7), pp.440-452. ⟨10.1038/s41477-018-0172-3⟩
Article dans une revue hal-01820559 v1
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Genomics analysis of Aphanomyces spp. identifies a new class of oomycete effector associated with host adaptation

Elodie Gaulin , Michiel Pel , Laurent Camborde , Hélène San Clemente , Sarah Courbier et al.
BMC Biology, 2018, 16 (1), ⟨10.1186/s12915-018-0508-5⟩
Article dans une revue hal-01891875 v1
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Transcriptome profiling of the honeybee parasite Varroa destructor provides new biological insights into the mite adult life cycle

Fanny Mondet , Andrea Rau , Christophe Klopp , Marine Rohmer , Dany Severac et al.
BMC Genomics, 2018, 19 (1), pp.328. ⟨10.1186/s12864-018-4668-z⟩
Article dans une revue inserm-02063466 v1
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Whole-transcriptome response to wastewater treatment plant and stormwater effluents in the Asian clam, Corbicula fluminea

Anthony Bertucci , Fabien Pierron , Pierre-Yves Gourves , Christophe Klopp , Gauthier Lagarde et al.
Ecotoxicology and Environmental Safety, 2018, 165, pp.96-106. ⟨10.1016/j.ecoenv.2018.08.090⟩
Article dans une revue hal-02324139 v1

Oyster transcriptome response to Alexandrium exposure is related to saxitoxin load and characterized by disrupted digestion, energy balance, and calcium and sodium signaling

Audrey Mat , Christophe Klopp , Laura Payton , Céline Jeziorski , Morgane Chalopin et al.
Aquatic Toxicology, 2018, 199, pp.127-137. ⟨10.1016/j.aquatox.2018.03.030⟩
Article dans une revue hal-02324597 v1
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Genetic and transcriptomic analyses provide new insights on the early antiviral response to VHSV in resistant and susceptible rainbow trout

Eloi R. Verrier , Carine Genet , Denis Laloë , Florence Jaffrezic , Andrea Rau et al.
BMC Genomics, 2018, 19 (1), pp.Non Paginé. ⟨10.1186/s12864-018-4860-1⟩
Article dans une revue hal-02444518 v1
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Rapid whole-genome based typing and surveillance of avipoxviruses using nanopore sequencing.

Guillaume Croville , Guillaume Le Loc'H , Catherine Zanchetta , Maxime Manno , Christelle Camus-Bouclainville et al.
Journal of Virological Methods, 2018, 261, pp.34-39. ⟨10.1016/j.jviromet.2018.08.003⟩
Article dans une revue hal-02626516 v1
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D-GENIES: dot plot large genomes in an interactive, efficient and simple way.

Floréal Cabanettes , Christophe Klopp
PeerJ, 2018, 6, pp.e4958. ⟨10.7717/peerj.4958⟩
Article dans une revue hal-02625819 v1
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A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic

Orlane Patrascu , Fabienne Beguet-Crespel , Ludovica Marinelli , Emmanuelle Le Chatelier , Anne-Laure Abraham et al.
Scientific Reports, 2017, 7, ⟨10.1038/srep40248⟩
Article dans une revue hal-01606551 v1
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Draft genome sequence and characterization of commensal Escherichia coli strain BG1 isolated from bovine gastro-intestinal tract

Audrey Segura , Pauline Auffret , Christophe Klopp , Yolande Bertin , Evelyne Forano
Standards in Genomic Sciences, 2017, 12 (1), ⟨10.1186/s40793-017-0272-0⟩
Article dans une revue hal-02626891 v1

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-01605642 v1
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Draft Genome Sequence of Enterohemorrhagic Escherichia coli O157:H7 Strain MC2 Isolated from Cattle in France

Pauline Auffret , Audrey Segura , Yolande Bertin , Christophe Klopp , Olivier Bouchez et al.
Genome Announcements, 2017, 5 (40), ⟨10.1128/genomeA.01097-17⟩
Article dans une revue hal-01658407 v1

Tench (Tinca tinca) high-throughput transcriptomics reveal feed dependent gut profiles

Remigiusz Panicz , Christophe Klopp , Rafał Igielski , Paulina Hofsoe , Jacek Sadowski et al.
Aquaculture, 2017, 479, pp.200-207. ⟨10.1016/j.aquaculture.2017.05.047⟩
Article dans une revue hal-01608923 v1

Analysis of large 16S rRNA Illumina datasets: impact of singleton read filtering on microbial community description

Lucas Auer , Mahendra Mariadassou , Michael O'Donohue , Christophe Klopp , Guillermina Hernandez-Raquet
Molecular Ecology Resources, 2017, ⟨10.1111/1755-0998.12700⟩
Article dans une revue (data paper) hal-01605865 v1

About Ganoderma boninense in oil palm plantations of Sumatra and peninsular Malaysia: Ancient population expansion, extensive gene flow and large scale dispersion ability

Maxime Mercière , Romain Boulord , Catherine Carasco-Lacombe , Christophe Klopp , Yang-Ping Lee et al.
Fungal Biology, 2017, 121 (6-7), pp.529-540. ⟨10.1016/j.funbio.2017.01.001⟩
Article dans une revue hal-02622016 v1
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Compacting and correcting Trinity and Oases RNA-Seq de novo assemblies

Cédric Cabau , Frédéric Escudie , Anis Djari , Yann Guiguen , Julien Bobe et al.
PeerJ, 2017, 5, pp.e2988. ⟨10.7717/peerj.2988⟩
Article dans une revue hal-01506620 v1

Transcriptomic responses of the endangered freshwater mussel Margaritifera margaritifera to trace metal contamination in the Dronne River, France

Anthony Bertucci , Fabien Pierron , Julien Thébault , Christophe Klopp , Julie Bellec et al.
Environmental Science and Pollution Research, 2017, 24 (35), pp.27145-27159. ⟨10.1007/s11356-017-0294-6⟩
Article dans une revue hal-02571118 v1
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Stable Polycomb-dependent transgenerational inheritance of chromatin states in Drosophila

Filippo Ciabrelli , Federico Comoglio , Simon Fellous , Boyan Bonev , Maria Ninova et al.
Nature Genetics, 2017, 49 (6), pp.876-886. ⟨10.1038/ng.3848⟩
Article dans une revue hal-01529240 v1
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Identification of copy number variation in French dairy and beef breeds using next-generation sequencing

Rabia Letaief , Emmanuelle Rebours , Cécile Grohs , Cédric Meersseman , Sébastien Fritz et al.
Genetics Selection Evolution, 2017, 49 (1), pp.77. ⟨10.1186/s12711-017-0352-z⟩
Article dans une revue hal-01622967 v1
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The role of rhizobial (NifV) and plant (FEN1) homocitrate synthases in Aeschynomene/photosynthetic Bradyrhizobium symbiosis

Nico Nouwen , Jean-François Arrighi , Fabienne Cartieaux , Clémence Chaintreuil , Djamel Gully et al.
Scientific Reports, 2017, 7 (1), ⟨10.1038/s41598-017-00559-0⟩
Article dans une revue hal-02619423 v1

Evolution of gene expression after whole-genome duplication: New insights from the spotted gar genome

Jérémy Pasquier , Ingo Braasch , Peter Batzel , Cédric Cabau , Jérôme Montfort et al.
Journal of Experimental Zoology Part B: Molecular and Developmental Evolution, 2017, 328 (7), pp.709 - 721. ⟨10.1002/jez.b.22770⟩
Article dans une revue hal-01788671 v1
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Long noncoding RNA repertoire in chicken liver and adipose tissue

Kévin Muret , Christophe Klopp , Valentin Wucher , Diane Esquerré , Fabrice Legeai et al.
Genetics Selection Evolution, 2017, 49 (1), pp.6. ⟨10.1186/s12711-016-0275-0⟩
Article dans une revue hal-01431420 v1
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Discovery of carbamate degrading enzymes by functional metagenomics

Lisa Ufarté , Elisabeth Laville , Sophie Duquesne , Diego Morgavi , Patrick Robe et al.
PLoS ONE, 2017, 12 (12), 21 p. ⟨10.1371/journal.pone.0189201⟩
Article dans une revue hal-01886441 v1
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The Rio1p ATPase hinders premature entry into translation of late pre-40S pre-ribosomal particles

Kamila Belhabich-Baumas , Clément Joret , Beáta E. Jády , Célia Plisson-Chastang , Ramtin Shayan et al.
Nucleic Acids Research, 2017, 45 (18), ⟨10.1093/nar/gkx734⟩
Article dans une revue hal-01608918 v1
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Genome Sequence of the Yeast Clavispora lusitaniae Type Strain CBS 6936

Pascal Durrens , Christophe Klopp , Nicolas Biteau , Valérie Fitton-Ouhabi , Karine Dementhon et al.
Genome Announcements, 2017, 5 (31), pp.e00724-17. ⟨10.1128/genomeA.00724-17⟩
Article dans une revue hal-01583349 v1
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Root transcriptomic responses of grafted grapevines to heterogeneous nitrogen availability depend on rootstock genotype

Noe Cochetel , Frédéric Escudie , Sarah Jane Cookson , Zhanwu Dai , Philippe Vivin et al.
Journal of Experimental Botany, 2017, 68 (15), pp.4339 - 4355. ⟨10.1093/jxb/erx224⟩
Article dans une revue hal-01608893 v1
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Variant discovery in the sheep milk transcriptome using RNA sequencing

Aroa Suárez-Vega , Beatriz Gutiérrez-Gil , Christophe Klopp , Gwenola Tosser-Klopp , Juan José Arranz
BMC Genomics, 2017, 18, Non paginé. ⟨10.1186/s12864-017-3581-1⟩
Article dans une revue hal-01604370 v1

De novo transcriptome sequencing and analysis of freshwater snail (Radix balthica) to discover genes and pathways affected by exposure to oxazepam

Jean-Yves Mazzitelli , Elsa Bonnafé , Christophe Klopp , Frédéric Escudie , Florence Geret
Ecotoxicology, 2017, 26 (1), pp.127-140. ⟨10.1007/s10646-016-1748-1⟩
Article dans une revue hal-01605095 v1
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Genetic variability of the activity of bidirectional promoters : a pilot study in bovine muscle

Cédric Meerssemann , Rabia Letaief , Véronique Léjard , Emmanuelle Rebours , Gabriel Guillocheau et al.
DNA Research, 2017, 24 (3), pp.221-233. ⟨10.1093/dnares/dsx004⟩
Article dans une revue hal-01606875 v1
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Rapid discovery of de novo deleterious mutations in cattle enhances the value of livestock as model species

Emmanuelle Bourneuf , P. Otz , H. Pausch , V. Jagannathan , Pauline Michot et al.
Scientific Reports, 2017, 7 (1), pp.11466. ⟨10.1038/s41598-017-11523-3⟩
Article dans une revue hal-01608270 v1
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Draft Genome Sequence of Desulfovibrio BerOc1, a Mercury-Methylating Strain

Marisol Goñi , Claire Gassie , Remy Guyoneaud , Oliver Bouchez , Christophe Klopp
Genome Announcements, 2017, 5 (3), pp.e01483-16. ⟨10.1128/genomeA.01483-16⟩
Article dans une revue hal-01481298 v1
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Comprehensive RNA-Seq profiling to evaluate lactating sheep mammary gland transcriptome

Aroa Suárez-Vega , Beatriz Gutiérrez-Gil , Christophe Klopp , Gwenola Tosser-Klopp , Juan-José Arranz
Scientific Data , 2016, 3, Non paginé. ⟨10.1038/sdata.2016.51⟩
Article dans une revue (data paper) hal-02630260 v1

Identification and characterization of copy number variations in cattle

Rabia Letaief , Diane Esquerre , Johanna Barbieri , Cécile Grohs , Sebastien Fritz et al.
Journal of Animal Science, 2016, 94, pp.183-183. ⟨10.2527/jas2016.94supplement4183a⟩
Article dans une revue hal-01605684 v1
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Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database.

Jérémy Pasquier , Cédric Cabau , Thuy Thao Vi Nguyen , Elodie Jouanno , Dany Severac et al.
BMC Genomics, 2016, 17 (1), pp.368. ⟨10.1186/s12864-016-2709-z⟩
Article dans une revue hal-01487023 v1
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The extent of mRNA editing is limited in chicken liver and adipose, but impacted by tissular context, genotype, age and feeding as exemplified with a conserved edited site in COG3

Pierre-François Roux , Laure Fresard , Morgane Boutin , Sophie Leroux , Christophe Klopp et al.
G3, 2016, 6 (2), pp.321-335. ⟨10.1534/g3.115.022251⟩
Article dans une revue hal-01251260 v1

Evolutionary origins of rhizarian parasites

Roberto Sierra , Silvia J. Canas-Duarte , Fabien Burki , Arne Schwelm , Johan Fogelqvist et al.
Molecular Biology and Evolution, 2016, 33 (4), pp.980-983. ⟨10.1093/molbev/msv340⟩
Article dans une revue hal-02641707 v1
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Construction of a large collection of small genome variations in French dairy and beef breeds using whole-genome sequences

Mekki Boussaha , Pauline Michot , Rabia Letaief , Chris Hozé , Sébastien Fritz et al.
Genetics Selection Evolution, 2016, 48 (1), pp.87. ⟨10.1186/s12711-016-0268-z⟩
Article dans une revue hal-01479216 v1
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Complete Genome Sequence of Lactococcus lactissubsp. lactis A12, a Strain Isolated from Wheat Sourdough

Maeva Guellerin , Delphine Passerini , Catherine Fontagné-Faucher , Hervé Robert , Valérie Gabriel et al.
Genome Announcements, 2016, 4 (5), pp.2 P. ⟨10.1128/genomeA.00692-16⟩
Article dans une revue hal-01578250 v1
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Targeted genomic enrichment and sequencing of CyHV-3 from carp tissues confirms low nucleotide diversity and mixed genotype infections

Saliha Hammoumi , Tatiana Vallaeys , Ayi Santika , Philippe Leleux , Ewa Borzym et al.
PeerJ, 2016, 4, ⟨10.7717/peerj.2516⟩
Article dans une revue hal-02637141 v1
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Jflow: a workflow management system for web applications

Jérôme J. Mariette , Frédéric Escudié , Philippe Bardou , Ibouniyamine Ibrahime , Céline Noirot et al.
Bioinformatics, 2016, 32 (3), pp.456-458. ⟨10.1093/bioinformatics/btv589⟩
Article dans une revue hal-02631131 v1
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Correction : Design and Characterization of a 52K SNP Chip for Goats

Gwenola Tosser-Klopp , Philippe Bardou , Olivier Bouchez , Cédric Cabau , Richard Crooijmans et al.
PLoS ONE, 2016, 11 (3), pp.Non Paginé. ⟨10.1371/journal.pone.0152632⟩
Article dans une revue hal-01602260 v1

The impact of long-term hydrocarbon exposure on the structure, activity, and biogeochemical functioning of microbial mats

Johanne Aubé , Pavel Senin , Olivier Pringault , Patricia Bonin , Bruno Deflandre et al.
Marine Pollution Bulletin, 2016, 111 (1-2), pp.115-125. ⟨10.1016/j.marpolbul.2016.07.023⟩
Article dans une revue ird-02048573 v1
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A gene-based map of the Nod factor-independent Aeschynomene evenia sheds new light on the evolution of nodulation and legume genomes

Clémence Chaintreuil , Ronan Rivallan , David Bertioli , Christophe Klopp , Jerome Gouzy et al.
DNA Research, 2016, 23 (4), pp.365-376. ⟨10.1093/dnares/dsw020⟩
Article dans une revue hal-02410329 v1

A unigene set for European beech (Fagus sylvatica L.) and its use to decipher the molecular mechanisms involved in dormancy regulation

Isabelle Lesur Kupin Lesur , Alison Bechade , Céline C. Lalanne , Christophe Klopp , Céline Noirot et al.
Molecular Ecology Resources, 2015, 15 (5), pp.1192-1204. ⟨10.1111/1755-0998.12373⟩
Article dans une revue istex hal-02640346 v1
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GigaTON: an extensive publicly searchable database providing a new reference transcriptome in the pacific oyster Crassostrea gigas

Guillaume Riviere , Christophe Klopp , Nabihoudine Ibouniyamine , Arnaud Huvet , Pierre Boudry et al.
BMC Bioinformatics, 2015, 16, pp.401. ⟨10.1186/s12859-015-0833-4⟩
Article dans une revue (data paper) hal-01258440 v1
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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 Leplé et al.
BMC Genomics, 2015, 16 (1), pp.112. ⟨10.1186/s12864-015-1331-9⟩
Article dans une revue hal-02285504 v1

Decoding the oak genome: public release of sequence data, assembly, annotation and publication strategies.

Christophe Plomion , Jean-Marc Aury , Joëlle Amselem , Tina Alaeitabar , Valérie Barbe et al.
Molecular Ecology Resources, 2015, 16 (1), pp.254-265. ⟨10.1111/1755-0998.12425⟩
Article dans une revue istex hal-01579667 v1
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Characterization and comparative analysis of the milk transcriptome in two dairy sheep breeds using RNA sequencing

Aroa Suárez-Vega , Beatriz Gutiérrez-Gil , Christophe Klopp , Christèle Robert-Granié , Gwenola Tosser-Klopp et al.
Scientific Reports, 2015, 5, pp.1-11. ⟨10.1038/srep18399⟩
Article dans une revue hal-02638220 v1
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Combined QTL and selective sweep mappings with coding SNP annotation and cis-eQTL analysis revealed PARK2 and JAG2 as new candidate genes for adiposity regulation.

Pierre-François Roux , Simon Boitard , Anne Blum , Brian Parks , Alexandra Montagner et al.
G3, 2015, 5, pp.517-529. ⟨10.1534/g3.115.016865⟩
Article dans une revue hal-01194040 v1
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RNA-seq de novo assembly reveals differential gene expression in Glossina palpalis gambiensis infected with Trypanosoma brucei gambiense vs. non-infected and self-cured flies

Illiassou Hamidou Soumana , Christophe Klopp , Sophie Ravel , Ibouniyamine Nabihoudine , Bernadette Tchicaya et al.
Frontiers in Microbiology, 2015, 6, ⟨10.3389/fmicb.2015.01259⟩
Article dans une revue hal-02067248 v1
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Identification and development of new polymorphic microsatellite markers using genome assembly for Ganoderma boninense, causal agent of oil palm basal stem rot disease

Maxime Mercière , Anthony Laybats , Catherine Carasco-Lacombe , Joon Sheong Tan , Christophe Klopp et al.
Mycological Progress, 2015, 14 (11), ⟨10.1007/s11557-015-1123-2⟩
Article dans une revue hal-02641658 v1

Comparison of whole-genome (13X) and capture (87X) resequencing methods for SNP and genotype callings

Pierre-François Roux , Sylvain Marthey , Anis Djari , Marco Moroldo , Diane Esquerre et al.
Animal Genetics, 2015, 46 (1), pp.82-86. ⟨10.1111/age.12248⟩
Article dans une revue istex hal-01194013 v1
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The BioMart community portal: an innovative alternative to large, centralized data repositories

Damian Smedley , Syed Haider , Steffen Durinck , Luca Pandini , Paolo Provero et al.
Nucleic Acids Research, 2015, 43 (W1), pp.W589-W598. ⟨10.1093/nar/gkv350⟩
Article dans une revue hal-01146849 v1
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Combining GWAS and RNA-Seq Approaches for Detection of the Causal Mutation for Hereditary Junctional Epidermolysis Bullosa in Sheep

Aroa Suárez-Vega , Beatriz Gutiérrez-Gil , Julio Benavides , Valentín Pérez , Gwenola Tosser-Klopp et al.
PLoS ONE, 2015, 10 (5), Non paginé. ⟨10.1371/journal.pone.0126416⟩
Article dans une revue hal-02631344 v1

High-resolution genetic maps of Eucalyptus improve Eucalyptus grandis genome assembly

Jérôme Bartholomé , Eric Mandrou , André Mabiala , Jerry Jenkins , Ibouniyamine Nabihoudine et al.
New Phytologist, 2015, 206 (4), pp.1283-1296. ⟨10.1111/nph.13150⟩
Article dans une revue hal-02637865 v1
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Genome-Wide Characterization of RNA Editing in Chicken Embryos Reveals Common Features among Vertebrates

Laure Fresard , Sophie Leroux , Pierre-François Roux , Christophe Klopp , Stéphane Fabre et al.
PLoS ONE, 2015, 10 (5), pp.1-20. ⟨10.1371/journal.pone.0126776⟩
Article dans une revue hal-01207762 v1
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Genome-wide study of structural variants in bovine Holstein, Montbéliarde and Normande dairy breeds

Mekki Boussaha , Diane Esquerre , Johanna Barbieri , Anis Djari , Alain Pinton et al.
PLoS ONE, 2015, 10 (8), pp.1-21. ⟨10.1371/journal.pone.0135931⟩
Article dans une revue hal-01194172 v1
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Intra-host viral variability in children clinically infected with H1N1 (2009) pandemic influenza.

Vincent Bourret , Guillaume Croville , Jean-Michel Mansuy , Catherine Mengelle , Jérôme J. Mariette et al.
Infection, Genetics and Evolution, 2015, 33, pp.47-54. ⟨10.1016/j.meegid.2015.04.009⟩
Article dans une revue hal-02637504 v1
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Comparison between Transcriptome Sequencing and 16S Metagenomics for Detection of Bacterial Pathogens in Wildlife

Maria Razzauti Sanfeliu , Maxime Galan , Maria Bernard , Sarah Maman Haddad , Christophe Klopp et al.
PLoS Neglected Tropical Diseases, 2015, 9 (8), ⟨10.1371/journal.pntd.0003929⟩
Article dans une revue hal-01250505 v1

Generation and characterization of the sea bass Dicentrarchus labrax brain and liver transcriptomes.

Elodie Magnanou , Christophe Klopp , Céline Noirot , Laurence Besseau , Jack Falcon
Gene, 2014, 544 (1), pp.56-66. ⟨10.1016/j.gene.2014.04.032⟩
Article dans une revue hal-02641536 v1
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De Novo sequencing and transcriptome analysis for <em>Tetramorium bicarinatum</em>: a comprehensive venom gland transcriptome analysis from an ant species

Wafa Bouzid , Marion Verdenaud , Christophe Klopp , Frédéric Ducancel , Céline Noirot et al.
BMC Genomics, 2014, 15 (987), pp.1-18. ⟨10.1186/1471-2164-15-987⟩
Article dans une revue hal-02636117 v1
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The genome of the white-rot fungus [i]Pycnoporus cinnabarinus[/i]: a basidiomycete model with a versatile arsenal for lignocellulosic biomass breakdown

Anthony Levasseur , Anne Lomascolo , Olivier Chabrol , Francisco J Ruiz-Dueñas , Eva Boukhris-Uzan et al.
BMC Genomics, 2014, 15 (1), pp.486. ⟨10.1186/1471-2164-15-486⟩
Article dans une revue hal-01204353 v1
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Identification of large intergenic non-coding RNAs in bovine muscle using next-generation transcriptomic sequencing.

Coline Billerey , Mekki Boussaha , Diane Esquerré , Emmanuelle Rebours , Anis Djari et al.
BMC Genomics, 2014, 15 (1), pp.499. ⟨10.1186/1471-2164-15-499⟩
Article dans une revue hal-01011303 v1

High-throughput sequencing analyses of XX genital ridges lacking [i]FOXL2[/i] reveal [i]DMRT1[/i] up-regulation before [i]SOX9[/i] expression during the sex-reversal process in goats

Maeva El Zaiat , Luc Jouneau , Dominique Thepot Thépot , Christophe Klopp , Aurélie Allais-Bonnet et al.
Biology of Reproduction, 2014, 91 (6), pp.1-14. ⟨10.1095/biolreprod.114.122796⟩
Article dans une revue hal-01194038 v1
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Novel Avian Coronavirus and Fulminating Disease in Guinea Fowl, France

Etienne Liais , Guillaume Croville , Jérôme J. Mariette , Maxence Delverdier , Marie-Noêlle Lucas et al.
Emerging Infectious Diseases, 2014, 20 (1), pp.105-108. ⟨10.3201/eid2001.130774⟩
Article dans une revue hal-02638202 v1
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An integrative method to normalize RNA-Seq data.

Cyril Filloux , Cédric Meerssemann , Romain Philippe , Lionel Forestier , Christophe Klopp et al.
BMC Bioinformatics, 2014, 15 (1), pp.188. ⟨10.1186/1471-2105-15-188⟩
Article dans une revue hal-01193836 v1
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Gonad transcriptome analysis of pearl oyster Pinctada margaritifera: identification of potential sex differentiation and sex determining genes

Vaihiti Teaniniuraitemoana , Arnaud Huvet , Peva Levy , Christophe Klopp , Emeline Lhuillier et al.
BMC Genomics, 2014, 15, pp.491. ⟨10.1186/1471-2164-15-491⟩
Article dans une revue hal-01719157 v1
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RNAbrowse: RNA-Seq de novo assembly results browser.

Jérôme J. Mariette , Céline Noirot , Ibouniyamine Nabihoudine , Philippe Bardou , Claire Hoede et al.
PLoS ONE, 2014, 9 (5), 7 p. ⟨10.1371/journal.pone.0096821⟩
Article dans une revue hal-02636622 v1
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Design and characterization of a 52K SNP chip for goats

Gwenola Tosser-Klopp , Philippe Bardou , Olivier Bouchez , Cédric Cabau , Richard Crooijmans et al.
PLoS ONE, 2014, 9, online (1), Non paginé. ⟨10.1371/journal.pone.0086227⟩
Article dans une revue hal-01019568 v1
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De Novo sequencing and transcriptome analysis for Tetramorium bicarinatum: a comprehensive venom gland transcriptome analysis from an ant species

Wafa Bouzid , Marion Verdenaud , Christophe Klopp , Frédéric Ducancel , Celine Noirot et al.
BMC Genomics, 2014
Article dans une revue hal-02053589 v1
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DNA methylation and transcription in a distal region upstream from the bovine alphaS1 casein gene after once or twice daily milking

Minh Nguyen , Marion Boutinaud , Barbara Petridou , Anne Gabory , Maëlle Pannetier et al.
PLoS ONE, 2014, 9 (11), pp.1-17. ⟨10.1371/journal.pone.0111556⟩
Article dans une revue hal-01193988 v1
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Complete Genome Sequence of a Field Strain of Peste des Petits Ruminants Virus Isolated during 2010-2014 Epidemics in Senegal

Habib Salami , Guillaume Croville , Olivier Kwiatek , Jérôme J. Mariette , Christophe Klopp et al.
Genome Announcements, 2014, 2 (5), ⟨10.1128/genomeA.00772-14⟩
Article dans une revue hal-02630225 v1
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jvenn: an interactive Venn diagram viewer

Philippe Bardou , Jérôme J. Mariette , Frédéric Escudié , Christophe Djemiel , Christophe Klopp
BMC Bioinformatics, 2014, 15 (1), pp.293. ⟨10.1186/1471-2105-15-293⟩
Article dans une revue hal-02640484 v1

De novo assembly of maritime pine transcriptome: implications for forest breeding and biotechnology

Javier Canales , Rocío Bautista , Philippe Label , Josefa Gómez-Maldonado , Isabelle Lesur Kupin Lesur et al.
Plant Biotechnology Journal, 2014, 12 (3), pp.286-299. ⟨10.1111/pbi.12136⟩
Article dans une revue hal-02640932 v1

The loss of adipokine genes in the chicken genome and implications for insulin metabolism

Natasa Dakovic , Morgane Terezol , Frederique Pitel , Virginie Maillard , Sébastien Elis et al.
Molecular Biology and Evolution, 2014, 31 (10), pp.2637-2646. ⟨10.1093/molbev/msu208⟩
Article dans une revue hal-01129850 v1
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Re-sequencing data for refining candidate genes and polymorphisms in QTL regions affecting adiposity in chicken

Pierre-François Roux , Morgane Boutin , Colette Désert , Anis Djari , Diane Esquerre et al.
PLoS ONE, 2014, 9 (10), pp.e111299. ⟨10.1371/journal.pone.0111299⟩
Article dans une revue hal-01207758 v1

Attenuated sensing of SHH by Ptch1 underlies evolution of bovine limbs

Javier Lopez-Rios , Amandine Duchesne , Dario Speziale , Guillaume Andrey , Kevin A Peterson et al.
Nature, 2014, 511 (7507), pp.46-51. ⟨10.1038/nature13289⟩
Article dans une revue hal-01193897 v1

Whole-genome sequencing of 234 bulls facilitates mapping of monogenic and complex traits in cattle

Hans D Daetwyler , Aurelien Capitan , Hubert Pausch , Paul Stothard , Rianne van Binsbergen et al.
Nature Genetics, 2014, 46 (8), pp.858-865. ⟨10.1038/ng.3034⟩
Article dans une revue hal-01193853 v1
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The rainbow trout genome provides novel insights into evolution after whole-genome duplication in vertebrates.

Camille Berthelot , Frédéric Brunet , Domitille Chalopin , Amélie Juanchich , Maria Bernard et al.
Nature Communications, 2014, 5, pp.1-10. ⟨10.1038/ncomms4657⟩
Article dans une revue hal-01193812 v1
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Detection of haplotypes associated with prenatal death in dairy cattle and identification of deleterious mutations in GART, SHBG and SLC37A2

Sebastien S. Fritz , Aurelien A. Capitan , Anis Djari , Sabrina S. Rodriguez , Anne Barbat et al.
PLoS ONE, 2013, 8, online (6), Non paginé. ⟨10.1371/journal.pone.0065550⟩
Article dans une revue hal-01000118 v1
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Microbial ecology of the rumen evaluated by 454 GS FLX pyrosequencing is affected by starch and oil supplementation of diets

Asma Zened , Sylvie Combes , Laurent Cauquil , Jérôme J. Mariette , Christophe Klopp et al.
FEMS Microbiology Ecology, 2013, 83 (2), pp.504-514. ⟨10.1111/1574-6941.12011⟩
Article dans une revue hal-02648977 v1
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Novel insights into the bovine polled phenotype and horn ontogenesis in Bovidae

Aurélie Allais-Bonnet , Cécile Grohs , Ivica I. Medugorac , Stefan S. Krebs , Anis Djari et al.
PLoS ONE, 2013, 8, online (5), Non paginé. ⟨10.1371/journal.pone.0063512⟩
Article dans une revue hal-01000794 v1

Whole-genome, deep pyrosequencing analysis of a duck influenza A virus evolution in swine cells

Vincent Bourret , Guillaume Croville , Jérôme J. Mariette , Christophe Klopp , Olivier O. Bouchez et al.
Infection, Genetics and Evolution, 2013, 18, pp.31 - 41. ⟨10.1016/j.meegid.2013.04.034⟩
Article dans une revue hal-02646502 v1
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High-density linkage mapping in a pine tree reveals a genomic region associated with inbreeding depression and provides clues to the extent and distribution of meiotic recombination

Emilie E. Chancerel , Jean-Baptiste J.-B. Lamy , Isabelle Lesur Kupin Lesur , Celine C. Noirot , Christophe Klopp et al.
BMC Biology, 2013, 11, 19 p. ⟨10.1186/1741-7007-11-50⟩
Article dans une revue hal-00964786 v1
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Transcriptional profiling of bud dormancy induction and release in oak by next-generation sequencing

Saneyoshi Ueno , Christophe Klopp , Jean-Charles Leplé , Jérémy Derory , Céline Noirot et al.
BMC Genomics, 2013, 14, 15 p. ⟨10.1186/1471-2164-14-236⟩
Article dans une revue hal-02650124 v1
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Gene-based single nucleotide polymorphism discovery in bovine muscle using next-generation transcriptomic sequencing

Anis Djari , Diane D. Esquerre , Bernard B. Weiss , Frédéric Martins Martins , Cédric Meerssemann Meersseman et al.
BMC Genomics, 2013, 14, online (may), Non paginé. ⟨10.1186/1471-2164-14-307⟩
Article dans une revue hal-01001073 v1

An immune-related gene evolved into the master sex-determining gene in Rainbow-trout, Oncorhynchus mykiss

Ayaka Yano , René R. Guyomard , Barbara B. Nicol , Elodie Jouanno , Edwige Quillet et al.
Current Biology, 2012, 22 (15), pp.1423-1428. ⟨10.1016/j.cub.2012.05.045⟩
Article dans une revue hal-01000319 v1
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Genome sequence of weissella confusa LBAE C39-2, isolated from a wheat sourdough

Myriam Amari , Sandrine Laguerre , Marlène Vuillemin , Hervé Robert , Valentin Loux et al.
Journal of Bacteriology, 2012, 194 (6), pp.1608-1609. ⟨10.1128/JB.06788-11⟩
Article dans une revue hal-01267779 v1
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A 3.7 Mb deletion encompassing ZEB2 causes a novel polled and multisystemic syndrome in the progeny of a somatic mosaic bull

Aurelien Capitan , Aurélie Allais-Bonnet , Alain Pinton , Brigitte Marquant-Le Guienne , Daniel Le Bourhis et al.
PLoS ONE, 2012, 7, online (11), Non paginé. ⟨10.1371/journal.pone.0049084⟩
Article dans une revue hal-01019835 v1
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Fine mapping of complex traits in non-model species: using next generation sequencing and advanced intercross lines in Japanese quail

Laure Fresard , Sophie Leroux , Patrice Dehais , Bertrand Servin , Hélène Gilbert et al.
BMC Genomics, 2012, 13, online (october), Non paginé. ⟨10.1186/1471-2164-13-551⟩
Article dans une revue hal-01129669 v1
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Characterization of rainbow trout gonad, brain and gill deep cDNA repertoires using a Roche 454-Titanium sequencing approach

Aurélie Le Cam , Julien Bobe , Olivier Bouchez , Cédric Cabeau , Olivier Kah et al.
Gene, 2012, 500 (1), pp.32-39. ⟨10.1016/j.gene.2012.03.053⟩
Article dans une revue istex hal-01205069 v1

The tomato genome sequence provides insights into fleshy fruit evolution

Shusei Sato , Satoshi Tabata , Hideki Hirakawa , Erika Asamizu , Kenta Shirasawa et al.
Nature, 2012, 485 (7400), pp.635-641. ⟨10.1038/nature11119⟩
Article dans une revue hal-02651748 v1

Pyrosequencing-based transcriptomic resources in the pond snail Lymnaea stagnalis, with a focus on genes involved in molecular response to diquat-induced stress

Anthony Bouetard , Celine Noirot , Anne-Laure Besnard , Olivier Bouchez , Damien Choisne et al.
Ecotoxicology, 2012, 21 (8), pp.2222-2234. ⟨10.1007/s10646-012-0977-1⟩
Article dans une revue istex hal-01210141 v1
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Metabolic adaptation to a high-fat diet is associated with a change in the gut microbiota.

Matteo Serino , Elodie Luche , Sandra Gres , Audrey Baylac , Mathieu Bergé et al.
Gut, 2012, 61 (4), pp.543-53. ⟨10.1136/gutjnl-2011-301012⟩
Article dans une revue inserm-00726182 v1
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Field Monitoring of Avian Influenza Viruses: Whole-Genome Sequencing and Tracking of Neuraminidase Evolution Using 454 Pyrosequencing

Guillaume Croville , Sebastien Mathieu Soubies , Johanna Barbieri , Christophe Klopp , Jérôme J. Mariette et al.
Journal of Clinical Microbiology, 2012, 50 (9), pp.2881-2887. ⟨10.1128/JCM.01142-12⟩
Article dans une revue hal-02651716 v1

Genome sequences of three Leuconostoc Citreum Strains, LBAE C10, LBAE C11, and LBAE E16, isolated from wheat sourdoughs

Sandrine Laguerre , Myriam Amari , Marlène Vuillemin , Hervé Robert , Valentin Loux et al.
Journal of Bacteriology, 2012, 194 (6), pp.1610-1611. ⟨10.1128/JB.06789-11⟩
Article dans une revue hal-01267778 v1

The tomato genome sequence provides insights into fleshy fruit evolution

Shusei Sato , Satoshi Tabata , Hideki Hirakawa , Erika Asamizu , Kenta Shirasawa et al.
Nature, 2012, 485 (7400), pp.635-641. ⟨10.1038/nature11119⟩
Article dans une revue hal-04198562 v1
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NG6: Integrated next generation sequencing storage and processing environment.

Jérôme J. Mariette , Frédéric Escudié , Nicolas Allias , Gérald Salin , Céline Noirot et al.
BMC Genomics, 2012, 13 (1), pp.462. ⟨10.1186/1471-2164-13-462⟩
Article dans une revue inserm-00733481 v1
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SigReannot-mart: a query environment for expression microarray probe re-annotations.

François Moreews , Gaelle Rauffet , Patrice Dehais , Christophe Klopp
Database - The journal of Biological Databases and Curation, 2011, 2011, pp.bar025. ⟨10.1093/database/bar025⟩
Article dans une revue inria-00638684 v1
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RNA-Seq reveals genotype-specific molecular responses to water deficit in eucalyptus

Emilie Villar , Christophe Klopp , Céline Noirot , Evandro Novaes , Matias Kirst et al.
BMC Genomics, 2011, 12, pp.1-18. ⟨10.1186/1471-2164-12-538⟩
Article dans une revue hal-02645044 v1

Involvement of tissue bacteria in the onset of diabetes in humans: evidence for a concept.

Jacques Amar , Matteo Serino , Cécile Lange , Chantal Chabo , Jason Iacovoni et al.
Diabetologia, 2011, 54 (12), pp.3055-61. ⟨10.1007/s00125-011-2329-8⟩
Article dans une revue inserm-00801269 v1
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Deciphering cork formation in Quercus suber

Jorge A.P. Paiva , Pedro Fevereiro , Pedro Marques , José Carlos Rodrigues , Grégoire G. Le Provost et al.
BMC Proceedings, 2011, 5 (Suppl 7), pp.172
Article dans une revue hal-02649545 v1
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Assessment of replicate bias in 454 pyrosequencing and a multi-purpose read-filtering tool

Jérôme J. Mariette , Céline Noirot , Christophe Klopp
BMC Research Notes, 2011, 4 (149), pp.1 - 4. ⟨10.1186/1756-0500-4-149⟩
Article dans une revue hal-02641837 v1
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Detection of genes involved in bud phenology in sessile oak (Quercus petraea Matt. Liebl) combining digital expression analysis and Q-PCR

Saneyoshi Ueno , Christophe Klopp , Céline Noirot , Valérie V. Léger , Elodie Prince et al.
BMC Proceedings, 2011, 5 (Suppl. 7), pp.1-2. ⟨10.1186/1753-6561-5-S7-P20⟩
Article dans une revue hal-02641988 v1
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Strengthening insights into host responses to mastitis infection in ruminants by combining heterogeneous microarray data sources

Sem Genini , Bouabid Badaoui , Gert Sclep , Stephen Bishop , Dave Waddington et al.
BMC Genomics, 2011, 12 (1), pp.225. ⟨10.1186/1471-2164-12-225⟩
Article dans une revue inserm-00601542 v1
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Non PCR-amplified transcripts and AFLP® fragments as reduced representations of the quail genome for 454 Titanium sequencing

Sophie Leroux , Katia Feve , Florence Vignoles , Olivier Bouchez , Christophe Klopp et al.
BMC Research Notes, 2010, 3, online (july), Non paginé. ⟨10.1186/1756-0500-3-214⟩
Article dans une revue hal-01129412 v1
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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 Noirot et al.
BMC Genomics, 2010, 11, pp.650. ⟨10.1186/1471-2164-11-650⟩
Article dans une revue hal-00645933 v1
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Functional metagenomics to mine the human gut microbiome for dietary fiber catabolic enzymes

Lena Tasse , Juliette Bercovici , Sandra Pizzut-Serin , Patrick Robe , Julien Tap et al.
Genome Research, 2010, 20 (11), pp.1605 - 1612. ⟨10.1101/gr.108332.110⟩
Article dans une revue hal-01204274 v1
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Generation and analysis of a 29,745 unique Expressed Sequence Tags from the Pacific oyster (Crassostrea gigas) assembled into a publicly accessible database: the GigasDatabase

Elodie Fleury , Arnaud Huvet , Christophe Lelong , Julien de Lorgeril , Viviane Boulo et al.
BMC Genomics, 2009, 10 (341), pp.341. ⟨10.1186/1471-2164-10-341⟩
Article dans une revue inria-00435769 v1
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sigReannot: an oligo-set re-annotation pipeline based on similarities with the Ensembl transcripts and Unigene clusters.

Casel Pierrot , François Moreews , Christophe Klopp
BMC Proceedings, 2009, 3 (4), pp.1-5. ⟨10.1186/1753-6561-3-S4-S3⟩
Article dans une revue inria-00435746 v1
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The EADGENE and SABRE post-analyses workshop

Florence Jaffrezic , Jakob Hedegaard , Magali San Cristobal , Christophe Klopp , Dirk-Jan de Koning
BMC Proceedings, 2009, 3, online (suppl. 4), Non paginé. ⟨10.1186/1753-6561-3-S4-I1⟩
Article dans une revue hal-01193449 v1
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Transcriptome profiling of the feeding-to-fasting transition in chicken liver.

Colette Désert , Michel Jacques M.J. Duclos , Pierre Blavy , Frédéric Lecerf , François Moreews et al.
BMC Genomics, 2008, 9 (611), pp.611. ⟨10.1186/1471-2164-9-611⟩
Article dans une revue hal-00729919 v1

AGScan: a pluggable microarray image quantification software based on the ImageJ library

R. Cathelin , Fabrice LOPEZ , Christophe Klopp
Bioinformatics, 2007, 23 (2), pp.247-248. ⟨10.1093/bioinformatics/btl564⟩
Article dans une revue hal-04541193 v1
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The construction of a cattle pangenome for 14 French dairy and beef breeds provides new insights into their genetic diversity.

Valentin Sorin , Marie-Pierre Sanchez , Carole Iampietro , Camille Eché , Amandine Suin et al.
75th Annual Meeting of the European Federation of Animal Science, EAAP, Sep 2024, Florence, Italy. pp.288
Communication dans un congrès hal-04694228 v1
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Genetic differentiation along an ocean/river gradient captures the signature of intragenerational selection in the European eel (Anguilla anguilla)

Stellia Sebihi , Sylvie Oddou-Muratorio , Aurélie Manicki , Christophe Klopp , Pascale Coste et al.
FSBI 2024 Annual Symposium, Jul 2024, Bilbao, Spain
Communication dans un congrès hal-04603141 v1

Genotyping a thousand animals using low coverage sequencing and imputation

Cervin Guyomar , Denis Milan , Christophe Klopp , Cécile Donnadieu , Bertrand Servin et al.
Genotoul biostat bioinfo day, Genotoul, Nov 2023, Toulouse, France
Communication dans un congrès hal-04669286 v1

A lncRNA gene-enriched atlas for GRCg7b chicken genome and its functional annotation across 47 tissues

Fabien Degalez , Mathieu Charles , Sylvain Foissac , Haijuan Zhou , Dailu Guan et al.
39. Congress of the international society for animal genetics (ISAG), Jul 2023, Cape Town, South Africa. pp.47
Communication dans un congrès hal-04217589 v1
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Improvement of the Bos taurus Genome Assembly using New Sequencing Technologies

Camille Eché , Carole Iampietro , Clement Birbes , Andreea Dreau , Claire Kuchly et al.
Discoveries Roadshow 2023 - PacBio, PacBio, May 2023, Paris, France
Communication dans un congrès hal-04096124 v1
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A yeast product improves the efficiency of a processed animal protein diet in rainbow trout by modulating the gut response

Laura Frohn , Sandrine Skiba-Cassy , Frédéric Terrier , Pierre Aguirre , Cervin Guyomar et al.
International Symposium of Fish Nutrition and Feeding, ISFNF, Jun 2022, Sorrento, Italy
Communication dans un congrès hal-04311746 v1
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UN EXTRAIT DE LEVURE AMELIORE L'EFFICACITE D'UN REGIME A BASE DE PROTEINES ANIMALES TRANSFORMEES CHEZ LA TRUITE ARC-EN-CIEL ET MODULE LA REPONSE INTESTINALE

Laura Frohn , Sandrine Skiba-Cassy , Frédéric Terrier , Pierre Aguirre , Cervin Guyomar et al.
7èmes Journées de la Recherche Piscicole, ITAVI, Jul 2022, Paris, France
Communication dans un congrès hal-04311786 v1
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Cellules germinales primordiales aviaires au cœur des avancées de la conservation des ressources génétiques et de l’édition des génomes. L’exemple français

Amélie Juanchich , Sabine Alves , Jacky Ezagal , Maria Bernard , Christophe Klopp et al.
14. Journées de la Recherche Avicole et Palmipèdes à Foie Gras, Mar 2022, Tours, France. pp.115-123
Communication dans un congrès hal-04275281 v1
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Transgenerational epigenetics in quail

Chloé Cerutti , Sophie Leroux , Paul Terzian , Joanna Lledo , David Gourichon et al.
Genotoul Biostat Bioinfo Day, Dec 2022, Castanet-Tolosan, France
Communication dans un congrès hal-03957296 v1
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French avian cryobank: development of reproductive biotechnologies based on primordial germ cells (PGCs) and investigation of the impact of in vitro steps on PGCs integrity and reproductive capacity

Marina Govoroun , Sabine Alves , Laura Soler-Vasco , Sophie Fouchécourt , Nadine Gérard et al.
26è World's Poultry Congress,, May 2022, Webinar, France
Communication dans un congrès hal-04276115 v1

In search of the honey bee centromeres: regions with tandem repeats high at content and low recombination rates

Alain Vignal , Sonia E Eynard , Christophe Klopp , Bertrand Servin , Kamila Canale-Tabet et al.
9th European Congress of Apidology, Sep 2022, Belgrade, Serbia
Communication dans un congrès hal-03855207 v1

RNA-seq data for detecting reliable SNPs & genotypes in livestock species: interest for coding variant characterization and cis-regulation analysis by allele-specific expression !

Frédéric Jehl , Fabien Degalez , Maria Bernard , Frédéric Lecerf , Laetitia Lagoutte et al.
World Poultry Congress (WPC) 2022, Aug 2022, Paris, France
Communication dans un congrès hal-04258396 v1

RNA-SEQ data for reliable SNP detection and genotype calling in livestock species: interest for coding variant characterization and cis-regulation analysis by allele-specific expression

Frédéric Jehl , Fabien Degalez , Maria Bernard , Frédéric Lecerf , Laetitia Lagoutte et al.
26. World's Poultry Congress (WPC), Aug 2022, Paris, France. pp.405
Communication dans un congrès hal-04132375 v1

The invasive hornet Vespa velutina carries both honey bee viruses and new viruses

Anne Dalmon , Philippe Gayral , Damien Decante , Christophe Klopp , Diane Bigot et al.
52nd Annual Meeting of the Society for Invertebrate Pathology, 2021, Valencia, Spain
Communication dans un congrès hal-03526230 v1

Deciphering the molecular mechanisms of pesticide tolerance of the soil engineer biodiversity

Audrey Barranger , Christophe Klopp , Barbara Le Bot , Gaëlle Saramito , Régis Lavigne et al.
SETAC Europe 30th Annual Meeting, SETAC, May 2020, Dublin, Ireland
Communication dans un congrès hal-03028275 v1
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European Honeybee Subspecies Genomes at the Individual and Population Levels

Alain Vignal , Benjamin Basso , Kaspar Bienefeld , Kamila Canale-Tabet , Cecilia Costa et al.
Plant and Animal Genome, Sep 2020, San-Diego, United States
Communication dans un congrès hal-02938071 v1
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An atlas of chicken long non-coding RNAs gathering multiple sources : gene models and expression across more than twenty tissues

Frédéric Jehl , Kévin Muret , Maria Bernard , Diane Esquerré , Hervé Acloque et al.
PAG XXVII - Plant & Animal Genome Conference, Jan 2019, San Diego, United States
Communication dans un congrès hal-02790912 v1

Transcriptomic profiling of eggs of pikeperch (Sander lucioperca) reveals novel egg-quality-associated transcripts

D. Żarski , Aurélie Le Cam , J. Nynca , Christophe Klopp , S. Ciesielski et al.
Aquaculture Europe 2019, European Aquaculture Society (EAS). BEL., Oct 2019, Berlin, Germany. 1672 p
Communication dans un congrès hal-02317179 v1

Difficulties to compare egg quality: insights from a transcriptomic analysis

Taina Rocha de Almeida , Julien Bobe , Aurélie Le Cam , Christophe Klopp , Jérôme Montfort et al.
7. International Workshop on the Biology of Fish Gametes, Sep 2019, Rennes, France. pp.61-62
Communication dans un congrès hal-02282230 v1

Transcriptomic profiling reveals novel biomarkers of egg quality in domesticated pikeperch, Sander lucioperca

Daniel Zarski , Joanna Nynca , Aurélie Le Cam , Christophe Klopp , Sławomir Ciesielski et al.
7. International Workshop on the Biology of Fish Gametes, Sep 2019, Rennes, France. pp.69-70
Communication dans un congrès hal-02282331 v1

Analysis of whole genome sequence data on a tropical admixed cattle breed: the creole cattle of Guadeloupe.

Gabrièle Adam , Diane Esquerre , Olivier Bouchez , Philippe Bardou , Christophe Klopp et al.
Caribbean Science ans Innovation Meeting 2019, Oct 2019, Pointe-à-Pitre (Guadeloupe), France
Communication dans un congrès hal-02423161 v1
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Sex chromosome evolution in Poeciliid fish

Manfred Schartl , Romain Feron , Alvaro Santacruz Roco , Susanne Kneitz , Verena A. Kottler et al.
Paradigm shift in sex chromosome evolution, Leibniz Institute of Freshwater Ecology and Inland Fisheries (IGB). DEU., Sep 2019, Berlin, Germany. 42 p., ⟨10.4126/FRL01-006417884⟩
Communication dans un congrès hal-02736598 v1

Tolerance of soil engineer to pesticide residual contamination in agrosystems: an omic strategy for studying the molecular mechanisms at play.

Audrey Barranger , Emmanuelle Com , Christophe Klopp , Françoise Binet
5e Colloque de Génomique environnementale, Oct 2019, La Rochelle, France
Communication dans un congrès hal-03028351 v1

De novo genome assembly of a western European Apis mellifera mellifera black bee

Alain Vignal , Sonia E Eynard , Christophe Klopp , Kamila Canale Tabet , William Marande et al.
Apimondia, Sep 2019, MOntréal, Canada
Communication dans un congrès hal-04796454 v1

Sauropsida ribosomal repeat : Deciphering of the intergenic spacer in chicken and terrapin

Alexander Dyomin , Svetlana Galkina , Valerie Fillon , Stephane Cauet , Celine Lopez-Roques et al.
37. International Society for Animal Genetics Conference (ISAG), Jul 2019, Lleida, Spain
Communication dans un congrès hal-02786983 v1

Identification of Long Non-Coding RNAs Linked to Parasite Host Immune Response in Sheep

Aroa Suárez-Vega , Samantha Dixon , Niel A Karrow , Paula Menzies , Bonnie A. Mallard et al.
PAG XXVII - Plant and Animal Genome Conference, Jan 2019, San Diego, United States
Communication dans un congrès hal-02786968 v1

The invasive hornet <em>Vespa velutina</em> carries both honey bee viruses and new viruses

Anne Dalmon , Philippe Gayral , Damien Decante , Christophe Klopp , Diane Bigot et al.
30ème Congrès UIEIS - Insectes Sociaux - Section Française, Aug 2019, Avignon, France
Communication dans un congrès hal-02788783 v1

Le projet mille génomes gallus : comment partager les données de séquences pour mieux les utiliser

Michèle Tixier-Boichard , Frédéric Lecerf , Philippe Bardou , Christophe Klopp
13.Journées de la recherche avicole et des palmipèdes à foie gras, Mar 2019, Tours, France
Communication dans un congrès hal-02737429 v1

Integrated metabolomic and transcriptomic analysis evaluating heat and feed stress in layer chickens

Denis Laloë , Frédéric Jehl , Colette Désert , Morgane Boutin , Sophie Leroux et al.
37. International Society for Animal Genetics (ISAG) Conference, Jul 2019, Lleida, Spain
Communication dans un congrès hal-02737948 v1
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An integrated information system dedicated to oak genomics and genetics

Joëlle Amselem , Nicolas Francillonne , Célia Michotey , Thomas Letellier , Jean-Marc Aury et al.
PAG XXVI Plant and Animal Genome Conference, Jan 2018, San Diego, United States. pp.27 slides
Communication dans un congrès hal-01839185 v1

Improving the knowledge of microchromosome repeated sequences in chicken by the sequencing of BAC clones with Pacific Bio technology

Valerie Fillon , Christophe Klopp , Yvette Lahbib Mansais , Noémie Thébault , Celine Lopez-Roques et al.
23. International Colloquium on Animal Cytogenetics and Genomics (ICACG), Jun 2018, Saint-Petersburg, Russia. 360 p
Communication dans un congrès hal-02733811 v1
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Layers response to a suboptimal diet through phenotype and transcriptome changes in four tissues

Frédéric Jehl , M. Brenet , Andrea Rau , Colette Désert , Morgane Boutin et al.
69. Annual Meeting of the European Association of Animal Production, Aug 2018, Dubrovnik, Croatia
Communication dans un congrès hal-02734608 v1

De novo genome assembly of a western European Apis mellifera mellifera black bee

Alain Vignal , Sonia Eynard , Christophe Klopp , Kamila Canale-Tabet , William Marande et al.
8. Congress of Apidology (EurBee 8), Sep 2018, Ghent, Belgium
Communication dans un congrès hal-02785743 v1
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Genome-wide study of structural variants in French dairy and beef breeds

Didier Boichard , Mekki Boussaha , Cécile Grohs , Rabia Letaief , Sebastien Fritz et al.
69. Annual Meeting of the European Federation of Animal Science (EAAP), Aug 2018, Dubrovnik, Croatia
Communication dans un congrès hal-02736390 v1

Transcriptome profiling of the honeybee parasite <em>Varroa destructor</em> provides new biological insights into the mite adult life cycle

Fanny Mondet , Andrea Rau , Christophe Klopp , Marine Rohmer , Dany Severac et al.
Eurbee 2018 : 8th European Conference of Apidology, Sep 2018, Gent, Belgium
Communication dans un congrès hal-02785629 v1

Etude multi-sites du transcriptome de dreissenidés : quels motifs de réponses ?

Romain Péden , Bénédicte Sohm , Marine Potet , Justine Flayac , Pascal Poupin et al.
Congrès de la Société d'Ecotoxicologie Fondamentale et Appliquée, Jun 2018, Montpellier, France
Communication dans un congrès hal-03172353 v1

In grafted grapevines, physiological, transcriptional and hormonal responses to nutrient availability are strongly influenced by the rootstock genetic background

Noe Cochetel , Antoine Gauthier , Eloïse Meteier , Isabelle Merlin , Cyril Hevin et al.
12. International Conference on Grapevine Breeding and Genetics (ICGBG), Jul 2018, Bordeaux, France. 306 p
Communication dans un congrès hal-02736860 v1
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Sex determination diversity in fish

M. Adolfi , Anabel Martinez-Bengochea , A.S. Roco , V. Kottler , - Du, K. et al.
11. International Symposium on Reproductive Physiology of Fish, Instituto Nacional de Pesquisas da Amazônia (INPA). Manaus, BRA., Jun 2018, Manaus, Brazil. 251 p
Communication dans un congrès hal-02737595 v1

Transcriptomics data of liver and adipose tissue highlight lncRNAs as candidates for the lipid metabolism regulation in broilers

Kévin Muret , Christophe Klopp , Diane Esquerre , Morgane Boutin , Colette Désert et al.
PAG XXVI - Plant and Animal Genome Conference, Jan 2018, San Diego, United States
Communication dans un congrès hal-01860010 v1

The route to the development of basal stem rot resistance in oil palm (Elaeis guineensis) via the discovery of lignin degradation process in the pathogen Ganoderma boninense

Joon Sheong Tan , Yang Ping Lee , S. Sulaiman , L. Camus-Kulandaivelu , Christophe Klopp et al.
International Symposia on Tropical and Temperate Horticulture (ISTTH), Nov 2016, Cairns, Australia. pp.12, ⟨10.17660/ActaHortic.2018.1205.42⟩
Communication dans un congrès hal-02736945 v1
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Genome-wide approaches to elucidate evolution of sex determination systems and sex determining genes in fish

Qiaowei Pan , Romain Feron , Elodie Jouanno , Ming Wen , Boudjema Imarazene et al.
8. International Symposium on the Biology of Vertebrate Sex Determination, Apr 2018, Kona (Hawaii), United States
Communication dans un congrès hal-02733991 v1

Liver and whole blood transcriptome response to chronic heat exposure in laying hens

Frédéric Jehl , Andrea Rau , Colette Désert , Morgane Boutin , Kévin Muret et al.
36. International Conference on Animal Genetics (ISAG), Jul 2017, Dublin, Ireland. pp.15
Communication dans un congrès hal-02463163 v1

GENESEA : développement de la sélection génomique chez le bar et la daurade

François Allal , Ronan Griot , Pierre-Alexandre Gagnaire , Christophe Klopp , Aline Bajek et al.
Journées Techniques du Sysaaf, Dec 2017, Rennes, France
Communication dans un congrès hal-03156734 v1

Evolution of gene expression in fish: The PhyloFish database

Jérémy Pasquier , Cédric Cabau , Thuy Thao Vi Nguyen , Elodie Dupin-De-Beyssat , Dany Severac et al.
8. Aquatic Models of Human Disease Conference, Jan 2017, Birmingham, United States
Communication dans un congrès hal-01607208 v1

Expression de gènes dans le foie de canards nourris ad libitum ou gavés

Frédéric Herault , Magalie Houee , Elisabeth Baéza , Olivier Bouchez , Diane Esquerre et al.
12. Journées de la Recherche Avicole et des Palmipèdes à Foie Gras, Apr 2017, Tours, France
Communication dans un congrès hal-01595082 v1
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MINTIA : Metagenomic INserT BIoinformatic Annotation in Galaxy

Sandrine Laguerre , Sarah Maman , Sabrina Legoueix , Elisabeth Laville , Gabrielle Veronese et al.
16th European Conference on Computational Biology, Jul 2017, Prague, Czech Republic
Communication dans un congrès hal-01886424 v1

Identification of the master sex determining gene in Northern pike (Esox lucius, Esociformes, Teleosts) and the dynamic evolution of sex determination system within esociformes

Qiaowei Pan , Ayaka Yano , Jennifer Anderson , Julien Bobe , Elodie Dupin-De-Beyssat et al.
1. European Symposium on Sex Determination in Vertebrates, Mar 2017, Dinard, France
Communication dans un congrès hal-01594642 v1

Identification of the master determining gene in Northern pike (Esox lucius, Esociformes, Teleosts) and its evolution within esociformes

Qiaowei Pan , Ayaka Yano , Jennifer Anderson , Julien Bobe , Elodie Dupin-De-Beyssat et al.
19. European Testis Workshop, Jun 2016, Saint-Malo, France
Communication dans un congrès hal-02742995 v1

Oak genome sequencing and evolution

Jerome J. Salse , Jean Marc Aury , Florent Murat , Sébastien Faye , Karine Labadie et 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-02741698 v1

Annotation of the oak genome sequence and associated bioinformatic resources

Joelle J. Amselem , Jean Marc Aury , Nicolas Francillonne , Tina Alaeitabar , Corinne da Silva et al.
IUFRO Genomics and Forest Tree Genetics, Institut National de Recherche Agronomique (INRA). UMR Biodiversité, Gènes et Communautés (1202)., May 2016, Arcachon, France. 134 p
Communication dans un congrès hal-02741128 v1

Identification of the master sex determining gene in northern pike (Esox lucius, Esociformes, Teleosts) and its evolution within esociformes

Qiaowei Pan , Ayaka Yano , Jennifer Anderson , Julien Bobe , Elodie Jouanno et al.
7. International Symposium on the Biology Vertebrate Sex Determination, Apr 2015, Kona, Hawaï, United States
Communication dans un congrès hal-02741864 v1

Applicaciones de nuevas herramientas moleculares en el ganado Creole de Guadeloupe

Michel Naves , Mathieu Gautier , Diane Esquerre , Christophe Klopp , Fabienne Tessiot
XVI. Simposio Iberoamericano sobre conservacion y utilizacion de recursos zoogeneticos, Oct 2015, Villavicencio, Colombia
Communication dans un congrès hal-02962027 v1
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Rapid discovery of mutations responsible for sporadic dominant genetic defects in livestock using genome sequence data: enhancing the value of farm animals as model species

Aurelien Capitan , Pauline Michot , François Guillaume , Cécile Grohs , Anis Djari et al.
10. World Congress of Genetics Applied to Livestock Production, Aug 2014, Vancouver, Canada
Communication dans un congrès hal-01193912 v1

Rna-seq analysis of transcriptome response to VHS-V infection in two target tissues of resistant vs susceptible trout clonal lines

Carine Genet , E.R. Verrier , Céline Ciobotaru , Christophe Klopp , Diane Esquerre et al.
10. World Congress of Genetics Applied to Livestock Production, Aug 2014, Vancouver, Canada
Communication dans un congrès hal-01194071 v1
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An avian coronavirus associated with fulminating disease of guinea fowl

Etienne Liais , Guillaume Croville , Jérôme J. Mariette , Maxence Delverdier , Marie-Noêlle Lucas et al.
8th International Symposium on Avian Corona- and Metapneumoviruses and Complicating Pathogens, 2014, Rauishozhausen, Germany
Communication dans un congrès hal-02740721 v1
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DMRT1 turns on testicular differentiation during XX sex-reversal in the goat

Maeva El Zaiat , Luc Jouneau , Dominique Thepot Thépot , Christophe Klopp , Aurélie Allais-Bonnet et al.
18. European Testis Workshop, May 2014, Elsinore, Denmark. 1 p
Communication dans un congrès hal-01193822 v1
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Identification de gènes différentiellement exprimés dans deux tissus cibles de lignées clonales de truite sensibles ou résistantes à la SHV

Carine Genet , E.R. Verrier , Céline Ciobotaru , Christophe Klopp , Diane Esquerre et al.
Séminaire du Département de Génétique animale, Apr 2014, Fréjus, France. 1 p
Communication dans un congrès hal-01193891 v1
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Integration of European eel transcriptome into the PHYLOFISH project, a high throughput phylogenomic analysis designed to study teleost gene evolution after whole genome duplication

Jérémy Pasquier , Cédric Cabau , P. Gouret , L. Journot , Christophe Klopp et al.
Eel genome symposium 2014, Jan 2014, Leiden, Netherlands
Communication dans un congrès hal-02743789 v1
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Combining Genetics Mapping, Selective Sweeps, Genome Re-Requencing and Allele Specific Expression Reveals Several Serious Causative Genes for QTL Regions

Pierre-François Roux , Simon Boitard , Anis Djari , Diane Esquerre , Colette Désert et al.
International Plant & Animal Genome XXII (PAG), Jan 2014, San Diego, United States
Communication dans un congrès hal-01193794 v1

La monotraite induit la méthylation d'une région régulatrice distale en amont du gène de la caséine- S1

Minh Nguyen , Marion Boutinaud , Barbara Petridou , Sophie Chat , Stephan Bouet et al.
20. Rencontres autour des Recherches sur les Ruminants, Institut de l'Elevage (IDELE). FRA. Institut National de la Recherche Agronomique (INRA)., Dec 2013, Paris, France. pp.79-81
Communication dans un congrès hal-01019187 v1

Analyse de transcriptomes de foies de canards par séquençage d’ARN (RNA-Seq)

Christian Diot , Magalie Houee , Olivier Demeure , Elisabeth Baéza , Alain Vignal et al.
10. Journées de la Recherche Avicole et Palmipèdes à Foie Gras, La Rochelle., Mar 2013, La Rochelle, France
Communication dans un congrès hal-01210404 v1

Utilisation des NGS pour la caractérisation génétique de lignées de poulet de chair et poules de ponte

Pierre-François Roux Roux , Frédéric Lecerf , Anis Djari , Diane D. Esquerre , Sylvain S. Marthey et al.
10. Journées de la Recherche Avicole et Palmipèdes à Foie Gras, Mar 2013, La Rochelle, France. pp.556-561
Communication dans un congrès hal-01000659 v1

CHIPSTRAFFIC : identification des gènes cibles de facteurs de transcription bovins par ChIP et ChIP-seq dans l'endomètre et les tissus extra-embryonnaires à l'implantation

Anais Carvalho , Geneviève Jolivet , Kamelia Kara-Ali , Caroline Eozenou , Corinne Giraud-Delville et al.
Séminaire de restitution AIP Bioressources, Institut National de Recherche Agronomique (INRA). US Etude du Polymorphisme des Génomes Végétaux (1279)., Feb 2013, Paris, France. pp.106-108
Communication dans un congrès hal-01019203 v1

Transcriptome analysis of expressed sequence tags (ESTs) from the venom glands of the ant species Tetramorium bicarinatum (Hymenoptera: Formicidae)

W. Bouzid , Christophe Klopp , A. Vetillard
20th Meeting of the French-Society-of-Toxinology (SFET), Dec 2012, Paris, France. pp.2, ⟨10.1016/j.toxicon.2013.08.018⟩
Communication dans un congrès istex hal-02746574 v1
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Ouverture d'un service d'autoformation en ligne : Pour se former en fonction de ses besoins du moment.

Sarah Maman Haddad , Christophe Klopp
JOBIM 2013 - Journées Ouvertes en Biologie, Informatique et Mathématiques, 2013, Toulouse, France. 3p
Communication dans un congrès hal-02810078 v1

Genome-wide analysis of long non-coding RNAs expression during gonad differentiation in bovine

Maëlle Pannetier , Luc Jouneau , Christophe Klopp , Denis Laloë , Maeva M. El Zaiat et al.
EMBL Symposia The non coding genome, EMBO. DEU., Oct 2013, Heidelberg, Germany. 1 p
Communication dans un congrès hal-01004536 v1
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Identification de QTL associés à de la mortalité embryonnaire chez les bovins laitiers

Sébastien Fritz , Aurelien Capitan , Anis Djari , Cécile Grohs , Mekki Boussaha et al.
20. Rencontres autour des Recherches sur les Ruminants, Dec 2013, Paris, France. pp.145-148
Communication dans un congrès hal-01189868 v1
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Identification of candidate polymorphism in a QTL region by combining eQTL mapping with NGS data

Pierre-François Roux , Yuna Blum , Colette Désert , Anis Djari , Diane Esquerre et al.
64th Annual Meeting of the European Federation of Animal Science (EAAP), Aug 2013, Nantes, France. pp.300
Communication dans un congrès hal-01019609 v1

An avian coronavirus associated with fulminating disease of guinea fowl

Mariette Ducatez , Etienne Liais , Guillaume Croville , Léni Corrand , Maxence Delverdier et al.
1st Annual COST Action FA1207 meeting, 2013, Germany
Communication dans un congrès hal-02805928 v1
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Using NGS data to characterize genetics of meet-type and egg-type chicken lines

Pierre-François Roux , Frédéric Lecerf , Anis Djari , Diane Esquerre , Sylvain Marthey et al.
64th Annual Meeting of the European Federation of Animal Science (EAAP), Aug 2013, Nantes, France. pp.296
Communication dans un congrès hal-01019218 v1
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Concordance analysis: from QTL to candidate causative mutations

Irene van den Berg , Sebastien Fritz , Anis Djari , Diane Esquerre , Christophe Klopp et al.
64th Annual Meeting European Association for Animal Production (EAAP), Aug 2013, Nantes, France. pp.234
Communication dans un congrès hal-01190502 v1

An immune-related gene evolved into a conserved master sex-determining gene in the salmonid fish family

Ayaka Yano , René Guyomard , Barbara Nicol , Elodie Jouanno , Edwige Quillet et al.
Conférences Jacques Monod: “Avancées récentes sur l'évolution du sexe et des systèmes génétiques", May 2013, Roscoff, France
Communication dans un congrès hal-01194065 v1

LncRNA expression and increased DNA methylation in a distal region upstream from the alphaS1 casein gene after once daily milking

Minh M. Nguyen , Marion Boutinaud , Madia Charlier , Anne Gabory , Laurent Galio et al.
Conférences Jacques Monod "DNA methylation and demethylation", Centre National de la Recherche Scientifique (CNRS). FRA., Sep 2013, Roscoff, France
Communication dans un congrès hal-01001076 v1
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Identification of five novel mutations responsible for prenatal mortality in dairy cattle

Sebastien Fritz , Aurelien Capitan , Anis Djari , Sabrina Rodriguez , Anne Barbat et al.
International Plant & Animal Genome XXI, Jan 2013, San Diego, CA, United States
Communication dans un congrès hal-01019848 v1

LncRNA expression and increased DNA methylation in a distal region upstream from the alphaS1 casein gene after once daily milking

Minh M. Nguyen , Marion Boutinaud , Madia Charlier , Anne Gabory , Laurent Galio et al.
International Plant and Animal Genome XXI, Scherago International Inc. Jersey City, NJ, USA., Jan 2013, San Diego, United States
Communication dans un congrès hal-01000385 v1

Analyse à grande échelle des ARN non codants longs exprimés au cours de la différenciation gonadique chez le bovin

Maëlle Pannetier , Luc Jouneau , Christophe Klopp , Denis Laloë , Maeva El Zaiat et al.
Journées d'Animation Scientifique Phase 2013, Institut National de Recherche Agronomique (INRA). UAR Département Physiologie Animale et Systèmes d'Elevage (0558)., Oct 2013, Paris, France. pp.1-2
Communication dans un congrès hal-01019564 v1
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Identification of six mutations responsible for prenatal mortality in dairy cattle

Didier Boichard , Aurelien Capitan , Anis Djari , S.C. Rodriguez , Anne Barbat et al.
64th Annual Meeting European Association for Animal Production (EAAP), Aug 2013, Nantes, France. pp.231
Communication dans un congrès hal-01190515 v1

Identification of genes involved in bud dormancy in sessile oak (Quercus petraea Matt. Liebl) using RNA-seq

Grégoire G. Le Provost , Ueno Saneyoshi , Christophe Klopp , Jean-Charles Leplé , Jérémy Derory et al.
IUFRO working group “Genetics of Quercus and Nothofagus”, Institut National de Recherche Agronomique (INRA). UMR Biodiversité, Gènes et Communautés (1202)., Oct 2012, Bordeaux, France. 1 p
Communication dans un congrès hal-02809075 v1

Involvment of [i]DMRT1[/i] in XX sex-reversed polled goats

Maeva Elzaiat , Dominique Thepot Thépot , Luc Jouneau , Aurélie Allais-Bonnet , Christophe Klopp et al.
6. International Symposium on the Biology of Vertebrate Sex Determination, Vertebrate-biosex. USA., Apr 2012, Kona, Hawai, United States. 1 p
Communication dans un congrès hal-01019618 v1

Sequencing and analysis of the oak transcriptome using RNA-seq technologies

Isabelle Lesur Kupin Lesur , Grégoire G. Le Provost , Céline C. Lalanne , François Ehrenmann , Céline Noirot et al.
IUFRO working group “Genetics of Quercus and Nothofagus”, Institut National de Recherche Agronomique (INRA). UMR Biodiversité, Gènes et Communautés (1202)., Oct 2012, Bordeaux, France. 1 p
Communication dans un congrès hal-02806071 v1

SUBERGENE: Developing genomics resources for cork-oak (Q. suber L.)

Jorge Almiro Paiva , Pedro Fevereiro , Pedro Marques , José Carlos Rodrigues , Grégoire G. Le Provost et al.
IUFRO working group “Genetics of Quercus and Nothofagus”, Institut National de Recherche Agronomique (INRA). UMR Biodiversité, Gènes et Communautés (1202)., Oct 2012, Bordeaux, France. 2 p
Communication dans un congrès hal-02809590 v1

New insights into sex differentiation and determination for a better sex control in salmonids

Ayaka Yano , Barbara B. Nicol , René R. Guyomard , Elodie Jouanno , Edwige Quillet et al.
Aqua 2012, European Aquaculture Society (EAS). BEL., Sep 2012, Prague, Czech Republic
Communication dans un congrès hal-02744513 v1

GENIDOV: Gene network involved in ovarian development in goat and mouse

Eric Pailhoux , Maëlle Pannetier , Dominique Thepot Thépot , Geneviève Jolivet , Ikrame Naciri et al.
9. Colloque Agenae / ANR, Colloque Génomique Animale et Microbienne, AGENAE - Analyse du Génome des Animaux d'Elevage (AGENAE). FRA., Mar 2012, La Rochelle, France. 1 p
Communication dans un congrès hal-01193796 v1

MEETAC - Valorisation des données transcriptomiques bovines à l’interface mère-embryon pour une compréhension intégrée de l’implantation

Olivier Sandra , Christophe Klopp , Jean-François Gibrat , Claire Ponsart , Maria-Céleste Le Bourhis
9. Colloque Agenae / ANR, Colloque Génomique Animale et Microbienne, AGENAE - Analyse du Génome des Animaux d'Elevage (AGENAE). FRA., Mar 2012, La Rochelle, France. pp.90
Communication dans un congrès hal-02747630 v1

DNA methylation and ncRNA transcription at aCSN1S1 regulatory region in the bovine mammary gland

Minh Nguyen , Stephan Bouet , Marion Boutinaud , Barbara Petridou , Frederic Dessauge et al.
9.International Symposium on Milk Genomics and Human Health, International Milk Genomics Consortium (IMGC). Davis, USA., Oct 2012, Wageningen, Netherlands. pp.1
Communication dans un congrès hal-01455867 v1
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Détection moléculaire et caractérisation de virus respiratoires du canard par une approche de séquençage à haut débit

Etienne Liais , Guillaume Croville , Jérôme J. Mariette , Christophe Klopp , Cécile Donnadieu et al.
Journée SEVAB, Nov 2012, Toulouse, France
Communication dans un congrès hal-01191337 v1

Goat genome assembly, availability of an international 50K SNP chip and RH panel: an update of the international goat genome consortium projects

Gwenola Tosser-Klopp , Cédric Cabau , Andre Eggen , Thomas Faraut , Henri Heuven et al.
20. Conference of the Plant & Animal Genome, Plant & Animal Genome (PAG). USA., Jan 2012, San Diego, United States. 28 diapositives
Communication dans un congrès hal-01019243 v1
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Molecular detection and characterization of duck respiratory viruses using unbiased high-throughput sequencing

Etienne Liais , Guillaume Croville , Jérôme J. Mariette , Christophe Klopp , Fabrice Lagoutte et al.
ESVV 2012, european society for veterinary virology (ESVV)., Sep 2012, Madrid, Spain
Communication dans un congrès hal-01191333 v1

Caractérisation d'un gène déterminant majeur du sexe conservé chez les salmonidés

Ayaka Yano , René R. Guyomard , Elodie Jouanno , Barbara B. Nicol , Christophe Klopp et al.
3. Journées de la Recherche Filière Piscicole, Jul 2012, Paris, France. pp.109
Communication dans un congrès hal-01000327 v1

New insights on sex determination in salmonids

Ayaka Yano , René Guyomard , Elodie Jouanno , Barbara Nicol , Edwige Quillet et al.
6. International Symposium on The Biology of Vertebrate Sex Determination, Apr 2012, Kona (Hawaii), United States. pp.45
Communication dans un congrès hal-01019433 v1

Development of genomic resources to study the structure, function and evolution of the oak genome

Christophe Plomion , Joelle J. Amselem , Jean-Marc Aury , Catherine Bodenes , Emilie Chancerel et al.
IUFRO working group "Genetics of Quercus and Nothofagus", Institut National de Recherche Agronomique (INRA). UMR Biodiversité, Gènes et Communautés (1202)., Oct 2012, Bordeaux, France. 1 p
Communication dans un congrès hal-01019850 v1

Long non-coding RNAs and sex-differentiating genes in bovines

Maeva El Zaiat , Christophe Klopp , Luc Jouneau , Olivier Sandra , Eve Devinoy et al.
1.Course on non coding genome, Institut Curie. Paris, FRA., Jun 2012, Paris, France. 1 p
Communication dans un congrès hal-01019018 v1
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Towards a high density SNP International Goat Chip

Gwenola Tosser-Klopp , Abdullah Johari Jiken , Philippe Bardou , Cédric Cabau , Patrice Dehais et al.
Plant and Animal Genome, Jan 2011, San Diégo, United States
Communication dans un congrès hal-01194170 v1
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Diversité et biologie intégrative : des pistes à explorer pour combler le gap entre diversité génétique et diversité phénotypique

Magali San Cristobal , Simon S. Boitard , Marcel M. Bouffaud , Cécile Canlet , Leonor L. Chaltiel et al.
COLLOQUE FRB : Les Ressources Génétiques (RG) face aux nouveaux enjeux environnementaux, économiques et sociétaux, Sep 2011, Montpellier, France
Communication dans un congrès hal-01000087 v1

Characterization of rainbow trout gonad, brain and gill deep cDNA repertoires using a Roche 454-Titanium sequencing approach

Aurélie Le Cam , Julien Bobe , Olivier O. Bouchez , Cédric Cabeau , Olivier Kah et al.
Animation de l'axe technologique génomique de Biogenouest, Plateforme Génomique Santé Biogenouest®. FRA., Apr 2011, Rennes, France
Communication dans un congrès hal-02747070 v1
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Maritime pine (Pinus pinaster) de novo transcriptome assembly

Philippe Label , Céline Noirot , Grégoire G. Le Provost , María-Teresa Cervera , Christophe Plomion et al.
3. workshop on "Statistical challenges on the 1000€ genome sequences in plants";StatSeq'2011, Apr 2011, Toulouse, France
Communication dans un congrès hal-02750183 v1

Characterization of a microbiota of intestinal origin in white adipose tissue and stroma vascular fraction from healthy and patients according to their BMI

M. M. Serino , E. E. Luche , P. P. Klopp , C. C. Chabo , Olivier O. Bouchez et al.
Congrès de la Société Francophone du Diabète, Mar 2011, Genève, Switzerland. pp.A32
Communication dans un congrès hal-01001551 v1

Développement de SNP chez la caille par séquençage haut-débit

Sophie S. Leroux , Katia K. Feve , Florence F. Vignoles , Olivier O. Bouchez , Laure Frésard et al.
9. Journées de la Recherche Avicole, Mar 2011, Tours, France
Communication dans un congrès hal-02750356 v1

Analysis of expressed sequence tags in maritime pine (Pinus pinaster Aiton)

Grégoire G. Le Provost , Jean-Marc Frigerio , Philippe Chaumeil , Saneyoshi Ueno , Camille Lepoittevin et al.
Conference on Forest Ecosystem Genomics and Adaptation, Jun 2010, Madrid, Spain
Communication dans un congrès hal-02758480 v1

Bioinformatic analysis of Sanger and 454 ESTs in oak

Saneyoshi S. Ueno , Grégoire G. Le Provost , Valérie V. Léger , Christophe Klopp , Celine C. Noirot et al.
Conference on Forest Ecosystem Genomics and Adaptation, Jun 2010, Madrid, Spain. pp.73
Communication dans un congrès hal-00964385 v1

Development of polymorphic markers in quail by new generation sequencing

Florence Vignoles , Katia Feve , Sophie Leroux , David Gourichon , Christine Leterrier et al.
13. European Poultry Conference (EPC 2010), Aug 2010, Tours, France
Communication dans un congrès hal-01193587 v1

Meetac - Valorisation des données transcriptomiques bovines à l’interface mère-embryon pour une compréhension intégrée de l’implantation (2009-2012)

Olivier Sandra , Isabelle Hue , Jean-François Gibrat , Christophe Klopp , Claire Ponsart et al.
8. Journées AGENAE, Nov 2010, Bordeaux, France
Communication dans un congrès hal-02752240 v1

Pyroséquençage pour le développement d'EST et de SNP (PYRESAVI) chez le canard

Frederique Pitel , Sophie S. Leroux , Katia K. Feve , Florence F. Vignoles , Cécile C. Duby et al.
9. Journées de la Recherche sur les Palmipèdes à Foie Gras, Oct 2010, Bordeaux, France
Communication dans un congrès hal-02758288 v1

Transcriptome analysis of bud dormancy in sessile oak (Quercus petraea (Matt.) Libel.) by 454 pyrosequencing

Saneyoshi Ueno , Grégoire G. Le Provost , Céline Noirot , Christophe Klopp , Antoine Kremer et al.
Conference on Forest Ecosystem Genomics and Adaptation, Jun 2010, Madrid, Spain
Communication dans un congrès hal-02753292 v1
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Pyroséquençage pour le développement d'EST et de SNP aviaires

Frederique Pitel , Alain Vignal , Sophie Leroux , Katia Feve , Florence Vignoles et al.
8èmes Journées de la Recherche Avicole, Mar 2009, Paris (FR), France. pp.594-598
Communication dans un congrès hal-00730058 v1

Détection de SNP dans l'espèce caprine, un premier pas vers la génomique

Isabelle Palhiere Palhière , Carole Moreno-Romieux , Christophe Klopp , Virginie Clément , C. Lecomte et al.
16. Rencontres Recherches Ruminants, Dec 2009, Paris, France
Communication dans un congrès hal-02755104 v1

Utilisation dune puce 60 000 SNP pour cartographier finement des QTL affectant des caractères de production, de résistance aux maladies et de comportement chez les ovins

Carole Moreno-Romieux , Bertrand Servin , Thomas Faraut , Christophe Klopp , Rachel Rupp et al.
16. Rencontres autour des Recherches sur les Ruminants, Dec 2009, Paris, France
Communication dans un congrès hal-02755058 v1

Profils transcriptomiques de foies de poulet soumis au jeûne : utilisation d'une puce à ADN de 20000 oligonucléotides

Marc Aubry , Colette Désert , Pierre Blavy , Frédéric Lecerf , Michel Jacques M.J. Duclos et al.
Journées Scientifiques, Département de Génétique Animale, Apr 2008, Lacanau, France
Communication dans un congrès hal-00729786 v1

Recherche de manifestations épigénétiques chez la poule

Mireille Morisson , Olivier O. Demeure , Christophe Klopp , Yvette Lahbib Mansais , David Gourichon et al.
Journées Scientifiques, Département de Génétique Animale, Apr 2008, Lacanau, France
Communication dans un congrès hal-02821618 v1

The INRA AGENAE program and the Agenae trout EST collections: first results applied to fish physiology research

Sandrine Aegerter , Daniel Baron , C. Carpentier , François Chauvigné , Christelle Dantec et al.
Experimental Biology Annual Main Meeting, Mar 2004, Edinburgh, United Kingdom
Communication dans un congrès hal-02761230 v1

Avancées du transcriptome sur 4 espèces : bovin, porc, poulet, truite

Florence Le Gac , Yann Guiguen , Madeleine Douaire , François Hatey , Gwenola Tosser-Klopp et al.
Colloque Génomique des Animaux d'Elevage, May 2003, Seignosse-le-Pénon, France
Communication dans un congrès hal-02830199 v1
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Transgenerational epigenetics in quail: targeting DNA methylation patterns to address the interplay between genetic and epigenetic mechanisms

Stacy Rousse , Chloé Cerutti , Sophie Leroux , Paul Terzian , Joanna Lledo et al.
Ecology and Evolution, Oct 2024, Lyon, France
Poster de conférence hal-04770637 v1
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Benchmarking of sequencing technologies for CpG methylation detection: applications to quail and pig

Céline Vandecasteele , Paul Terzian , Joanna Lledo , Rémy-Félix Serre , Jules Sabban et al.
London Calling 2024, May 2024, London, France
Poster de conférence hal-04638952 v1
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A Bos taurus sequencing methods benchmark for assembly, haplotyping, and variant calling

Camille Eché , Carole Iampietro , Clément Birbes , Andreea Dréau , Claire Kuchly et al.
Plant and Genome San Diego 2024, Jan 2024, San Diego (California), United States. 10, 2024
Poster de conférence hal-04432803 v1
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DeFIS - Detection pipeline with k-mers analysis to identify species

Sarah Maman , Gaston Rognon , Chloé Bellanger , Léonard Ransan , Patrick Jacques et al.
JOBIM, Jun 2024, Toulouse, France
Poster de conférence hal-04728545 v1
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Major contribution to the bovine pangenome: whole genome sequences, SNPs, and structural variants of 154 bulls from 14 breeds

Amandine Suin , Camille Marcuzzo , Camille Eché , Andreea Dréau , Clément Birbes et al.
Plant and Genome San Diego 2024, Jan 2024, San Diego, United States
Poster de conférence hal-04432840 v1
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Decoding ancient genomes: Genomics approaches and innovative species recognition pipeline for diadromous fish

Patrick Jacques , Sarah Maman , Régis Debruyne , Brice Ephrem , Aurélie Manicki et al.
The 20th Portugaliæ Genetica: DNA - Ancient and New (21-22 March 2024), Mar 2024, Porto (Portugal), France. 2024, ⟨10.13140/RG.2.2.12906.53442⟩
Poster de conférence hal-04568047 v1

Construction of a 16S mini barcode library for french wild bees

Pichon Magalie , Vignal Alain , Labarthe Emmanuelle , Escaravage Nathalie , Géraldine Pascal et al.
APIMONDIA, Sep 2023, SANTIAGO DU CHILI, Chile. 2023
Poster de conférence hal-04220138 v1

A multidisciplinary approach to highlight the mechanisms supporting perceptual interactions in odor mixture

Thierry Thomas-Danguin , Anne-Marie Le Bon , Olivier Taboureau , David Jarriault , Frédérique Datiche et al.
13. Wartburg symposium on flavour chemistry and biology, Oct 2023, Eisenach, Germany
Poster de conférence hal-04234447 v1
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Volume reduction and automation of DNAprep libraries for low pass sequencing

Marcuzzo Camille , Cervin Guyomar , Amandine Suin , Adrien Castinel , Carole Iampietro et al.
Assemblée générale France Génomique, Jun 2023, Paris, France
Poster de conférence hal-04590691 v1

A lncRNA gene-enriched atlas for GRCg7b chicken genome using Ensembl, RefSeq and two FAANG databases

Fabien Degalez , Mathieu Charles , Sylvain Foissac , Zhou Haijuan , Guan Dailu et al.
74. Annual meeting of the european federation of animal science (EAAP), Aug 2023, Lyon, France. Wageningen Academic Publishers, Book of abstracts, 29, pp.932, 2023, Book of abstracts of the 74st annual meeting of the european federation of animal science
Poster de conférence hal-04217567 v1

Multidisciplinary approach to explore interactions in odor mixture perception

Thierry Thomas-Danguin , Anne-Marie Le Bon , Olivier Taboureau , Florian Koensgen , David Jarriault et al.
45. annual meeting - association for chemoreception sciences (AChemS), Apr 2023, Bonita Springs, Florida, United States.
Poster de conférence hal-04101265 v1
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Transgenerational epigenetics in quail: whole genome DNA methylation analysis

Chloé Cerutti , Sophie Leroux , Paul Terzian , Joanna Lledo , David Gourichon et al.
Epigenetic Inheritance: Impact for Biology and Society, Aug 2023, Zurich, Switzerland
Poster de conférence hal-04212971 v1
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A lncRNA gene-enriched atlas for GRCg7b chicken genome and its functional annotation across 47 tissues

Fabien Degalez , Mathieu Charles , Sylvain Foissac , Haijuan Zhou , Dailu Guan et al.
39. Congress of the international society for animal genetics (ISAG), Jul 2023, Cape Town, South Africa. , pp.78, 2023, Abstracts
Poster de conférence hal-04217582 v1
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Structural variants detection and de novo genome assembly of a maize line

Carole Iampietro , Camille Eché , Clément Birbes , Arnaud Di Franco , Andreea Dréau et al.
Plant & Animal Genome Conference (PAG) 2022, Jan 2022, San Diego, United States
Poster de conférence hal-03541379 v1

CONSTRUCTION OF A 16S MINI BARCODE LIBRARY FOR FRENCH WILD BEES

Kamila Canale-Tabet , Emmanuelle Labarthe , Alain Vignal , Nathalie Escaravage , Géraldine Pascal et al.
9th European Congress of Apidology, Sep 2022, belgrade, Serbia
Poster de conférence hal-03855355 v1

Partial endoreplication challenges whole genome assembly: the case of #Vanilla planifolia# (Orchidaceae)

Sonja Siljak-Yakovlev , Olivier Bouchez , Céline Lopez-Roques , Sandra Lepers-Andrzejewski , Laurent Bourgois et al.
Plant Genomics and Gene Editing Congress: Europe, Apr 2022, La Hague, Netherlands. 2022
Poster de conférence hal-04343958 v1
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Transgenerational epigenetics in quail

Chloé Cerutti , Sophie Leroux , Paul Terzian , Joanna Lledo , David Gourichon et al.
ECCB2022 - 21st European Conference on Computational Biology, Sep 2022, Sitges, Spain
Poster de conférence hal-03935584 v1
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Preliminary results from Nanopore Q20+ sequencing

Claire Kuchly , Jules Sabban , Eden Darnige , Camille Eché , Amandine Suin et al.
JOBIM 2022 : Journées Ouvertes Biologie Informatique Mathématiques, Jul 2022, RENNES, France. 2022
Poster de conférence hal-03719401 v1
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De novo assembly of 90 bovines genomes using PacBio CLR application comparison and optimization

Camille Marcuzzo , Amandine Suin , Camille Eché , Andreea Dreau , Clément Birbes et al.
Assemblée générale France Génomique, Jun 2022, Paris, France
Poster de conférence hal-04590746 v1
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Structural variants detection and de novo genome assembly of a Maize line

Camille Eché , Clement Birbes , Carole Iampietro , Arnaud Di Franco , Andreea Dreau et al.
SMRT Leiden 2021 – Young Investigator Virtual Conference, May 2021, virtuel, Netherlands
Poster de conférence hal-03541316 v1
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De novo assembling 19 maize inbred lines of the European germplasm

Carole Iampietro , Camille Eché , Clement Birbes , Andreea Dreau , Erwan Denis et al.
63rd Annual Maize Genetics Meeting, Mar 2021, virtuel, United States
Poster de conférence hal-03539396 v1
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De novo assembly of bovine genome using PacBio applications

Camille Eché , Clément Birbes , Carole Iampietro , Andreea Dréau , Claire Kuchly et al.
SMRT Leiden 2021 – Young Investigator Virtual Conference, May 2021, virtuel, Netherlands
Poster de conférence hal-03541224 v1
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Whole metagenome analysis with metagWGS

Joanna Fourquet , Céline Noirot , Christophe Klopp , Philippe Pinton , Sylvie Combes et al.
JOBIM2020, Jun 2020, Montpellier, France
Poster de conférence hal-03176836 v1
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A Long Read project to find optimal technologic combinations for genome assembly and variability, epigenetic marks detection and metagenomic analysis

Carole Iampietro , Camille Eché , Adrien Castinel , Rémy-Félix Serre , Christophe Klopp et al.
PAG XXVIII, Plant and Animal Genome, Jan 2020, San Diego, United States. 2020
Poster de conférence hal-02947690 v1
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Identification of lncRNAs regulating variable stress-responding sheep naturally exposed to gastrointestinal nematode parasites

Aroa Suárez-Vega , Emma Borkowski , Samantha Dixon , Niel A Karrow , Andrew S Peregrine et al.
37. Conference of the International Society for Animal Genetics (ISAG), Jul 2019, Lleida, Spain. , 2019
Poster de conférence hal-02786567 v1

Layers response to suboptimal diet through phenotypic and transcriptomic changes in four tissues

Frédéric Jehl , M. Brenet , Andrea Rau , Colette Désert , Morgane Boutin et al.
PAG XXVII - Plant & Animal Genome Conference, Jan 2019, San Diego, United States. , 2019
Poster de conférence hal-02789419 v1

Tolérance de la faune ingénieure du sol à la contamination résiduelle par les produits phytosanitaires dans les agroécosystèmes : approches omiques des mécanismes moléculaires en jeu

Audrey Barranger , Emmanuelle Com , Christophe Klopp , Françoise Binet
Colloque Ecophysiologie Animale 4 (CEPA4), Oct 2019, Rennes, France
Poster de conférence hal-03028336 v1
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Whole metagenome analysis with metagWGS

Joanna Fourquet , Adeline Chaubet , Hélène Chiapello , Christine Gaspin , Marisa Haenni et al.
JOBIM 2019, Jul 2019, Nantes, France. , 2019
Poster de conférence hal-02788137 v1
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Characterization of the sex determining system(s) of the Mexican tetra, Astyanax mexicanus

Boudjema Imarazene , Séverine Beille , Elodie Jouanno , Romain Feron , Celine Lopez-Roques et al.
Paradigm shift in sex chromosome evolution, Sep 2019, Berlin, Germany. , pp.8-9, 2019, Workshop: Paradigm shift in sex chromosome evolution. ⟨10.4126/FRL01-006417884⟩
Poster de conférence hal-02418501 v1

In vivo high-throughput identification of olfactory receptor repertoire coding for a blending mixture

Vanessa Soubeyre , Olivier Taboureau , Karine Audouze , Olivier Bouchez , Christophe Klopp et al.
12. Wartburg symposium on flavour chemistry and biology, May 2019, Eisenach, Germany. 2019
Poster de conférence hal-02936619 v1

Analysis of whole genome sequence data on a tropical admixed cattle breed, the Creole cattle of Guadeloupe

Gabrièle Adam , Diane Esquerré , Olivier Bouchez , Philippe Bardou , Christophe Klopp et al.
International Symposium on environmental and agronomical genomics, Nov 2018, Paris, France. , 2018
Poster de conférence hal-02786834 v1

Root transcriptomic responses of grafted grapevines to heterogeneous nitrogen availability depend on rootstock genotype

Noe Cochetel , Frédéric Escudie , Sarah Jane Cookson , Zhanwu Dai , Philippe Vivin et al.
Plant & Animal Genome Conference XXVI, 2018, San Diego, United States. 2018
Poster de conférence hal-03179038 v1
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Single-molecule force spectroscopy to compare the surface properties of food Propionibacteria strains with distinct abilities for EPS production

Fanny Guyomarc'H , Sandrine Parayre , Marie-Noelle Madec , Christophe Klopp , Aurélie Nicolas et al.
SPM (scanning probe microscopy on soft and polymer materials), Aug 2018, Leuven, Belgium. 2018
Poster de conférence hal-01862856 v1
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Liver and whole blood transcriptome response to chronic heat exposure in laying hens

Frédéric Jehl , Andrea Rau , Colette Désert , Morgane Boutin , Kévin Muret et al.
36. Conference of the International Society for Animal Genetics (ISAG), Jul 2017, Dublin, Ireland. 2017, Proceedings of the 36th International Conference on Animal Genetics
Poster de conférence hal-01605567 v1

Integrative and differential analysis of transcriptomes and chromatin accessibility regions reveals regulatory mechanisms involved in pig immune and metabolic functions

Sarah Djebali Quelen , Kylie Munyard , Nathalie Villa-Vialaneix , Cédric Cabau , Andrea Rau et al.
36th International Society for Animal Genetics Conference, Jul 2017, Dublin, Ireland. 2017, ISAG 2017 - Genomes to Phenomes - Abstract Book
Poster de conférence hal-01603033 v1

Une nouvelle facette du génome de poule : les genes “longs non-codants

Kévin Muret , Christophe Klopp , Valentin Wucher , Diane Esquerre , Fabrice Legeai et al.
12. Journées de la Recherche Avicole et des Palmipèdes à Foie Gras, Apr 2017, Tours, France. ITAVI - Institut Technique de l'Aviculture, Journées de la Recherche Avicole et des Palmipèdes à Foie Gras, 2017, Journées de la Recherche Avicole et des Palmipèdes à Foie Gras
Poster de conférence hal-01605848 v1
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Phenotype and multi-tissue transcriptome response to diet changes in laying hens

M. Brenet , Andrea Rau , Colette Désert , Morgane Boutin , Kévin Muret et al.
36. Conference of the International Society for Animal Genetics (ISAG), Jul 2017, Dublin, Ireland. 2017, ISAG 2017 - Genomes to Phenomes - Abstract Book
Poster de conférence hal-01621916 v1
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Long-non coding RNAs repertoires in liver and two T lymphocyte cell types in four livestock species

Kévin Muret , Sarah Djebali Quelen , Thomas Derrien , Cédric Cabau , Christophe Klopp et al.
36. Conference of the International Society for Animal Genetics (ISAG), Jul 2017, Dublin, Ireland. 2017, ISAG 2017 - Genomes to Phenomes - Abstract Book
Poster de conférence hal-01621915 v1
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Profiling the landscape of transcription, chromatin accessibility and chromosome conformation of cattle, pig, chicken and goat genomes [FAANG pilot project]

Sylvain Foissac , Sarah Djebali Quelen , Hervé Acloque , Philippe Bardou , Fany Blanc et al.
36th International Society for Animal Genetics Conference, Jul 2017, Dublin, Ireland. 2017, ISAG 2017 - Genomes to Phenomes - Abstract Book
Poster de conférence hal-01608449 v1

Recherche de régions génomiques responsables du diabète insipide et de la couleur de la coquille celadon chez la Caille japonaise par RADseq

Sophie Leroux , Anna Marissal , Maria Bernard , Diane Esquerre , Johanna Barbieri et al.
12. Journées de la Recherche Avicole et des Palmipèdes à Foie Gras, Apr 2017, Tours, France. ITAVI - Institut Technique de l'Aviculture, Journées de la Recherche Avicole et des Palmipèdes à Foie Gras, 12, 2017, Journées de la Recherche Avicole et des Palmipèdes à Foie Gras
Poster de conférence hal-01604801 v1
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Genome specific expression in the liver of mule and hinny duck hybrids

Christian Diot , Frédéric Herault , Julien Navarro , Laure Le Calvez , Elisabeth Baéza et al.
10. European Symposium on Poultry Genetics (ESPG), Jun 2017, Saint-Malo, France. pp.1, 2017, Proceedings of the 10th European symposium on poultry genetics
Poster de conférence hal-01594559 v1

The transcriptomic responses of grafted grapevines to heterogeneous nitrogen availability are rootstock-genotype dependent

Noé Cochetel , Frédéric Escudie , Sarah Jane Cookson , Zhanwu Dai , Philippe Vivin et al.
EMBO Conference Nitrogen 2016, Aug 2016, Montpellier, France. 2016
Poster de conférence hal-03178840 v1

Functional exploration of naturally and artificially enriched rumen microbiomes reveals novel enzymatic synergies involved in plant cell wall breakdown

Lisa Ufarté , Elisabeth Laville , Davide Cecchini , Davide Rizzo , Etienne Amblard et al.
Functional Metagenomics, Sep 2016, Inderøy, Norway
Poster de conférence hal-02929438 v1

Evolution des gènes et des génomes dans une démarche de soutien à la diversification d’espèces aquacoles

Julien Bobe , Ingo Braasch , Jérémy Pasquier , Christophe Klopp , Hughes Parrinnello et al.
Journées d’Animation des Crédits Incitatifs du Département de Physiologie Animale et Systèmes d’Elevage (JACI Phase 2016), Apr 2016, Tours, France. , 2016, Crédits incitatifs financés entre 2011 et 2014
Poster de conférence hal-02740982 v1

Long-non coding RNAs repertoire in liver and adipose tissue in chicken

Kévin Muret , Christophe Klopp , Valentin Wucher , Diane D. Esquerre , Fabrice Legeai et al.
XXIV International Plant & Animal Genome (Pag), Jan 2016, San Diego, United States. 2016
Poster de conférence hal-02799305 v1

La combinaison de cartographie de signatures de sélection, de re-séquençage de génomes et d'analyses d'expression révèle PARK2 et JAG2 comme nouveaux genes candidats régulant l'adiposité

Pierre-François Roux , Simon Boitard , Anne Blum , Brian Parks , Alexandra Montagner et al.
11. Journées de la Recherche Avicole et Palmipèdes à Foie Gras, Mar 2015, Tours, France. ITAVI - Institut Technique de l'Aviculture, Journées de la Recherche Avicole et des Palmipèdes à Foie Gras, 2015, Journées de la Recherche Avicole et Palmipèdes à Foie Gras
Poster de conférence hal-01194116 v1

The PHYLOSEX project: Towards a better understanding of sex determination diversity and sex chromosome evolution in fish

Jennifer Anderson , Christophe Klopp , Hugues Parrinello , Laurent Journot , John H. Postlethwait et al.
7. International Symposium on the Biology Vertebrate Sex Determination, Apr 2015, Kona, Hawaï, United States. 2015
Poster de conférence hal-02739921 v1
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Genome discovery of deep frost-tolerant eucalyptus for breeding and molecular ecology

Luc Harvengt , Hélène San Clemente , Jean-Marc Gion , Christophe Klopp , Helene Berges et al.
ProCoGen final open conference, Promoting Conifer Genomic Resources, Nov 2015, Orléans, France. 75 p., 2015, ProCoGen final open conference. Promoting Conifer Genomic Resources
Poster de conférence hal-02740714 v1

RNA-seq analysis of transcriptome response to VHS-V infection in two target tissues of resistant vs susceptible trout clonal lines

Carine Genet , Eloi Verrier , Céline Ciobotaru , Christophe Klopp , Diane Esquerre et al.
22. International Plant and Animal Genome (PAG), Jan 2014, San Diego, United States. , 2014
Poster de conférence hal-01189835 v1
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Applications de la génomique chez les races bovines locales tropicales - TROCADERO: TROpical CAttle linkage DEsequilibrium, Resequencing and Optimization

Michel Naves , Olivier O. Bouchez , Christophe Klopp , Patrice Dehais
Séminaire SELGEN 2014, Dec 2014, Paris, France. 2014
Poster de conférence hal-02795828 v1

The PhyloFish project: an RNA-Seq approach coupled to high throughput phylogenomic analyses to study whole genome duplication impact on teleosts

Jérémy Pasquier , Cédric Cabau , P. Gouret , L. Journot , Christophe Klopp et al.
17. Evolutionary Biology Meeting at Marseilles, Sep 2013, Marseille, France. 2013, 17th Evolutionary Biology Meeting at Marseilles
Poster de conférence hal-02745585 v1
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« sig-learning » Plate-forme d'autoformation à la bio-informatique

Sarah Maman Haddad , Christophe Klopp
JOBIM 2013 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2013, Toulouse, France. , 2013
Poster de conférence hal-02810057 v1

Selective sweeps using hapFLK combined with genome re-sequencing data reveals strong candidate mutations in QTL regions in divergent chicken lines

Pierre-François Roux , Simon Boitard , Anis Djari , Diane Esquerre , Sylvain Marthey et al.
8th European Symposium on Poultry Genetics (ESPG), Sep 2013, Venise, Italy. 2013, Proceedings of the 8th European Symposium on Poultry Genetics
Poster de conférence hal-01193795 v1
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Novel models and strategies to unravel the genetic pathways involved in horn ontogenesis

Aurelien Capitan , Cécile Grohs , Agnès Bonnet , Alain Pinton , Brigitte Leguienne et al.
Plant and Animal Genome, Jan 2012, San Diego, United States. 2012
Poster de conférence hal-01190273 v1

De novo assembly of Fagus sylvatica transcriptome based on Sanger and 454 ESTs: application in transcriptome-scale analysis of bud phenology and markers development

Isabelle Lesur Kupin Lesur , Grégoire G. Le Provost , Céline C. Lalanne , François Ehrenman , Céline Noirot et al.
IUFRO working group “Genetics of Quercus and Nothofagus”, Oct 2012, Bordeaux, France. 1 p., 2012
Poster de conférence hal-02802761 v1
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Large-scale identification of the causative genetic variants influencing traits of economic interest in French dairy breeds

Didier Boichard , Olivier Bouchez , Aurelien Capitan , Anis Djari , Diane Esquerre et al.
Plant and Animal Genome, Jan 2012, San Diego, United States. 2012
Poster de conférence hal-01190277 v1

Characterization of a conserved master sex-determining gene in salmonids

Yann Guiguen , Ayaka Yano , Barbara Nicol , Elodie Jouanno , René Guyomard et al.
1. International Conference on Integrative Salmonid Biology ICISB, Jun 2012, Oslo, Norway. 2012, ICISB 2012
Poster de conférence hal-01267802 v1

Gene annotation with evolutionary support in teleosts with a focus on the salmonid lineage

Julien Bobe , M. Westerfield , Pierre Pontarotti , Christophe Klopp , Laurent Journot et al.
1. International Conference on Integrative Salmonid Biology ICISB, Jun 2012, Oslo, Norway. 2012, ICISB 2012
Poster de conférence hal-02746168 v1

MicroRNAs expression during fish oogenesis and sex differentiation

Amélie A. Juanchich , Christophe Klopp , Yann Guiguen , Julien Bobe
9. International Symposium on Reproductive Physiology of Fish, Aug 2011, Thrissur (Cochin), India. Indian Society for Education and Environment, Indian Journal of Science and Technology, 4 (S8), 2011, Proceedings of 9th International Symposium on Reproductive Physiology of Fish
Poster de conférence hal-02746432 v1
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The ruminal level of trans-10 fatty acids of dairy cows is linked to the composition of bacterial community

Asma Zened , Sylvie Combes , Laurent Cauquil , Jérôme J. Mariette , Chloé Rousseau et al.
4. Congress of European Microbiologists, FEMS, Jun 2011, Genève, Switzerland. 1p, 2011
Poster de conférence hal-02806622 v1

Gene expression profiling during gonadal differentiation in rainbow trout <em>(Oncorhynchus mykiss)</em> using a next generation sequencing (NGS) approach

Ayaka Yano , Elodie Jouanno , Christophe Klopp , Yann Guiguen
9. International Symposium on Reproductive Physiology of Fish, Aug 2011, Thrissur (Cochin), India. Indian Society for Education and Environment, Indian Journal of Science and Technology, 4 (S8), 2011, Proceedings of 9th International Symposium on Reproductive Physiology of Fish
Poster de conférence hal-02747932 v1

Characterization of novel testis specific genes during sex differentiation in rainbow trout [i](Oncorhynchus mykiss)[/i] using a next generation sequencing (NGS) approach

Ayaka Yano , Elodie Dupin-De-Beyssat , Christophe Klopp , Yann Guiguen
44. Annual Meeting of the Society for the Study of Reproduction (SSR), Jul 2011, Portland, Oregon, United States. Society for the Study of Reproduction, Biology of Reproduction, 85 (SI), 2011, Biology of Reproduction
Poster de conférence hal-01205070 v1
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Development of polymorphic markers in quail by next generation sequencing

Mireille Morisson , Florence Vignoles , Katia Feve , Sophie Leroux , David Gourichon et al.
32nd Conference of the International Society of Animal Genetics (ISAG), Jul 2010, Edinburgh, United Kingdom. 2010, Proceedings of the 32nd International Conference on Animal Genetics
Poster de conférence hal-01193847 v1
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A Receptor Like Cytoplasmic Kinase evolved in Aeschynomene legumes to mediate Nod-independent rhizobial symbiosis

Natasha Horta Araújo , David Landry , Johan Quilbé , Marjorie Pervent , Nico Nouwen et al.
2025
Pré-publication, Document de travail hal-04952132 v1

Neurodevelopment vs. the immune system: complementary contributions of maternally-inherited gene transcripts and proteins to successful egg development in fish

Daniel Zarski , Aurélie Le Cam , Thomas Frohlich , Miwako Kosters , Christophe Klopp et al.
2021
Pré-publication, Document de travail (preprint/prepublication) hal-03204116 v1
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Genetics of nodulation in Aeschynomene evenia uncovers new mechanisms of the rhizobium-legume symbiosis

Johan Quilbé , Léo Lamy , Laurent Brottier , Philippe Leleux , Joel Fardoux et al.
2020
Pré-publication, Document de travail hal-03030658 v1
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Sex chromosome and sex locus characterization in the goldfish, Carassius auratus

Ming Wen , Romain Feron , Qiaowei Pan , Justine Guguin , Elodie Jouanno et al.
2019
Pré-publication, Document de travail (preprint/prepublication) hal-02790844 v1
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RADSex: a computational workflow to study sex determination using Restriction Site-Associated DNA Sequencing data

Romain Feron , Qiaowei Pan , Ming Wen , Boudjema Imarazene , Elodie Jouanno et al.
2020
Pré-publication, Document de travail (preprint/prepublication) hal-03048150 v1
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A 180 My-old female-specific genome region in sturgeon reveals the oldest known vertebrate sex determining system with undifferentiated sex chromosomes

Heiner Kuhl , Yann Guiguen , Christin Höhne , Eva Kreuz , Du Kang et al.
2020
Pré-publication, Document de travail (preprint/prepublication) hal-03038088 v1
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Characterization of a Y-specific duplication/insertion of the anti-Mullerian hormone type II receptor gene based on a chromosome-scale genome assembly of yellow perch, Perca flavescens

Romain Feron , Margot Zahm , Cédric Cabau , Christophe Klopp , Céline Roques et al.
2019
Pré-publication, Document de travail (preprint/prepublication) hal-02790966 v1
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Genome sequence of the euryhaline Javafish medaka, Oryzias javanicus: a small aquarium fish model for studies on adaptation to salinity

Yusuke Takehana , Margot Zahm , Cédric Cabau , Christophe Klopp , Céline Roques et al.
2019
Pré-publication, Document de travail (preprint/prepublication) hal-02790965 v1
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Identification of the master sex determining gene in Northern pike (Esox lucius) reveals restricted sex chromosome differentiation

Qiaowei Pan , Romain Feron , Ayaka Yano , René Guyomard , Elodie Jouanno et al.
2019
Pré-publication, Document de travail (preprint/prepublication) hal-02791042 v1
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Livestock genome annotation: transcriptome and chromatin structure profiling in cattle, goat, chicken and pig

Sylvain Foissac , Sarah Djebali , Kylie Munyard , Nathalie Vialaneix , Andrea Rau et al.
2018
Pré-publication, Document de travail (preprint/prepublication) hal-02791029 v1
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Evolution of gene expression after whole-genome duplication: new insights from the spotted gar genome

Jérémy Pasquier , Ingo Braasch , Peter Batzel , Cédric Cabau , Jérôme Montfort et al.
2017
Pré-publication, Document de travail (preprint/prepublication) hal-02791027 v1

Analyse phylogénomique des duplications géniques chez les poissons téléostéens : une approche PAR RNASeq

Julien Bobe , Yann Guiguen , John H. Postlethwait , Laurent Journot , Christophe Klopp et al.
[Rapport de recherche] ANR-10-GENM-017, University of Oregon; Centre National de la Recherche Scientifique (CNRS); Aix Marseille Université (AMU); INRA SCRIBE Station Commune de Recherche en Ichtyophysiologie. Biodiversité et Environnement. 2015
Rapport (rapport de recherche) hal-02801550 v1
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Genome-wide characterization of RNA editing in chicken: lack of evidence for non-A-to-I events

Laure Fresard , Sophie Leroux , Pierre-François Roux , Christophe Klopp , Stéphane Fabre et al.
[University works] auto-saisine. 2014
Rapport hal-01210706 v1