A candidate sex determination locus in amphibians which evolved by structural variation between X- and Y-chromosomes Kuhl Heiner, Tan Wen Hui, Klopp Christophe, Kleiner Wibke, Koyun Baturalp, Ciorpac Mitica, Feron Romain, Knytl Martin, Kloas Werner, Schartl Manfred, Winkler Christoph, Stöck Matthias. 2024, Nature Communications. 10.1038/s41467-024-49025-2
A dual model of normal vs isogenic Nrf2-depleted murine epithelial cells to explore oxidative stress involvement Dupuy Jacques, Fouché Edwin, Noirot Céline, Martin Pierre, Buisson Charline, Guéraud Françoise, Pierre Fabrice, Héliès-Toussaint Cécile. 2024, Scientific Reports. 10.1038/s41598-024-60938-2
Adaptive gene loss in the common bean pan-genome during range expansion and domestication Cortinovis Gaia, Vincenzi Leonardo, Anderson Robyn, Marturano Giovanni, Marsh Jacob Ian, Bayer Philipp Emanuel, Rocchetti Lorenzo, Frascarelli Giulia, Lanzavecchia Giovanna, Pieri Alice, Benazzo Andrea, Bellucci Elisa, Di Vittori Valerio, Nanni Laura, Ferreira Fernández Juan José, Rossato Marzia, Aguilar Orlando Mario, Morrell Peter Laurent, Rodriguez Monica, Gioia Tania, Neumann Kerstin, Alvarez Diaz Juan Camilo, Gratias Ariane, Klopp Christophe, Bitocchi Elena, Geffroy Valérie, Delledonne Massimo, Edwards David, Papa Roberto. 2024, Nature Communications. 10.1038/s41467-024-51032-2
Analysis of a shark reveals ancient, Wnt-dependent, habenular asymmetries in vertebrates Lanoizelet Maxence, Michel Léo, Lagadec Ronan, Mayeur Hélène, Guichard Lucile, Logeux Valentin, Séverac Dany, Martin Kyle, Klopp Christophe, Marcellini Sylvain, Castillo Héctor, Pollet Nicolas, Candal Eva, Debiais-Thibaud Mélanie, Boisvert Catherine, Billoud Bernard, Schubert Michael, Blader Patrick, Mazan Sylvie. 2024, Nature Communications. 10.1038/s41467-024-54042-2
Binette: a fast and accurate bin refinement tool to construct high quality Metagenome Assembled Genomes. Mainguy Jean, Hoede Claire. 2024, Journal of Open Source Software. 10.21105/joss.06782
Development of an in vitro biofilm model for the study of the impact of fluoroquinolones on sewer biofilm microbiota Naudin Sarah A., Ferran Aude A., Imazaki Pedro Henrique, Arpaillange Nathalie, Marcuzzo Camille, Vienne Maïna, Demmou Sofia, Bousquet-Mélou Alain, Ramon-Portugal Felipe, Lacroix Marlene Z., Hoede Claire, Barret Maialen, Dupouy Véronique, Bibbal Delphine. 2024, Frontiers in Microbiology. 10.3389/fmicb.2024.1377047
Finding and removing introns from RNA-Seq de novo assemblies with IntronSeeker Maman Sarah, Bardou Philippe, Lasguignes Emilien, Oudin Faustine, Cabanettes Floréal, Klopp Christophe. 2024, Journal of Open Source Software. 10.21105/joss.06272
Hyperglycemia and circadian disruption lead to retinal dysfunction in a stabilized colony of the fat sand rat Psammomys obesus Estay-Ahumada Catherine E., Verra Daniela M., Roux Michel, Sassone Fabiana, Felder-Schmittbuhl Marie-Paule, Klopp Christophe, Ciocca Dominique, Moal Myriam Ly-Le, Hicks David. 2024, Biochimica et Biophysica Acta (BBA) - Molecular Basis of Disease. 10.1016/j.bbadis.2024.167118
Massive detection of cryptic recessive genetic defects in dairy cattle mining millions of life histories Besnard Florian, Guintard Ana, Grohs Cécile, Guzylack-Piriou Laurence, Cano Margarita, Escouflaire Clémentine, Hozé Chris, Leclerc Hélène, Buronfosse Thierry, Dutheil Lucie, Jourdain Jeanlin, Barbat Anne, Fritz Sébastien, Deloche Marie-Christine, Remot Aude, Gaussères Blandine, Clément Adèle, Bouchier Marion, Contat Elise, Relun Anne, Plassard Vincent, Rivière Julie, Péchoux Christine, Vilotte Marthe, Eche Camille, Kuchly Claire, Charles Mathieu, Boulling Arnaud, Viard Guillaume, Minéry Stéphanie, Barbey Sarah, Birbes Clément, Danchin-Burge Coralie, Launay Frédéric, Mattalia Sophie, Allais-Bonnet Aurélie, Ravary Bérangère, Millemann Yves, Guatteo Raphaël, Klopp Christophe, Gaspin Christine, Iampietro Carole, Donnadieu Cécile, Milan Denis, Arcangioli Marie-Anne, Boussaha Mekki, Foucras Gilles, Boichard Didier, Capitan Aurélien. 2024, Genome Biology. 10.1186/s13059-024-03384-7
On the specific status of eastern Mediterranean <i>Dendrophyllia</i> corals (Cnidaria, Anthozoa): Genetic characterization and speciation scenarios Aurelle Didier, Haguenauer Anne, Blaise Chloé, Reynes Lauric, Arnaud‐Haond Sophie, Boavida Joana, Cabau Cédric, Klopp Christophe, Lundalv Tomas, Noûs Camille, Sartoretto Stéphane, Wienberg Claudia, Jiménez Carlos E., Orejas Covadonga. 2024, Zoologica Scripta. 10.1111/zsc.12643
Plant ribosomes as a score to fathom the melody of 2’- <i>O</i> -methylation across evolution Neumann Sara Alina, Gaspin Christine, Sáez-Vásquez Julio. 2024, RNA Biology. 10.1080/15476286.2024.2417152
Revealing the profound influence of diapause on gene expression: Insights from the annual transcriptome of the copepod <i>Calanus finmarchicus</i> Payton Laura, Last Kim S., Grigor Jordan, Noirot Céline, Hüppe Lukas, Conway David V. P., Dannemeyer Mona, Wilcockson David, Meyer Bettina. 2024, Molecular Ecology. 10.1111/mec.17425
Soluble CD14 produced by bovine mammary epithelial cells modulates their response to full length LPS Védrine Mégane, Gilbert Florence B., Maman Sarah, Klopp Christophe, Gitton Christophe, Rainard Pascal, Germon Pierre. 2024, Veterinary Research. 10.1186/s13567-024-01329-3
The interplay between mobilome and resistome in <i>Staphylococcus aureus</i> Contarin Rachel, Drapeau Antoine, François Pauline, Madec Jean-Yves, Haenni Marisa, Dordet-Frisoni Emilie. 2024, mBio. 10.1128/mbio.02428-24
A duplicated copy of id2b is an unusual sex-determining candidate gene on the Y chromosome of arapaima (Arapaima gigas) Adolfi Mateus C., Du Kang, Kneitz Susanne, Cabau Cédric, Zahm Margot, Klopp Christophe, Feron Romain, Paixão Rômulo V., Varela Eduardo S., de Almeida Fernanda L., de Oliveira Marcos A., Nóbrega Rafael H., Lopez-Roques Céline, Iampietro Carole, Lluch Jérôme, Kloas Werner, Wuertz Sven, Schaefer Fabian, Stöck Matthias, Guiguen Yann, Schartl Manfred. 2021, Scientific Reports. 10.1038/s41598-021-01066-z
A supernumerary “B-sex” chromosome drives male sex determination in the Pachón cavefish, Astyanax mexicanus Imarazene Boudjema, Du Kang, Beille Séverine, Jouanno Elodie, Feron Romain, Pan Qiaowei, Torres-Paz Jorge, Lopez-Roques Céline, Castinel Adrien, Gil Lisa, Kuchly Claire, Donnadieu Cécile, Parrinello Hugues, Journot Laurent, Cabau Cédric, Zahm Margot, Klopp Christophe, Pavlica Tomáš, Al-Rikabi Ahmed, Liehr Thomas, Simanovsky Sergey A., Bohlen Joerg, Sember Alexandr, Perez Julie, Veyrunes Frédéric, Mueller Thomas D., Postlethwait John H., Schartl Manfred, Herpin Amaury, Rétaux Sylvie, Guiguen Yann. 2021, Current Biology. 10.1016/j.cub.2021.08.030
Contrasting Gene Decay in Subterranean Vertebrates: Insights from Cavefishes and Fossorial Mammals Policarpo Maxime, Fumey Julien, Lafargeas Philippe, Naquin Delphine, Thermes Claude, Naville Magali, Dechaud Corentin, Volff Jean-Nicolas, Cabau Cedric, Klopp Christophe, Møller Peter Rask, Bernatchez Louis, García-Machado Erik, Rétaux Sylvie, Casane Didier. 2021, Molecular Biology and Evolution. 10.1093/molbev/msaa249
Genetics of nodulation in Aeschynomene evenia uncovers mechanisms of the rhizobium–legume symbiosis Quilbé Johan, Lamy Léo, Brottier Laurent, Leleux Philippe, Fardoux Joël, Rivallan Ronan, Benichou Thomas, Guyonnet Rémi, Becana Manuel, Villar Irene, Garsmeur Olivier, Hufnagel Bárbara, Delteil Amandine, Gully Djamel, Chaintreuil Clémence, Pervent Marjorie, Cartieaux Fabienne, Bourge Mickaël, Valentin Nicolas, Martin Guillaume, Fontaine Loïc, Droc Gaëtan, Dereeper Alexis, Farmer Andrew, Libourel Cyril, Nouwen Nico, Gressent Frédéric, Mournet Pierre, D’Hont Angélique, Giraud Eric, Klopp Christophe, Arrighi Jean-François. 2021, Nature Communications. 10.1038/s41467-021-21094-7
Kernel and Dissimilarity Methods for Exploratory Analysis in a Social Context Mariette Jérôme, Olteanu Madalina, Vialaneix Nathalie. 2021, Advances in Contemporary Statistics and Econometrics. 10.1007/978-3-030-73249-3_34
L’horloge circadienne et les rythmes transcriptomiques chez une espèce zooplanctonique clé pendant le jour polaire Arctique Payton Laura, Hüppe Lukas, Noirot Céline, Hoede Claire, Last Kim, Wilcockson David, Ershova Elizaveta, Valière Sophie, Meyer Bettina. 2021, Médecine du Sommeil. 10.1016/j.msom.2021.10.020
Mapping rRNA 2’-O-methylations and identification of C/D snoRNAs in Arabidopsis thaliana plants Azevedo-Favory J., Gaspin C., Ayadi L., Montacié C., Marchand V., Jobet E., Rompais M., Carapito C., Motorin Y., Sáez-Vásquez J.. 2021, RNA Biology. 10.1080/15476286.2020.1869892
MINTIA: a metagenomic INserT integrated assembly and annotation tool Bardou Philippe, Laguerre Sandrine, Maman Haddad Sarah, Legoueix Rodriguez Sabrina, Laville Elisabeth, Dumon Claire, Potocki-Veronese Gabrielle, Klopp Christophe. 2021, PeerJ. 10.7717/peerj.11885
Phylodynamic study of the conserved RNA structure encompassing the hemagglutinin cleavage site encoding region of H5 and H7 low pathogenic avian influenza viruses Dupré Gabriel, Hoede Claire, Figueroa Thomas, Bessière Pierre, Bertagnoli Stéphane, Ducatez Mariette, Gaspin Christine, Volmer Romain. 2021, Virus Evolution. 10.1093/ve/veab093
RNA-Seq Data for Reliable SNP Detection and Genotype Calling: Interest for Coding Variant Characterization and Cis-Regulation Analysis by Allele-Specific Expression in Livestock Species Jehl Frédéric, Degalez Fabien, Bernard Maria, Lecerf Frédéric, Lagoutte Laetitia, Désert Colette, Coulée Manon, Bouchez Olivier, Leroux Sophie, Abasht Behnam, Tixier-Boichard Michèle, Bed’hom Bertrand, Burlot Thierry, Gourichon David, Bardou Philippe, Acloque Hervé, Foissac Sylvain, Djebali Sarah, Giuffra Elisabetta, Zerjal Tatiana, Pitel Frédérique, Klopp Christophe, Lagarrigue Sandrine. 2021, Frontiers in Genetics. 10.3389/fgene.2021.655707
The immune system of sturgeons and paddlefish (Acipenseriformes): a review with new data from a chromosome‐scale sturgeon genome Höhne Christin, Prokopov Dmitry, Kuhl Heiner, Du Kang, Klopp Christophe, Wuertz Sven, Trifonov Vladimir, Stöck Matthias. 2021, Reviews in Aquaculture. 10.1111/raq.12542
The rise and fall of the ancient northern pike master sex-determining gene Pan Qiaowei, Feron Romain, Jouanno Elodie, Darras Hugo, Herpin Amaury, Koop Ben, Rondeau Eric, Goetz Frederick W, Larson Wesley A, Bernatchez Louis, Tringali Mike, Curran Stephen S, Saillant Eric, Denys Gael PJ, von Hippel Frank A, Chen Songlin, López J Andrés, Verreycken Hugo, Ocalewicz Konrad, Guyomard Rene, Eche Camille, Lluch Jerome, Roques Celine, Hu Hongxia, Tabor Roger, DeHaan Patrick, Nichols Krista M, Journot Laurent, Parrinello Hugues, Klopp Christophe, Interesova Elena A, Trifonov Vladimir, Schartl Manfred, Postlethwait John, Guiguen Yann. 2021, eLife. 10.7554/eLife.62858
Transcriptome Profiling of the Pacific Oyster Crassostrea gigas Visceral Ganglia over a Reproduction Cycle Identifies Novel Regulatory Peptides Réalis-Doyelle Emilie, Schwartz Julie, Cabau Cédric, Le Franc Lorane, Bernay Benoit, Rivière Guillaume, Klopp Christophe, Favrel Pascal. 2021, Marine Drugs. 10.3390/md19080452
Watch Out for a Second SNP: Focus on Multi-Nucleotide Variants in Coding Regions and Rescued Stop-Gained Degalez Fabien, Jehl Frédéric, Muret Kévin, Bernard Maria, Lecerf Frédéric, Lagoutte Laetitia, Désert Colette, Pitel Frédérique, Klopp Christophe, Lagarrigue Sandrine. 2021, Frontiers in Genetics. 10.3389/fgene.2021.659287
Widely rhythmic transcriptome in Calanus finmarchicus during the high Arctic summer solstice period Payton Laura, Hüppe Lukas, Noirot Céline, Hoede Claire, Last Kim S., Wilcockson David, Ershova Elizaveta, Valière Sophie, Meyer Bettina. 2021, iScience. 10.1016/j.isci.2020.101927
Ten simple rules for switching from face-to-face to remote conference: An opportunity to estimate the reduction in GHG emissions Guignon Valentin, Breton Catherine, Mariette Jérôme, Sabot François, Fumey Julien, Lefort Vincent, Fiston-Lavier Anna-Sophie. 2021, PLOS Computational Biology. 10.1371/journal.pcbi.1009321