Publications by authors named "Christophe Klopp"

147Publications

DNAModAnnot: a R toolbox for DNA modification filtering and annotation.

Authors:
Alexis Hardy Mélody Matelot Amandine Touzeau Christophe Klopp Céline Lopez-Roques Sandra Duharcourt Matthieu Defrance

Bioinformatics 2021 Jan 20. Epub 2021 Jan 20.

Université Libre de Bruxelles, Interuniversity Institute of Bioinformatics in Brussels (IB2), Brussels, 1050, Belgium.

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January 2021

Siberian sturgeon multi-tissue reference transcriptome database.

Authors:
Christophe Klopp Cédric Cabau Gonzalo Greif André Lasalle Santiago Di Landro Denise Vizziano-Cantonnet

Database (Oxford) 2020 Nov;2020

Laboratorio de Fisiología de la Reproducción y Ecología de Peces, Instituto de Biología, Facultad de Ciencias, Universidad de la República Oriental del Uruguay, Iguá 4225, Montevideo 11 400, Uruguay.

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November 2020

An integrative atlas of chicken long non-coding genes and their annotations across 25 tissues.

Authors:
Frédéric Jehl Kévin Muret Maria Bernard Morgane Boutin Laetitia Lagoutte Colette Désert Patrice Dehais Diane Esquerré Hervé Acloque Elisabetta Giuffra Sarah Djebali Sylvain Foissac Thomas Derrien Frédérique Pitel Tatiana Zerjal Christophe Klopp Sandrine Lagarrigue

Sci Rep 2020 11 24;10(1):20457. Epub 2020 Nov 24.

PEGASE UMR 1348, INRA, AGROCAMPUS OUEST, 35590, Saint-Gilles, France.

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November 2020

Genome structure and content of the rice root-knot nematode ().

Authors:
Ngan Thi Phan Julie Orjuela Etienne G J Danchin Christophe Klopp Laetitia Perfus-Barbeoch Djampa K Kozlowski Georgios D Koutsovoulos Céline Lopez-Roques Olivier Bouchez Margot Zahm Guillaume Besnard Stéphane Bellafiore

Ecol Evol 2020 Oct 13;10(20):11006-11021. Epub 2020 Sep 13.

IRD-CIRAD-University of Montpellier UMR Interactions Plantes Microorganismes Environnement (IPME) Montpellier France.

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October 2020

Responses to iron oxide and zinc oxide nanoparticles in echinoderm embryos and microalgae: uptake, growth, morphology, and transcriptomic analysis.

Authors:
Anne-Marie Genevière Evelyne Derelle Marie-Line Escande Nigel Grimsley Christophe Klopp Christine Ménager Aude Michel Hervé Moreau

Nanotoxicology 2020 12 14;14(10):1342-1361. Epub 2020 Oct 14.

Sorbonne Université, CNRS, Biologie Intégrative des Organismes Marins, BIOM, Banyuls-sur-Mer, France.

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December 2020

Contrasting gene decay in subterranean vertebrates: insights from cavefishes and fossorial mammals.

Authors:
Maxime Policarpo Julien Fumey Philippe Lafargeas Delphine Naquin Claude Thermes Magali Naville Corentin Dechaud Jean-Nicolas Volff Cedric Cabau Christophe Klopp Peter Rask Møller Louis Bernatchez Erik García-Machado Sylvie Rétaux Didier Casane

Mol Biol Evol 2020 Sep 28. Epub 2020 Sep 28.

Université Paris-Saclay, CNRS, IRD, UMR Évolution, Génomes, Comportement et Écologie, Gif-sur-Yvette, France.

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September 2020

Domestication modulates the expression of genes involved in neurogenesis in high-quality eggs of Sander lucioperca.

Authors:
Daniel Żarski Aurelie Le Cam Joanna Nynca Christophe Klopp Sławomir Ciesielski Beata Sarosiek Jerome Montfort Jarosław Król Pascal Fontaine Andrzej Ciereszko Julien Bobe

Mol Reprod Dev 2020 09 30;87(9):934-951. Epub 2020 Aug 30.

Fish Physiology and Genomics, UR1037 (LPGP), INRAE, Rennes, France.

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September 2020

Transfer and Transcriptomic Profiling in Liver and Brain of European Eels (Anguilla anguilla) After Diet-borne Exposure to Gold Nanoparticles.

Authors:
Fanny Perrier Anthony Bertucci Fabien Pierron Agnès Feurtet-Mazel Olivier Simon Christophe Klopp Frédéric Candaudap Oleg Pokrovski Bruno Etcheverria Stéphane Mornet Magalie Baudrimont

Environ Toxicol Chem 2020 Dec 15;39(12):2450-2461. Epub 2020 Oct 15.

Université de Bordeaux, CNRS, UMR EPOC 5805, Arcachon, France.

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December 2020

Sex chromosome and sex locus characterization in goldfish, Carassius auratus (Linnaeus, 1758).

Authors:
Ming Wen Romain Feron Qiaowei Pan Justine Guguin Elodie Jouanno Amaury Herpin Christophe Klopp Cedric Cabau Margot Zahm Hugues Parrinello Laurent Journot Shawn M Burgess Yoshihiro Omori John H Postlethwait Manfred Schartl Yann Guiguen

BMC Genomics 2020 Aug 11;21(1):552. Epub 2020 Aug 11.

INRAE, LPGP, 35000, Rennes, France.

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August 2020

Molecular signatures of muscle growth and composition deciphered by the meta-analysis of age-related public transcriptomics data.

Authors:
Jeanne Bazile Florence Jaffrezic Patrice Dehais Matthieu Reichstadt Christophe Klopp Denis Laloe Muriel Bonnet

Physiol Genomics 2020 08 13;52(8):322-332. Epub 2020 Jul 13.

INRAE, UMR Herbivores, Université Clermont Auvergne, VetAgro Sup, Saint-Genès-Champanelle, France.

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August 2020

Biological rhythms in the deep-sea hydrothermal mussel Bathymodiolus azoricus.

Authors:
Audrey M Mat Jozée Sarrazin Gabriel V Markov Vincent Apremont Christine Dubreuil Camille Eché Caroline Fabioux Christophe Klopp Pierre-Marie Sarradin Arnaud Tanguy Arnaud Huvet Marjolaine Matabos

Nat Commun 2020 07 10;11(1):3454. Epub 2020 Jul 10.

Ifremer, EEP, F-29280, Plouzané, France.

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July 2020

Multi-tissue Siberian sturgeon RNA sequencing data.

Authors:
Christophe Klopp Cédric Cabau André Lasalle Santiago Di Landro Gonzalo Greif Denise Vizziano-Cantonnet

Data Brief 2020 Aug 7;31:105820. Epub 2020 Jun 7.

Laboratorio de Fisiología de la Reproducción y Ecología de Peces, Instituto de Biología, Facultad de Ciencias, Universidad de la República Oriental del Uruguay, Iguá 4225, Montevideo, 11400, Uruguay.

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August 2020

Conserved white-rot enzymatic mechanism for wood decay in the Basidiomycota genus Pycnoporus.

Authors:
Shingo Miyauchi Hayat Hage Elodie Drula Laurence Lesage-Meessen Jean-Guy Berrin David Navarro Anne Favel Delphine Chaduli Sacha Grisel Mireille Haon François Piumi Anthony Levasseur Anne Lomascolo Steven Ahrendt Kerrie Barry Kurt M LaButti Didier Chevret Chris Daum Jérôme Mariette Christophe Klopp Daniel Cullen Ronald P de Vries Allen C Gathman Matthieu Hainaut Bernard Henrissat Kristiina S Hildén Ursula Kües Walt Lilly Anna Lipzen Miia R Mäkelä Angel T Martinez Mélanie Morel-Rouhier Emmanuelle Morin Jasmyn Pangilinan Arthur F J Ram Han A B Wösten Francisco J Ruiz-Dueñas Robert Riley Eric Record Igor V Grigoriev Marie-Noëlle Rosso

DNA Res 2020 Apr;27(2)

INRAE, UMR1163, Biodiversity and Biotechnology of Fungi, Aix Marseille University, 13009 Marseille, France.

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April 2020

RNA-Seq transcriptome data of undifferentiated and differentiated gonads of Siberian sturgeon.

Authors:
Christophe Klopp André Lasalle Santiago Di Landro Denise Vizziano-Cantonnet

Data Brief 2020 Aug 22;31:105741. Epub 2020 May 22.

Laboratorio de Fisiología de la Reproducción y Ecología de Peces, Instituto de Biología, Facultad de Ciencias, Universidad de la República Oriental del Uruguay, Iguá 4225, Montevideo 11400, Uruguay.

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August 2020

CSA: A high-throughput chromosome-scale assembly pipeline for vertebrate genomes.

Authors:
Heiner Kuhl Ling Li Sven Wuertz Matthias Stöck Xu-Fang Liang Christophe Klopp

Gigascience 2020 05;9(5)

Sigenae, Bioinfo Genotoul, Mathématiques et Informatique Appliquées de Toulouse, INRAe, 24 Chemin de Borde Rouge, 31320 Auzeville-Tolosane, Castanet Tolosan, France.

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May 2020

The sterlet sturgeon genome sequence and the mechanisms of segmental rediploidization.

Authors:
Kang Du Matthias Stöck Susanne Kneitz Christophe Klopp Joost M Woltering Mateus Contar Adolfi Romain Feron Dmitry Prokopov Alexey Makunin Ilya Kichigin Cornelia Schmidt Petra Fischer Heiner Kuhl Sven Wuertz Jörn Gessner Werner Kloas Cédric Cabau Carole Iampietro Hugues Parrinello Chad Tomlinson Laurent Journot John H Postlethwait Ingo Braasch Vladimir Trifonov Wesley C Warren Axel Meyer Yann Guiguen Manfred Schartl

Nat Ecol Evol 2020 06 30;4(6):841-852. Epub 2020 Mar 30.

Developmental Biochemistry, Biocenter, University of Wuerzburg, Wuerzburg, Germany.

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June 2020

Venom Peptide Repertoire of the European Myrmicine Ant : Identification of Insecticidal Toxins.

Authors:
Axel Touchard Samira R Aili Nathan Téné Valentine Barassé Christophe Klopp Alain Dejean R Manjunatha Kini Mrinalini Laurent Coquet Thierry Jouenne Benjamin Lefranc Jérôme Leprince Pierre Escoubas Graham M Nicholson Michel Treilhou Elsa Bonnafé

J Proteome Res 2020 04 24;19(4):1800-1811. Epub 2020 Mar 24.

Équipe BTSB-EA 7417, Université de Toulouse, Institut National Universitaire Jean-François Champollion, Place de Verdun, 81012 Albi, France.

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April 2020

Meta-omics Provides Insights into the Impact of Hydrocarbon Contamination on Microbial Mat Functioning.

Authors:
Johanne Aubé Pavel Senin Patricia Bonin Olivier Pringault Céline Jeziorski Olivier Bouchez Christophe Klopp Rémy Guyoneaud Marisol Goñi-Urriza

Microb Ecol 2020 Aug 19;80(2):286-295. Epub 2020 Feb 19.

Environmental Microbiology, Universite de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau, France.

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August 2020

Genome Sequence of the Euryhaline Javafish Medaka, : A Small Aquarium Fish Model for Studies on Adaptation to Salinity.

Authors:
Yusuke Takehana Margot Zahm Cédric Cabau Christophe Klopp Céline Roques Olivier Bouchez Cécile Donnadieu Celia Barrachina Laurent Journot Mari Kawaguchi Shigeki Yasumasu Satoshi Ansai Kiyoshi Naruse Koji Inoue Chuya Shinzato Manfred Schartl Yann Guiguen Amaury Herpin

G3 (Bethesda) 2020 03 5;10(3):907-915. Epub 2020 Mar 5.

INRAE, UR 1037 Fish Physiology and Genomics, F-35000 Rennes, France, and

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March 2020

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.

Authors:
Romain Feron Margot Zahm Cédric Cabau Christophe Klopp Céline Roques Olivier Bouchez Camille Eché Sophie Valière Cécile Donnadieu Pierrick Haffray Anastasia Bestin Romain Morvezen Hervé Acloque Peter T Euclide Ming Wen Elodie Jouano Manfred Schartl John H Postlethwait Claire Schraidt Mark R Christie Wesley A Larson Amaury Herpin Yann Guiguen

Mol Ecol Resour 2020 Mar 27;20(2):531-543. Epub 2020 Jan 27.

INRAE, UR 1037 Fish Physiology and Genomics, Rennes, France.

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March 2020