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5. The bowfin genome illuminates the developmental evolution of ray-finned fishes

Author

Thompson, Andrew W., Hawkins, M. Brent, Parey, Elise, Wcisel, Dustin J., Ota, Tatsuya, Kawasaki, Kazuhiko, Funk, Emily, Losilla, Mauricio, Fitch, Olivia E., Pan, Qiaowei, Feron, Romain, Louis, Alexandra, Montfort, Jérôme, Milhes, Marine, Racicot, Brett L., Childs, Kevin L., Fontenot, Quenton, Ferrara, Allyse, David, Solomon R., McCune, Amy R., Dornburg, Alex, Yoder, Jeffrey A., Guiguen, Yann, Roest Crollius, Hugues, Berthelot, Camille, Harris, Matthew P., and Braasch, Ingo

Published
2021
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10. Looking for a needle in a haystack: de novo phenotypic target identification reveals Hippo pathway-mediated miR-202 regulation of egg production

Author

Janati-Idrissi, Sarah, primary, de Abreu, Mariana Roza, additional, Guyomar, Cervin, additional, de Mello, Fernanda, additional, Nguyen, Thaovi, additional, Mechkouri, Nazim, additional, Gay, Stéphanie, additional, Montfort, Jérôme, additional, Gonzalez, Anne Alicia, additional, Abbasi, Marzieh, additional, Bugeon, Jérôme, additional, Thermes, Violette, additional, Seitz, Hervé, additional, and Bobe, Julien, additional

Published
2023
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17. Gene expression profiling of colon cancer by DNA microarrays and correlation with histoclinical parameters

Author

Bertucci, François, Salas, Sébastien, Eysteries, Séverine, Nasser, Valéry, Finetti, Pascal, Ginestier, Christophe, Charafe-Jauffret, Emmanuelle, Loriod, Béatrice, Bachelart, Loïc, Montfort, Jérôme, Victorero, Geneviève, Viret, Frédéric, Ollendorff, Vincent, Fert, Vincent, Giovaninni, Marc, Delpero, Jean-Robert, Nguyen, Catherine, Viens, Patrice, Monges, Geneviève, Birnbaum, Daniel, and Houlgatte, Rémi

Published
2004
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18. Caractérisation protéomique du liquide coelomique de salmonidés

Author

Guého, Aurélie, Rime, Hélène, Com, Emmanuelle, Lavigne, R., Guével, B., Montfort, Jérôme, Labbé, Catherine, Pineau, Charles, Bobe, Julien, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Institut de recherche en santé, environnement et travail (Irset), Université d'Angers (UA)-Université de Rennes (UR)-École des Hautes Études en Santé Publique [EHESP] (EHESP)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Institut National de la Recherche Agronomique (INRA), Université d'Angers (UA)-Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-École des Hautes Études en Santé Publique [EHESP] (EHESP)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), and ProdInra, Migration

Subjects
[SDV] Life Sciences [q-bio], [SDV]Life Sciences [q-bio], [INFO]Computer Science [cs], [INFO] Computer Science [cs], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2019

19. Micro ARNs circulants dans le plasma et le fluide ovarien comme potentiels biomarqueurs non invasifs de la nutrition et de la reproduction de la truite arc-en-ciel (Oncorhynchus mykiss)

Author

Cardona, Emilie, Montfort, Jérôme, Parrinello, Hugues, Journot, Laurent, Bobe, Julien, Cassy, Sandrine, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Institut National de la Recherche Agronomique (INRA), Institut de Génomique Fonctionnelle (IGF), Université de Montpellier (UM)-Université Montpellier 1 (UM1)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université Montpellier 2 - Sciences et Techniques (UM2)-Centre National de la Recherche Scientifique (CNRS), Nutrition, Métabolisme, Aquaculture (NuMéA), and Institut National de la Recherche Agronomique (INRA)-Université de Pau et des Pays de l'Adour (UPPA)

Subjects
[SDV]Life Sciences [q-bio], fluide ovarien, [INFO]Computer Science [cs], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2019

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

Author

Żarski, D., Le Cam, Aurélie, Nynca, J., Klopp, Christophe, Ciesielski, S., Montfort, Jérôme, Fontaine, Pascal, Ciereszko, A., Bobe, Julien, Department of Gametes and Embryo Biology, Institute of Animal Reproduction and Food Research Polish Academy of Sciences, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Unité de Mathématiques et Informatique Appliquées de Toulouse (MIAT INRA), Institut National de la Recherche Agronomique (INRA), Unité de Recherches Animal et Fonctionnalités des Produits Animaux (URAFPA), Institut National de la Recherche Agronomique (INRA)-Université de Lorraine (UL), This work was funded by National Science Center of Poland (HARMONIA project No. UMO-2016/22/M/NZ9/00590)., European Aquaculture Society (EAS). BEL., Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Institut National de la Recherche Agronomique (INRA), and Université de Lorraine (UL)-Institut National de la Recherche Agronomique (INRA)

Subjects
fish, qualité des gamètes, qualité des oeufs, [SDV]Life Sciences [q-bio], reproduction, oeuf de poisson, lucioperca lucioperca, poisson, aquaculture, walleye (fish), embryonic structures, percidae, transcriptome, sandre, expression des gènes
Abstract

Transcriptomic profiling of eggs of pikeperch (Sander lucioperca) reveals novel egg-quality-associated transcripts. Aquaculture Europe 2019

Published
2019

21. Transcriptional rewiring, post-transcriptional regulation and neo-functionalization: how the master sex-determining gene of medaka was born

Author

Herpin, Amaury, Schmidt, Cornelia, Kneitz, Susanne, Gobe, Clara, Regensburger, Martina, Le Cam, Aurélie, Montfort, Jérôme, Adolfi, Mateus C., Lillesaar, Christina, Kraeussling, Michael, Mourot, Brigitte, Porcon, Béatrice, Pannetier, Maelle, Pailhoux, Eric, Ettwiller, Laurence, Dolle, Dirk, Guiguen, Yann, Schartl, Manfred, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Physiological Chemistry, Biocenter, Julius-Maximilians-Universität Würzburg [Wurtzbourg, Allemagne] (JMU), Biologie du Développement et Reproduction (BDR), École nationale vétérinaire d'Alfort (ENVA)-Institut National de la Recherche Agronomique (INRA), Centre for Organismal Studies (COS), Department of developmental Biology, Heidelberg University, Comprehensive Cancer Center Mainfranken, Leibniz Institute of Freshwater Ecology and Inland Fisheries (IGB). DEU., Biologie du développement et reproduction (BDR), École nationale vétérinaire d'Alfort (ENVA)-Institut National de la Recherche Agronomique (INRA)-Centre National de la Recherche Scientifique (CNRS), and University of Heidelberg

Subjects
fish, détermination du sexe, medaka, [SDV]Life Sciences [q-bio], education, gène déterminant majeur du sexe, sex determination, oryzias latipes, reproduction, poisson, gène dmrt1bY, adrianichthyidae, gonadogénèse, transcription, expression des gènes
Abstract

International audience; Transcriptional rewiring, post-transcriptional regulation and neo-functionalization: how the master sex-determining gene of medaka was born. Workshop: Paradigm shift in sex chromosome evolution.

Published
2019
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22. Functional and proteomic characterisation of salmonid coelomic fluid

Author

Guého, Aurélie, Rime, Hélène, Com, Emmanuelle, Lavigne, Régis, Guevel, Blandine, Montfort, Jérôme, Pineau, Charles, Bobe, Julien, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), U1085 - Plate-forme protéomique de Biogenouest (PROTIM), Institut National de la Santé et de la Recherche Médicale (INSERM), Institut de recherche en santé, environnement et travail (Irset), Université d'Angers (UA)-Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-École des Hautes Études en Santé Publique [EHESP] (EHESP)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), ANR grant # 16-CE20-001 EggPreserve, Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Institut National de la Recherche Agronomique (INRA), Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES), Université d'Angers (UA)-Université de Rennes (UR)-École des Hautes Études en Santé Publique [EHESP] (EHESP)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Université de Rennes (UR), European Aquaculture Society (EAS). BEL., Corvaisier, Maryse, Iddentification de protéines du fluide ovarien impliquées dans la préservation de la qualité des oeufs de poisson - - EggPreserve2016 - ANR-16-CE20-0001 - AAPG2016 - VALID, Proteomics Core Facility (Protim), Université de Rennes (UR)-Plateforme Génomique Santé Biogenouest®, ANR-16-CE20-0001,EggPreserve,Iddentification de protéines du fluide ovarien impliquées dans la préservation de la qualité des oeufs de poisson(2016), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-Plateforme Génomique Santé Biogenouest®, and ProdInra, Archive Ouverte

Subjects
gamete quality, [SDV]Life Sciences [q-bio], nature conservation, hplc, approche protéomique, reproduction, oeuf de poisson, poisson, rainbow, salmonids, viabilité, fish reproduction, liquide coelomique, ComputingMilieux_MISCELLANEOUS, high pressure liquid chromatography, mass spectrometry, fish, salmonidae, trout, oncorhynchus mykiss, viability, conservation, rainbow trout, [SDV] Life Sciences [q-bio], aquaculture, mécanisme biologique, coelomic fluid, truite arc en ciel
Abstract

International audience

Published
2019

23. Difficulties to compare egg quality: insights from a transcriptomic analysis

Author

Rocha de Almeida, Taina, Bobe, Julien, Le Cam, Aurélie, Klopp, Christophe, Montfort, Jérôme, Fontaine, Pascal, CHARDARD, Dominique, Schaerlinger, Bérénice, Unité de Recherches Animal et Fonctionnalités des Produits Animaux (URAFPA), Institut National de la Recherche Agronomique (INRA)-Université de Lorraine (UL), Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Unité de Mathématiques et Informatique Appliquées de Toulouse (MIAT INRA), Institut National de la Recherche Agronomique (INRA), French National Research Agency (Maternal Legacy, ANR-13-BSV7-0015), INRA PHASE, Brazilian National Council for Scientific and Technological Development (CNPq-233389/2014-8), ANR-13-BSV7-0015,Maternal Legacy,Portait moléculaire d'un oeuf de poisson de bonne qualité(2013), and Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Institut National de la Recherche Agronomique (INRA)

Subjects
mRNA, [SDV]Life Sciences [q-bio], education, egg content, gene ontology, microarray, health care economics and organizations, Perca fluviatilis
Abstract

Difficulties to compare egg quality: insights from a transcriptomic analysis. 7. International Workshop on the Biology of Fish Gametes

Published
2019

24. Identification and functional characterization of ovarian and maternally-inherited miRNAs in medaka

Author

Gay, Stéphanie, Montfort, Jérôme, Legeai, Fabrice, Nguyen, Thuy Thao Vi, Desvignes, Thomas, Thermes, Violette, Bobe, Julien, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Institut de Génétique, Environnement et Protection des Plantes (IGEPP), Institut National de la Recherche Agronomique (INRA)-Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-AGROCAMPUS OUEST, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Institute of Neuroscience, University of Oregon, ANR-18-CE20-0004,DynaMO,Elucider les bases cellulaires de la fécondité chez le poisson : dynamique et régulation de l'ovogenèse chez le medaka(2018), Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Institut National de la Recherche Agronomique (INRA), AGROCAMPUS OUEST-Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-Institut National de la Recherche Agronomique (INRA), ANR Dynamo, and Institut National de la Recherche Agronomique (INRA)-Université de Rennes (UR)-AGROCAMPUS OUEST

Subjects
medaka, endocrine system diseases, [SDV]Life Sciences [q-bio], embryonic structures, fungi, education, egg, RNA-seq, 4-6 items, Non coding RNA, CRISPR/Cas9, reproductive and urinary physiology
Abstract

Identification and functional characterization of ovarian and maternally-inherited miRNAs in medaka. 7. International Workshop on the Biology of Fish Gametes

Published
2019

25. Oocyte-somatic cells interactions, lessons from evolution

Author

Charlier Cathy, Montfort Jérôme, Chabrol Olivier, Brisard Daphné, Nguyen Thaovi, Le Cam Aurélie, Richard-Parpaillon Laurent, Moreews François, Pontarotti Pierre, Uzbekova Svetlana, Chesnel Franck, and Bobe Julien

Subjects
Biotechnology, TP248.13-248.65, Genetics, QH426-470
Abstract

Abstract Background Despite the known importance of somatic cells for oocyte developmental competence acquisition, the overall mechanisms underlying the acquisition of full developmental competence are far from being understood, especially in non-mammalian species. The present work aimed at identifying key molecular signals from somatic origin that would be shared by vertebrates. Results Using a parallel transcriptomic analysis in 4 vertebrate species - a teleost fish, an amphibian, and two mammals - at similar key steps of developmental competence acquisition, we identified a large number of species-specific differentially expressed genes and a surprisingly high number of orthologous genes exhibiting similar expression profiles in the 3 tetrapods and in the 4 vertebrates. Among the evolutionary conserved players participating in developmental competence acquisition are genes involved in key processes such as cellular energy metabolism, cell-to-cell communications, and meiosis control. In addition, we report many novel molecular actors from somatic origin that have never been studied in the vertebrate ovary. Interestingly, a significant number of these new players actively participate in Drosophila oogenesis. Conclusions Our study provides a comprehensive overview of evolutionary-conserved mechanisms from somatic origin participating in oocyte developmental competence acquisition in 4 vertebrates. Together our results indicate that despite major differences in ovarian follicular structure, some of the key players from somatic origin involved in oocyte developmental competence acquisition would be shared, not only by vertebrates, but also by metazoans. The conservation of these mechanisms during vertebrate evolution further emphasizes the important contribution of the somatic compartment to oocyte quality and paves the way for future investigations aiming at better understanding what makes a good egg.

Published
2012
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26. MiR-202 controls female fecundity by regulating medaka oogenesis

Author

Gay, Stéphanie, Bugeon, Jérôme, Bouchareb, Amine, Henry, Laure, Delahaye, Clara, Legeai, Fabrice, Montfort, Jérôme, Le Cam, Aurélie, Siegel, Anne, Bobe, Julien, Thermes, Violette, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Institut National de la Recherche Agronomique (INRA), Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES), Centre National de la Recherche Scientifique (CNRS), Institut de Génétique, Environnement et Protection des Plantes (IGEPP), Institut National de la Recherche Agronomique (INRA)-Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-AGROCAMPUS OUEST, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Scalable, Optimized and Parallel Algorithms for Genomics (GenScale), Inria Rennes – Bretagne Atlantique, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-GESTION DES DONNÉES ET DE LA CONNAISSANCE (IRISA-D7), Institut de Recherche en Informatique et Systèmes Aléatoires (IRISA), Université de Bretagne Sud (UBS)-Institut National des Sciences Appliquées - Rennes (INSA Rennes), Institut National des Sciences Appliquées (INSA)-Université de Rennes (UNIV-RENNES)-Institut National des Sciences Appliquées (INSA)-Université de Rennes (UNIV-RENNES)-Institut National de Recherche en Informatique et en Automatique (Inria)-École normale supérieure - Rennes (ENS Rennes)-Centre National de la Recherche Scientifique (CNRS)-Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-CentraleSupélec-IMT Atlantique Bretagne-Pays de la Loire (IMT Atlantique), Institut Mines-Télécom [Paris] (IMT)-Institut Mines-Télécom [Paris] (IMT)-Université de Bretagne Sud (UBS)-Institut National des Sciences Appliquées - Rennes (INSA Rennes), Institut Mines-Télécom [Paris] (IMT)-Institut Mines-Télécom [Paris] (IMT)-Institut de Recherche en Informatique et Systèmes Aléatoires (IRISA), Institut National des Sciences Appliquées (INSA)-Université de Rennes (UNIV-RENNES)-Institut National des Sciences Appliquées (INSA)-Université de Rennes (UNIV-RENNES)-École normale supérieure - Rennes (ENS Rennes)-Centre National de la Recherche Scientifique (CNRS)-Université de Rennes 1 (UR1), Institut Mines-Télécom [Paris] (IMT)-Institut Mines-Télécom [Paris] (IMT), Dynamics, Logics and Inference for biological Systems and Sequences (Dyliss), ANR-16-COFA-0004, Agence Nationale de la Recherche, ANR-11-INBS-0014,TEFOR,Transgenèse pour les Etudes Fonctionnelles sur les Organismes modèles(2011), ANR-16-COFA-0004,AquaCrispr,Optimization of the CRISPR/Cas9 knock-in technology and application in salmon and trout(2016), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Université de Rennes (UR), Institut National de la Recherche Agronomique (INRA)-Université de Rennes (UR)-AGROCAMPUS OUEST, Université de Rennes (UR)-Institut National des Sciences Appliquées - Rennes (INSA Rennes), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Université de Bretagne Sud (UBS)-École normale supérieure - Rennes (ENS Rennes)-Institut National de Recherche en Informatique et en Automatique (Inria)-CentraleSupélec-Centre National de la Recherche Scientifique (CNRS)-IMT Atlantique (IMT Atlantique), Institut Mines-Télécom [Paris] (IMT)-Institut Mines-Télécom [Paris] (IMT)-Université de Rennes (UR)-Institut National des Sciences Appliquées - Rennes (INSA Rennes), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Université de Bretagne Sud (UBS)-École normale supérieure - Rennes (ENS Rennes)-CentraleSupélec-Centre National de la Recherche Scientifique (CNRS)-IMT Atlantique (IMT Atlantique), AGROCAMPUS OUEST-Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-Institut National de la Recherche Agronomique (INRA), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-Institut National des Sciences Appliquées - Rennes (INSA Rennes), Institut National des Sciences Appliquées (INSA)-Université de Rennes (UNIV-RENNES)-Institut National des Sciences Appliquées (INSA)-Université de Bretagne Sud (UBS)-École normale supérieure - Rennes (ENS Rennes)-Institut National de Recherche en Informatique et en Automatique (Inria)-CentraleSupélec-Centre National de la Recherche Scientifique (CNRS)-IMT Atlantique Bretagne-Pays de la Loire (IMT Atlantique), Institut Mines-Télécom [Paris] (IMT)-Institut Mines-Télécom [Paris] (IMT)-Université de Rennes 1 (UR1), Institut National des Sciences Appliquées (INSA)-Université de Rennes (UNIV-RENNES)-Institut National des Sciences Appliquées (INSA)-Université de Bretagne Sud (UBS)-École normale supérieure - Rennes (ENS Rennes)-CentraleSupélec-Centre National de la Recherche Scientifique (CNRS)-IMT Atlantique Bretagne-Pays de la Loire (IMT Atlantique), and ANR-11-INBS-0014/11-INBS-0014,TEFOR,Transgenèse pour les Etudes Fonctionnelles sur les Organismes modèles(2011)

Subjects
Male, MiR-202, Physiology, [SDV]Life Sciences [q-bio], Oryzias, Biochemistry, Epithelium, Animals, Genetically Modified, Gene Knockout Techniques, oeuf de poisson, Oogenesis, poisson, Animal Cells, Reproductive Physiology, Medicine and Health Sciences, Gene Editing, Obstetrics and Gynecology, Gene Expression Regulation, Developmental, ovogenèse, microRNAs, Ovaries, Nucleic acids, OVA, micro arn, Female, Anatomy, Cellular Types, Genital Anatomy, Research Article, expression des gènes, lcsh:QH426-470, qualité des oeufs, Urology, fecundity, oryzia latipes, reproduction, Genetics, Animals, adrianichthyidae, analyse du transcriptome, Non-coding RNA, Gonads, CRISPR/Cas9, knock out, fish, medaka, Granulosa Cells, Gene Expression Profiling, ovaire, Reproductive System, Biology and Life Sciences, Subfertility, Epithelial Cells, Cell Biology, Female Subfertility, mécanisme de régulation, Gene regulation, lcsh:Genetics, Germ Cells, Biological Tissue, Fertility, Infertility, fécondite, Oocytes, croissance folliculaire, RNA, Women's Health, Lutein Cells, ovary, Gene expression, CRISPR-Cas Systems
Abstract

Female gamete production relies on coordinated molecular and cellular processes that occur in the ovary throughout oogenesis. In fish, as in other vertebrates, these processes have been extensively studied both in terms of endocrine/paracrine regulation and protein expression and activity. The role of small non-coding RNAs in the regulation of animal reproduction remains however largely unknown and poorly investigated, despite a growing interest for the importance of miRNAs in a wide variety of biological processes. Here, we analyzed the role of miR-202, a miRNA predominantly expressed in male and female gonads in several vertebrate species. We studied its expression in the medaka ovary and generated a mutant line (using CRISPR/Cas9 genome editing) to determine its importance for reproductive success with special interest for egg production. Our results show that miR-202-5p is the most abundant mature form of the miRNA and that it is expressed in granulosa cells and in the unfertilized egg. The knock out (KO) of mir-202 gene resulted in a strong phenotype both in terms of number and quality of eggs produced. Mutant females exhibited either no egg production or produced a dramatically reduced number of eggs that could not be fertilized, ultimately leading to no reproductive success. We quantified the size distribution of the oocytes in the ovary of KO females and performed a large-scale transcriptomic analysis approach to identified dysregulated molecular pathways. Together, cellular and molecular analyses indicate that the lack of miR-202 impairs the early steps of oogenesis/folliculogenesis and decreases the number of large (i.e. vitellogenic) follicles, ultimately leading to dramatically reduced female fecundity. This study sheds new light on the regulatory mechanisms that control the early steps of follicular development, including possible targets of miR-202-5p, and provides the first in vivo functional evidence that a gonad-predominant microRNA may have a major role in female reproduction., Author summary The role of small non-coding RNAs in the regulation of animal reproduction remains poorly investigated, despite a growing interest for the importance of miRNAs in a wide variety of biological processes. Here, we analyzed the role of miR-202, a miRNA predominantly expressed in gonads in vertebrate. We studied its expression in the medaka ovary and knocked out the mir-202 gene to study its importance for reproductive success. We showed that the lack of miR-202 results in the sterility of both females and males. In particular, it led to a drastic reduction of both the number and the quality of eggs produced by females. Mutant females exhibited either no egg production or produced a drastically reduced number of eggs that could not be fertilized, ultimately leading to no reproductive success. Quantitative histological and molecular analyses indicated that mir-202 KO impairs oocyte development and is also associated with the dysregulation of many genes that are critical for reproduction. This study sheds new light on the regulatory mechanisms that control oogenesis, including possible targets of miR-202-5p, and provides the first in vivo functional evidence that a gonad-predominant microRNA may have a major role in female reproduction.

Published
2018
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27. MiR-202 regulates female fecundity by controlling early follicle development in medaka ovary

Author

Gay, Stéphanie, Bugeon, Jérôme, Bouchareb, Amine, Henry, Laure, DELAHAYE, Clara, Montfort, Jérôme, Le Cam, Aurélie, Bobe, Julien, Thermes, Violette, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Instituto Nacional de Pesquisas da Amazônia (INPA). Manaus, BRA., and Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Institut National de la Recherche Agronomique (INRA)

Subjects
fish, medaka, qualité des oeufs, fecundity, [SDV]Life Sciences [q-bio], fungi, education, analyse d'image, ovogenèse, humanities, oryzias latipes, reproduction, oeuf de poisson, poisson, fécondite, adrianichthyidae, fluorescence, analyse du transcriptome, CRISPR/Cas9, health care economics and organizations, reproductive and urinary physiology, miRNA, expression des gènes
Abstract

MiR-202 regulates female fecundity by controlling early follicle development in medaka ovary. 11. International Symposium on Reproductive Physiology of Fish

Published
2018

28. A transcriptomic comparison suggests an influence of the domestication process on egg quality in Eurasian Perch (Perca fluviatilis)

Author

Rocha de Almeida, Taina, Alix, M., Schaerlinger, B., Le Cam, Aurélie, Montfort, Jérôme, Toomey, L., Bobe, Julien, Chardard, D., Fontaine, Pascal, Unité de Recherches Animal et Fonctionnalités des Produits Animaux (URAFPA), Institut National de la Recherche Agronomique (INRA)-Université de Lorraine (UL), Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), ANR-13-BSV7-0015 - CNPq (233389/2014-8) - MESR, CNPq (233389/2014-8) - MESR, Instituto Nacional de Pesquisas da Amazônia (INPA). Manaus, BRA., ANR-13-BSV7-0015,Maternal Legacy,Portait moléculaire d'un oeuf de poisson de bonne qualité(2013), Université de Lorraine (UL)-Institut National de la Recherche Agronomique (INRA), Unité de Recherches Animal et Fonctionnalités des Produits Animaux ( URAFPA ), Institut National de la Recherche Agronomique ( INRA ) -Université de Lorraine ( UL ), Laboratoire de Physiologie et Génomique des Poissons ( LPGP ), and Institut National de la Recherche Agronomique ( INRA ) -Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )

Subjects
fish, perca fluviatilis, [ SDV ] Life Sciences [q-bio], qualité des oeufs, [SDV]Life Sciences [q-bio], education, physiologie de la reproduction, humanities, reproduction, perch, oeuf de poisson, domestication, poisson, perche, percidae, arn maternel, health care economics and organizations, plant domestication
Abstract

A transcriptomic comparison suggests an influence of the domestication process on egg quality in Eurasian Perch (Perca fluviatilis). 11. International Symposium on Reproductive Physiology of Fish

Published
2018

29. miR-202, un microARN clé pour le succès reproducteur des femelles chez le poisson médaka

Author

Gay, Stéphanie, Bugeon, Jérôme, Bouchareb, Amine, Henry, Laure, Montfort, Jérôme, Le Cam, Aurélie, Bobe, Julien, Thermes, Violette, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), and ProdInra, Archive Ouverte

Subjects
fish, medaka, breeding success, qualité des oeufs, [SDV]Life Sciences [q-bio], ovaire, ovogenèse, microRNAs, oryzias latipes, [SDV] Life Sciences [q-bio], reproduction, oeuf de poisson, poisson, femelle, micro arn, ovary, adrianichthyidae, succes reproducteur, CRISPR/Cas9, expression des gènes
Abstract

miR-202, un microARN clé pour le succès reproducteur des femelles chez le poisson médaka. Journées d'Animation Scientifique du département Phase (JAS Phase 2018)

Published
2018

30. Muscle growth and remodeling in trout: insights from transcriptomics

Author

Rescan, Pierre-Yves, Montfort, Jérôme, Le Cam, Aurélie, Ralliere, Cécile, Gabillard, Jean-Charles, Fautrel, Alain, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), and Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )

Subjects
salmonidae, poisson, muscle, [SDV]Life Sciences [q-bio], croissance animale, [INFO]Computer Science [cs], truite, ComputingMilieux_MISCELLANEOUS, étude transcriptomique
Abstract

International audience

Published
2018

31. MicroRNA-202 (miR-202) controls female fecundity by regulating medaka oogenesis

Author

Gay, Stéphanie, Bugeon, Jérôme, Bouchareb, Amine, Henry, Laure, Montfort, Jérôme, Le Cam, Aurélie, Bobe, Julien, and Thermes, Violette

Subjects
medaka, fish, fertility, ovary, gonads, microRNAs, quantitative image analyses, CRISPR/cas9, microarray, ovaire, analyse d'image, mécanisme de régulation, oryzias latipes, gonade, reproduction, fertilité, reproduction femelle, poisson, micro arn, adrianichthyidae, analyse du transcriptome, expression des gènes
Abstract

Female gamete production relies on coordinated molecular and cellular processes that occur in the ovary throughout oogenesis. In fish, as in other vertebrates, these processes have been extensively studied both in terms of endocrine/paracrine regulation and protein expression and activity. The role of small non-coding RNAs in the regulation of animal reproduction remains however largely unknown and poorly investigated, despite a growing interest for the importance of miRNAs in a wide variety of biological processes. Here, we analyzed the role of miR-202, a miRNA predominantly expressed in male and female gonads in several vertebrate species. We studied its expression in the medaka ovary and generated a mutant line (using CRISPR/Cas9 genome engineering) to determine its importance for reproductive success with special interest for egg production. Our results show that miR-202-5p is the biologically active form of the miRNA and that it is expressed in granulosa cells and in the unfertilized egg. The knock out (KO) of miR-202 resulted in a strong phenotype both in terms of number and quality of eggs produced. Mutant females exhibited either no egg production or produced a drastically reduced number of eggs that could not be fertilized, ultimately leading to no reproductive success. We quantified the size distribution of the oocytes in the ovary of KO females and performed a genome-wide transcriptomic analysis approach to identified dysregulated molecular pathways. Together, cellular and molecular analyses indicate that lack of miR-202 impairs the early steps of oogenesis/folliculogenesis and decreases the number of large (i.e. vitellogenic) follicles, ultimately leading to dramatically reduced female fecundity. This study sheds new light on the regulatory mechanisms that control the early steps of follicular development and provides the first in vivo functional evidence that an ovarian-predominant microRNA may have a major role in female reproduction.

Published
2018

32. Domestication may affect the maternal mRNA profile in unfertilized eggs, potentially impacting the embryonic development of Eurasian perch (Perca fluviatilis)

Author

Rocha de Almeida, Tainá, primary, Alix, Maud, additional, Le Cam, Aurélie, additional, Klopp, Christophe, additional, Montfort, Jérôme, additional, Toomey, Lola, additional, Ledoré, Yannick, additional, Bobe, Julien, additional, Chardard, Dominique, additional, Schaerlinger, Bérénice, additional, and Fontaine, Pascal, additional

Published
2019
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33. Expression profiling of rainbow trout testis development identifies evolutionary conserved genes involved in spermatogenesis

Author

Esquerré Diane, Ricordel Marie-Jo, Montfort Jérôme, Goupil Anne-Sophie, Lareyre Jean-Jacques, Rolland Antoine D, Hugot Karine, Houlgatte Rémi, Chalmel Fréderic, and Le Gac Florence

Subjects
Biotechnology, TP248.13-248.65, Genetics, QH426-470
Abstract

Abstract Background Spermatogenesis is a late developmental process that involves a coordinated expression program in germ cells and a permanent communication between the testicular somatic cells and the germ-line. Current knowledge regarding molecular factors driving male germ cell proliferation and differentiation in vertebrates is still limited and mainly based on existing data from rodents and human. Fish with a marked reproductive cycle and a germ cell development in synchronous cysts have proven to be choice models to study precise stages of the spermatogenetic development and the germ cell-somatic cell communication network. In this study we used 9K cDNA microarrays to investigate the expression profiles underlying testis maturation during the male reproductive cycle of the trout, Oncorhynchus mykiss. Results Using total testis samples at various developmental stages and isolated spermatogonia, spermatocytes and spermatids, 3379 differentially expressed trout cDNAs were identified and their gene activation or repression patterns throughout the reproductive cycle were reported. We also performed a tissue-profiling analysis and highlighted many genes for which expression signals were restricted to the testes or gonads from both sexes. The search for orthologous genes in genome-sequenced fish species and the use of their mammalian orthologs allowed us to provide accurate annotations for trout cDNAs. The analysis of the GeneOntology terms therefore validated and broadened our interpretation of expression clusters by highlighting enriched functions that are consistent with known sequential events during male gametogenesis. Furthermore, we compared expression profiles of trout and mouse orthologs and identified a complement of genes for which expression during spermatogenesis was maintained throughout evolution. Conclusion A comprehensive study of gene expression and associated functions during testis maturation and germ cell differentiation in the rainbow trout is presented. The study identifies new pathways involved during spermatogonia self-renewal or rapid proliferation, meiosis and gamete differentiation, in fish and potentially in all vertebrates. It also provides the necessary basis to further investigate the hormonal and molecular networks that trigger puberty and annual testicular recrudescence in seasonally breeding species.

Published
2009
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34. Androgen-induced masculinization in rainbow trout results in a marked dysregulation of early gonadal gene expression profiles

Author

Houlgatte Rémi, Montfort Jérôme, Baron Daniel, Fostier Alexis, and Guiguen Yann

Subjects
Biotechnology, TP248.13-248.65, Genetics, QH426-470
Abstract

Abstract Background Fish gonadal sex differentiation is affected by sex steroids treatments providing an efficient strategy to control the sexual phenotype of fish for aquaculture purposes. However, the biological effects of such treatments are poorly understood. The aim of this study was to identify the main effects of an androgen masculinizing treatment (11β-hydroxyandrostenedione, 11βOHΔ4, 10 mg/kg of food for 3 months) on gonadal gene expression profiles of an all-female genetic population of trout. To characterize the most important molecular features of this process, we used a large scale gene expression profiling approach using rainbow trout DNA microarrays combined with a detailed gene ontology (GO) analysis. Results 2,474 genes were characterized as up-regulated or down-regulated in trout female gonads masculinized by androgen in comparison with control male or female gonads from untreated all-male and all-female genetic populations. These genes were classified in 13 k-means clusters of temporally correlated expression profiles. Gene ontology (GO) data mining revealed that androgen treatment triggers a marked down-regulation of genes potentially involved in early oogenesis processes (GO 'mitotic cell cycle', 'nucleolus'), an up-regulation of the translation machinery (GO 'ribosome') along with a down-regulation of proteolysis (GO 'proteolysis', 'peptidase' and 'metallopeptidase activity'). Genes considered as muscle fibres markers (GO 'muscle contraction') and genes annotated as structural constituents of the extracellular matrix (GO 'extracellular matrix') or related to meiosis (GO 'chromosome' and 'meiosis') were found significantly enriched in the two clusters of genes specifically up-regulated in androgen-treated female gonads. GO annotations 'Sex differentiation' and 'steroid biosynthesis' were enriched in a cluster of genes with high expression levels only in control males. Interestingly none of these genes were stimulated by the masculinizing androgen treatment. Conclusion This study provides evidence that androgen masculinization results in a marked dysregulation of early gene expression profiles when compared to natural testicular or ovarian differentiation. Based on these results we suggest that, in our experimental conditions, androgen masculinization proceeds mainly through an early inhibition of female development.

Published
2007
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35. Expression of miRNA and target genes was affected by genetic selection of rainbow trout and plant-based diet

Author

ZHU, Tengfei, Corraze, Geneviève, Plagnes- Juan, Elisabeth, Montfort, Jérôme, Bobe, Julien, Quillet, Edwige, Dupont-Nivet, Mathilde, Skiba, Sandrine, Nutrition, Métabolisme, Aquaculture (NuMéA), Institut National de la Recherche Agronomique (INRA)-Université de Pau et des Pays de l'Adour (UPPA), Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Génétique Animale et Biologie Intégrative (GABI), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Université Paris-Saclay, Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Institut National de la Recherche Agronomique (INRA), and European Aquaculture Society (EAS). BEL.

Subjects
fish, endocrine system, disease resistance, animal structures, microRNA, genetic selection, plant-based diet, urogenital system, animal diseases, [SDV]Life Sciences [q-bio], rainbow trout, digestive system
Abstract

Expression of miRNA and target genes was affected by genetic selection of rainbow trout and plant-based diet . Aquaculture Europe 2017

Published
2017

36. Transcriptomic analysis of Eurasian perch (Perca fluviatilis) eggs assigned to distinct groups of quality

Author

ROCHA DE ALMEIDA, Taina, Schaerlinger, Bérénice, Le Cam, Aurélie, Alix, Maud, Montfort, Jérôme, Bobe, Julien, CHARDARD, Dominique, Fontaine, Pascal, ProdInra, Archive Ouverte, Blanc 2013 - Portait moléculaire d'un oeuf de poisson de bonne qualité - - Maternal Legacy2013 - ANR-13-BSV7-0015 - Blanc 2013 - VALID, Unité de Recherches Animal et Fonctionnalités des Produits Animaux (URAFPA), Institut National de la Recherche Agronomique (INRA)-Université de Lorraine (UL), Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), This study is funded in part by ANR (Agence Nationale de la Recherche/ French National Research Agency) Maternal Legacy (ANR-13-BSV7-0015). We are also thankful for INRA PHASE department for supporting this work and for the Brazilian National Council for Scientific and Technological Development (CNPq) and the French ministry of research for TRA and MA PhD fellowships, respectively., University of South Bohemia in České Budějovice. CZE., and ANR-13-BSV7-0015,Maternal Legacy,Portait moléculaire d'un oeuf de poisson de bonne qualité(2013)

Subjects
developmental success, perca fluviatilis, qualité des oeufs, [SDV]Life Sciences [q-bio], education, bacterialresistance transfer factor, genomic, reproduction, fertilité, perch, oeuf de poisson, analyse de génome, poisson, développement de l'ovocyte, perche, egg content, percidae, analyse du transcriptome, oocyte, fish, ovocyte, ovogenèse, mortality, sex factors, [SDV] Life Sciences [q-bio], microarray, mortalité, expression des gènes
Abstract

Transcriptomic analysis of Eurasian perch (Perca fluviatilis) eggs assigned to distinct groups of quality. 6. International Workshop on the Biology of Fish Gametes

Published
2017

37. Transcriptomic analysis of Eurasian Perch (Perca fluviatilis) eggs assigned to various groups of qualities according to a statistically based analysis

Author

Rocha de Almeida, Taina, Schaerlinger, Bérénice, Le Cam, Aurélie, Maud, Alix, Montfort, Jérôme, Bobe, Julien, Chardard, Dominique, Fontaine, Pascal, Corvaisier, Maryse, Unité de Recherches Animal et Fonctionnalités des Produits Animaux (URAFPA), Institut National de la Recherche Agronomique (INRA)-Université de Lorraine (UL), Laboratoire de Physiologie et Génomique des Poissons (LPGP), and Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )

Subjects
[SDV] Life Sciences [q-bio], [SDV]Life Sciences [q-bio], Transcriptomics analysis, ComputingMilieux_MISCELLANEOUS, Egg quality, Eurasian perch
Abstract

International audience

Published
2017

39. Identification of novel ovarian predominant miRNAs in medaka (Oryzias latipes)

Author

Bouchareb, Amine, Le Cam, Aurélie, Montfort, Jérôme, Gay, Stéphanie, Nguyen, Thuy Thao Vi, Bobe, Julien, Thermes, Violette, ProdInra, Migration, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Society for the Study of Reproduction (SSR). USA., and Société Française de Biochimie et Biologie Moléculaire (SFBBM). FRA.

Subjects
[SDV] Life Sciences [q-bio], [SDV]Life Sciences [q-bio], [INFO]Computer Science [cs], ovary, [INFO] Computer Science [cs], microarray, ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2016

42. A comparison between egg trancriptomes of cod and salmon reveals species-specific traits in eggs for each species

Author

Wargelius, Anna, Furmanek, Tomasz, Montfort, Jérôme, Le Cam, Aurélie, Kleppe, Lene, Juanchich, Amélie, Edvardsen, Rolf B., Taranger, Geir Lasse, Bobe, Julien, Institute of Marine Research, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Institut National de la Recherche Agronomique (INRA), and European Project: 222719,EC:FP7:KBBE,FP7-KBBE-2007-2A,LIFECYCLE(2009)

Subjects
Fish Proteins, Gadus morhua, Species Specificity, Gene Expression Profiling, [SDV]Life Sciences [q-bio], Salmo salar, Oocytes, Animals, Female, Transcriptome, Oligonucleotide Array Sequence Analysis, Ovum
Abstract

Fish in use in aquaculture display large variation in gamete biology. To reach better understanding around this issue, this study aims at identifying if species specific "egg life history traits" can be hidden in the unfertilized egg. This was done by investigating egg transcriptome differences between Atlantic salmon and Atlantic cod. Salmon and cod eggs were selected due to their largely differencing phenotypes. An oligo microarray analysis was performed on ovulated eggs from cod (n = 8) and salmon (n = 7). The arrays were normalized to a similar spectrum for both arrays. Both arrays were re-annotated with SWISS-Prot and KEGG genes to retrieve an official gene symbol and an orthologous KEGG annotation, in salmon and cod arrays this represented 14,009 and 7,437 genes respectively. The probe linked to the highest gene expression for that particular KEGG annotation was used to compare expression between species. Differential expression was calculated for genes that had an annotation with score >300, resulting in a total of 2,457 KEGG annotations (genes) being differently expressed between the species (FD > 2). This analysis revealed that immune, signal transduction and excretory related pathways were overrepresented in salmon compared to cod. The most overrepresented pathways in cod were related to regulation of genetic information processing and metabolism. To conclude this analysis clearly point at some distinct transcriptome repertoires for cod and salmon and that these differences may explain some of the species-specific biological features for salmon and cod eggs. Mol. Reprod. Dev. 2015. © 2015 Wiley Periodicals, Inc.

Published
2015
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43. Identification of novel ovarian predominant MiRNAs in medaka

Author

Bouchareb, Amine, Le Cam, Aurélie, Montfort, Jérôme, Gay, Stéphanie, Nguyen, Thuy Thao Vi, Bobe, Julien, Thermes, Violette, Laboratoire de Physiologie et Génomique des Poissons (LPGP), and Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )

Subjects
reproduction, medaka, poisson, développement embryonnaire, [SDV]Life Sciences [q-bio], ovaire, [INFO]Computer Science [cs], adrianichthyidae, oryzias latipes, miRNA, expression des gènes
Abstract

International audience; MicroRNAs (miRNAs) are small and highly conserved non coding RNAs involved in the regulation of thousands of genes. miRNAs play important roles in both normal physiological and pathological pathways in many organisms. The involvement of miRNAs in vertebrate oogenesis remains however poorly documented. The present study aimed at getting new insight on the role of miRNAs fish oogenesis and maternal contribution to early embryonic development. Based on the assumption that ovarian-specific or ovarian-predominant genes usually play important roles in oogenesis and/or early development in vertebrates, we searched for ovarian-predominant miRNAs in the medaka (Oryzias latipes) ovary. We designed a genome-wide microarray displaying 3800 distinct miRNAs from different teleost and vertebrate species. The microarray analysis was performed using 10 different tissues of adult medaka, including the ovary. We identified twenty miRNAs predominantly expressed in the ovary that had never been described in medaka. Among them, miR-202 was previously shown to be predominantly expressed in the rainbow trout gonads. Among these novel ovarian medaka miRNAs, three had previously been identified in the mouse ovary or germline (miR-743a, miR-878 and miR487b), and sixteen (including miR-6352, miR-478, miR-1305, and miR-5581) had never been reported as ovarian-predominant miRNAs in any vertebrate species. To characterize the cognate miRNA sequences in medaka, heterologous miRNA sequences were aligned to the medaka genome and to medaka miRNA sequences predicted from existing RNA-seq data. Real time PCR was used to confirm ovarian-predominant expression of novel miRNAs and to analyze their expression profiles during oogenesis and early embryogenesis. Here we show that miR-202 is differentially expressed throughout oogenesis and is maternally-inherited in the medaka egg. This suggests a role of miR-202 during oocyte formation process and/or early embryonic development in medaka. Finally, our study led to the identification of previously uncharacterized medaka miRNAs predominantly expressed in the ovary, and should contribute to a further understanding of the roles of specific miRNAs in female gamete formation in this model species.

Published
2015

44. A unique in vivo experimental approach reveals metabolic adaptation of the probiotic [i]Propionibacterium freudenreichii[/i] to the colon environment

Author

Jan, Gwénaël, Saraoui, Taous, Parayre-Breton, Sandrine, Guernec, Grégory, Loux, Valentin, Montfort, Jérôme, Le Cam, Aurélie, Boudry, Gaëlle, Falentin, Hélène, Science et Technologie du Lait et de l'Oeuf (STLO), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-AGROCAMPUS OUEST, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Laboratoire de Physiologie et Génomique des Poissons (LPGP), Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Institut National de la Recherche Agronomique (INRA), Epidémiologie et analyses en santé publique : risques, maladies chroniques et handicaps (LEASP), Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Santé et de la Recherche Médicale (INSERM), Unité Mathématique, Informatique et Génome (MIG), Institut National de la Recherche Agronomique (INRA), Nutrition, Métabolismes et Cancer (NuMeCan), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES), Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Université de Toulouse (UT)-Université de Toulouse (UT)-Institut National de la Santé et de la Recherche Médicale (INSERM), Unité Mathématique Informatique et Génome (MIG), Institut National de la Recherche Agronomique (INRA)-Université de Rennes (UR)-Institut National de la Santé et de la Recherche Médicale (INSERM), Université de Rennes 1 (UR1), and Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-Institut National de la Santé et de la Recherche Médicale (INSERM)

Subjects
modèle animal, protéine de surface, transcriptomique, fromage, santé humaine, probiotique, propionibacterium freundenreichii, [SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology, microbiote, intestin, métabolite, propionibacterium freudenreichii, [SDV.IDA]Life Sciences [q-bio]/Food engineering, santé, [SDV.AEN]Life Sciences [q-bio]/Food and Nutrition, ComputingMilieux_MISCELLANEOUS
Abstract

International audience; BackgroundPropionibacterium freudenreichii is a food grade bacterium consumed both in cheeses and in probiotic preparations. Its promising probiotic potential, relying largely on the active release of beneficial metabolites within the gut as well as the expression of key surface proteins involved in immunomodulation, deserves to be explored more deeply. Adaptation to the colon environment is requisite for the active release of propionibacterial beneficial metabolites and constitutes a bottleneck for metabolic activity in vivo. Mechanisms allowing P. freudenreichii to adapt to digestive stresses have been only studied in vitro so far. Our aim was therefore to study P. freudenreichii metabolic adaptation to intra-colonic conditions in situ.ResultsWe maintained a pure culture of the type strain P. freudenreichii CIRM BIA 1, contained in a dialysis bag, within the colon of vigilant piglets during 24 hours. A transcriptomic analysis compared gene expression to identify the metabolic pathways induced by this environment, versus control cultures maintained in spent culture medium.We observed drastic changes in the catabolism of sugars and amino-acids. Glycolysis, the Wood-Werkman cycle and the oxidative phosphorylation pathways were down-regulated but induction of specific carbohydrate catabolisms and alternative pathways were induced to produce NADH, NADPH, ATP and precursors (utilizing of propanediol, gluconate, lactate, purine and pyrimidine and amino-acids). Genes involved in stress response were down-regulated and genes specifically expressed during cell division were induced, suggesting that P. freudenreichii adapted its metabolism to the conditions encountered in the colon.ConclusionsThis study constitutes the first molecular demonstration of P. freudenreichii activity and physiological adaptation in vivo within the colon. Our data are likely specific to our pig microbiota composition but opens an avenue towards understanding probiotic action within the gut in further studies comparing bacterial adaptation to different microbiota.

Published
2014

45. Nourrir les alevins de truite pendant une période courte avec un aliment végétal améliore son utilisation ultérieure

Author

Balasubramanian, Mukundh, Médale, Françoise, Kaushik, Sadasivam, Quillet, Edwige, Dupont-Nivet, Mathilde, Le Cam, Aurélie, Montfort, Jérôme, Panserat, Stéphane, Geurden, Inge, Nutrition, Aquaculture et Génomique (NUAGE), Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Université Sciences et Technologies - Bordeaux 1-Institut National de la Recherche Agronomique (INRA), Génétique Animale et Biologie Intégrative (GABI), AgroParisTech-Institut National de la Recherche Agronomique (INRA), Laboratoire de Physiologie et Génomique des Poissons (LPGP), Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Institut National de la Recherche Agronomique (INRA), Institut National de la Recherche Agronomique (INRA)-Université Sciences et Technologies - Bordeaux 1-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), and Institut Technique de l'Aviculture et des Elevages de Petits Animaux (ITAVI). FRA.

Subjects
salmonidae, [SDV.OT]Life Sciences [q-bio]/Other [q-bio.OT], poisson, alevin, aliment d'origine végétale, alimentation animale, truite, nutrition animale, Autre (Sciences du Vivant), expression des gènes
Abstract

Session Nutrition; absent

Published
2014

46. A comparison between egg transcriptomes of cod and salmon reveals species specific traits in eggs for each species

Author

Wargelius, Anna, Furmanek, T., Montfort, Jérôme, Le Cam, Aurélie, Kleppe, L., Edvardsen, R.B., Taranger, G.L., Bobe, Julien, Norwegian Institute of Marine Research, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Center of Marine Sciences (CCMAR). PRT., and ProdInra, Migration

Subjects
[SDV.BA] Life Sciences [q-bio]/Animal biology, [SDV.BA]Life Sciences [q-bio]/Animal biology, [SDV.BDLR]Life Sciences [q-bio]/Reproductive Biology, [SDV.BDLR] Life Sciences [q-bio]/Reproductive Biology, ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2014

47. Transcriptomic analysis reveals molecular mechanisms mediating enhanced feed acceptance of plant-based diet in rainbow trout following early exposure at first feeding

Author

Balasubramanian, Mukundh, Panserat, Stephane, Dupont-Nivet, Mathilde, Quillet, Edwige, Le Cam, Aurélie, Montfort, Jérôme, Medale, Françoise, Kaushik, Sadasivam, Geurden, Inge, ProdInra, Archive Ouverte, Nutrition, Aquaculture et Génomique (NUAGE), Institut National de la Recherche Agronomique (INRA)-Université Sciences et Technologies - Bordeaux 1-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER), Génétique Animale et Biologie Intégrative (GABI), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), European Aquaculture Society (EAS). BEL., AgroParisTech-Institut National de la Recherche Agronomique (INRA), and Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Institut National de la Recherche Agronomique (INRA)

Subjects
[SDV.AEN] Life Sciences [q-bio]/Food and Nutrition, [SDV.BA] Life Sciences [q-bio]/Animal biology, [SDV.BA]Life Sciences [q-bio]/Animal biology, [SDV.AEN]Life Sciences [q-bio]/Food and Nutrition
Abstract

absent

Published
2014

48. A unique in vivo approach reveals metabolic adaptation of the probiotic Propionibacterium freudenreichii to the colon environment

Author

Parayre-Breton, Sandrine, Saraoui, Taous, Guernec, Grégory, Loux, Valentin, Montfort, Jérôme, Le Cam, Aurélie, Boudry, Gaëlle, Jan, Gwenael, Falentin, Hélène, Science et Technologie du Lait et de l'Oeuf (STLO), Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, Laboratoire de Science et Technologie de la Biomasse Marine, Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER), Laboratoire de Physiologie et Génomique des Poissons (LPGP), Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Institut National de la Recherche Agronomique (INRA), Epidémiologie et analyses en santé publique : risques, maladies chroniques et handicaps (LEASP), Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Santé et de la Recherche Médicale (INSERM), Unité Mathématique, Informatique et Génome (MIG), Institut National de la Recherche Agronomique (INRA), Alimentation Adaptions Digestives, Nerveuses et Comportementales (ADNC), REGION BRETAGNE, CRITT SANTE BRETAGNE, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), and Alimentation Adaptations Digestives, Nerveuse et Comportementales (ADNC)

Subjects
in vivo, [SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology, intestin, protéine, propionibacterium freudenreichii, [SDV.IDA]Life Sciences [q-bio]/Food engineering, adaptation, santé humaine, digestion, probiotique, immunomodulation, [SDV.AEN]Life Sciences [q-bio]/Food and Nutrition
Abstract

Background: Propionibacterium freudenreichii is a food grade bacterium consumed both in cheeses and in probiotic preparations. Its promising probiotic potential, relying largely on the active release of beneficial metabolites within the gut as well as the expression of key surface proteins involved in immunomodulation, deserves to be explored more deeply. Adaptation to the colon environment is requisite for the active release of propionibacterial beneficial metabolites and constitutes a bottleneck for metabolic activityin vivo . Mechanisms allowing P. freudenreichii to adapt to digestive stresses have been only studied in vitro so far. Our aim was therefore to study P. freudenreichii metabolic adaptation to intra-colonic conditions in situ . Results: We maintained a pure culture of the type strain P. freudenreichii CIRM BIA 1, contained in a dialysis bag, within the colon of vigilant piglets during 24 hours. A transcriptomic analysis compared gene expression to identify the metabolic pathways induced by this environment, versus control cultures maintained in spent culture medium. We observed drastic changes in the catabolism of sugars a nd amino-acids. Glycolysis, the Wood-Werkman cycle and the oxidative phosphorylation pathways were down -regulated but induction of specific carbohydrate catabolisms and alternative pathways were induced to produce NADH, NADPH, ATP and precursors (utilizing of propanediol, gluconate, lactate, purine and pyrimidine and amino-acids). Genes involved in stress response were down-regulated and genes specifically expressed during cell division were induced, suggesting that P. freudenreichii adapted its metabolism to the conditions encountered in the colon. Conclusions: This study constitutes the first molecular demonstration of P. freudenreichii activity and physiological adaptation in vivo within the colon. Our data are likely specific to our pig microbiota composition but opens an avenue towards understanding probiotic action within the gut in further studies comparing bacterial adaptation to different microbiota

Published
2013

49. Identification of differentially expressed miRNAs and their potential targets during fish oogenesis

Author

Juanchich, Amélie, Le Cam, Aurélie, Montfort, Jérôme, Guiguen, Yann, Bobe, Julien, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Institut National de la Recherche Agronomique (INRA), and ProdInra, Migration

Subjects
[SDV.BA] Life Sciences [q-bio]/Animal biology, [SDV.BA]Life Sciences [q-bio]/Animal biology, ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2013

50. Identification of differentially expressed miRNAs and their potential targets during fish ovarian development

Author

Juanchich, Amélie, Le Cam, Aurélie, Montfort, Jérôme, Guiguen, Yann, Bobe, Julien, Laboratoire de Physiologie et Génomique des Poissons (LPGP), Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Institut National de la Recherche Agronomique (INRA), Institut National de la Recherche Agronomique (INRA) PHASE grant, and Institut National de la Recherche Agronomique (INRA)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )

Subjects
microRNA, [SDV.BA]Life Sciences [q-bio]/Animal biology, Gene Expression Profiling, Ovary, Gene Expression Regulation, Developmental, rainbow trout, MicroRNAs, metazoans, Oogenesis, Oncorhynchus mykiss, Oocytes, Animals, Female, microarray
Abstract

Supplementary data (sur le site de la revue) : 105361SuppFigS1V2 - 105361SuppTableS1 - 105361SuppTableS2 - 105361SuppTableS3; Oogenesis is a complex process requiring the coordinated sequential expression of specific genes and ultimately leading to the release of the female gamete from the ovary. In the present study we aimed to investigate the contribution of miRNAs to the regulation of this key biological process in teleosts using a model in which growing oocytes develop simultaneously. Taking advantage of the strong sequence conservation of miRNAs among phylogenetically distant species, we designed a generic microarray displaying most known chordate miRNAs. It allowed us to provide an overview of the ovarian miRNome during oogenesis for the first time in any vertebrate species. We identified 13 differentially expressed miRNAs, and a differential expression of at least one miRNA was observed at each step of oogenesis. A surprisingly high differential expression of several miRNAs was observed at several stages of oogenesis and subsequently confirmed using quantitative PCR. By refining in silico prediction of target genes with gene expression data obtained within the same sample set, we provide strong evidence that miRNAs target major players of oogenesis, including genes involved in rate-limiting steps of steroidogenesis and those involved in gonadotropic control of oocyte development, as well as genes involved in ovulation, oocyte hydration, and acquisition of the ability of the oocyte to support further development once fertilized (i.e., oocyte developmental competence). Together, these observations stress the importance of miRNAs in the regulation and success of female gamete formation during oogenesis.

Published
2013
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