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The transposable element-rich genome of the cereal pest Sitophilus oryzae.
Parisot, Nicolas; Vargas-Chávez, Carlos; Goubert, Clément; Baa-Puyoulet, Patrice; Balmand, Séverine; Beranger, Louis; Blanc, Caroline; Bonnamour, Aymeric; Boulesteix, Matthieu; Burlet, Nelly; Calevro, Federica; Callaerts, Patrick; Chancy, Théo; Charles, Hubert; Colella, Stefano; Da Silva Barbosa, André; Dell'Aglio, Elisa; Di Genova, Alex; Febvay, Gérard; Gabaldón, Toni; Galvão Ferrarini, Mariana; Gerber, Alexandra; Gillet, Benjamin; Hubley, Robert; Hughes, Sandrine; Jacquin-Joly, Emmanuelle; Maire, Justin; Marcet-Houben, Marina; Masson, Florent; Meslin, Camille; Montagné, Nicolas; Moya, Andrés; Ribeiro de Vasconcelos, Ana Tereza; Richard, Gautier; Rosen, Jeb; Sagot, Marie-France; Smit, Arian F A; Storer, Jessica M; Vincent-Monegat, Carole; Vallier, Agnès; Vigneron, Aurélien; Zaidman-Rémy, Anna; Zamoum, Waël; Vieira, Cristina; Rebollo, Rita; Latorre, Amparo; Heddi, Abdelaziz.
Afiliación
  • Parisot N; Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France.
  • Vargas-Chávez C; Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France.
  • Goubert C; Institute for Integrative Systems Biology (I2SySBio), Universitat de València and Spanish Research Council (CSIC), València, Spain.
  • Baa-Puyoulet P; Present Address: Institute of Evolutionary Biology (IBE), CSIC-Universitat Pompeu Fabra, Barcelona, Spain.
  • Balmand S; Laboratoire de Biométrie et Biologie Evolutive, UMR5558, Université Lyon 1, Université Lyon, Villeurbanne, France.
  • Beranger L; Department of Molecular Biology and Genetics, Cornell University, 526 Campus Rd, Ithaca, New York, 14853, USA.
  • Blanc C; Present Address: Human Genetics, McGill University, Montreal, QC, Canada.
  • Bonnamour A; Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France.
  • Boulesteix M; Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France.
  • Burlet N; Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France.
  • Calevro F; Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France.
  • Callaerts P; Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France.
  • Chancy T; Laboratoire de Biométrie et Biologie Evolutive, UMR5558, Université Lyon 1, Université Lyon, Villeurbanne, France.
  • Charles H; Laboratoire de Biométrie et Biologie Evolutive, UMR5558, Université Lyon 1, Université Lyon, Villeurbanne, France.
  • Colella S; Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France.
  • Da Silva Barbosa A; Department of Human Genetics, Laboratory of Behavioral and Developmental Genetics, KU Leuven, University of Leuven, B-3000, Leuven, Belgium.
  • Dell'Aglio E; Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France.
  • Di Genova A; Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France.
  • Febvay G; ERABLE European Team, INRIA, Rhône-Alpes, France.
  • Gabaldón T; Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France.
  • Galvão Ferrarini M; Present Address: LSTM, Laboratoire des Symbioses Tropicales et Méditerranéennes, IRD, CIRAD, INRAE, SupAgro, Univ Montpellier, Montpellier, France.
  • Gerber A; INRAE, Sorbonne Université, CNRS, IRD, UPEC, Université de Paris, Institute of Ecology and Environmental Sciences of Paris, Versailles, France.
  • Gillet B; Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France.
  • Hubley R; Laboratoire de Biométrie et Biologie Evolutive, UMR5558, Université Lyon 1, Université Lyon, Villeurbanne, France.
  • Hughes S; ERABLE European Team, INRIA, Rhône-Alpes, France.
  • Jacquin-Joly E; Instituto de Ciencias de la Ingeniería, Universidad de O'Higgins, Rancagua, Chile.
  • Maire J; Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France.
  • Marcet-Houben M; Life Sciences, Barcelona Supercomputing Centre (BSC-CNS), Barcelona, Spain.
  • Masson F; Mechanisms of Disease, Institute for Research in Biomedicine (IRB), Barcelona, Spain.
  • Meslin C; Institut Catalan de Recerca i Estudis Avançats (ICREA), Barcelona, Spain.
  • Montagné N; Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France.
  • Moya A; Laboratório de Bioinformática, Laboratório Nacional de Computação Científica, Petrópolis, Brazil.
  • Ribeiro de Vasconcelos AT; Institut de Génomique Fonctionnelle de Lyon (IGFL), Université de Lyon, Ecole Normale Supérieure de Lyon, CNRS UMR 5242, Lyon, France.
  • Richard G; Institute for Systems Biology, Seattle, WA, USA.
  • Rosen J; Institut de Génomique Fonctionnelle de Lyon (IGFL), Université de Lyon, Ecole Normale Supérieure de Lyon, CNRS UMR 5242, Lyon, France.
  • Sagot MF; INRAE, Sorbonne Université, CNRS, IRD, UPEC, Université de Paris, Institute of Ecology and Environmental Sciences of Paris, Versailles, France.
  • Smit AFA; Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France.
  • Storer JM; Present Address: School of BioSciences, The University of Melbourne, Parkville, VIC, 3010, Australia.
  • Vincent-Monegat C; Life Sciences, Barcelona Supercomputing Centre (BSC-CNS), Barcelona, Spain.
  • Vallier A; Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France.
  • Vigneron A; Present Address: Global Health Institute, School of Life Sciences, Ecole Polytechnique Fédérale de Lausanne (EPFL), 1015, Lausanne, Switzerland.
  • Zaidman-Rémy A; INRAE, Sorbonne Université, CNRS, IRD, UPEC, Université de Paris, Institute of Ecology and Environmental Sciences of Paris, Versailles, France.
  • Zamoum W; INRAE, Sorbonne Université, CNRS, IRD, UPEC, Université de Paris, Institute of Ecology and Environmental Sciences of Paris, Versailles, France.
  • Vieira C; Institute for Integrative Systems Biology (I2SySBio), Universitat de València and Spanish Research Council (CSIC), València, Spain.
  • Rebollo R; Foundation for the Promotion of Sanitary and Biomedical Research of Valencian Community (FISABIO), València, Spain.
  • Latorre A; Laboratório de Bioinformática, Laboratório Nacional de Computação Científica, Petrópolis, Brazil.
  • Heddi A; IGEPP, INRAE, Institut Agro, Université de Rennes, Domaine de la Motte, 35653, Le Rheu, France.
BMC Biol ; 19(1): 241, 2021 11 09.
Article en En | MEDLINE | ID: mdl-34749730
BACKGROUND: The rice weevil Sitophilus oryzae is one of the most important agricultural pests, causing extensive damage to cereal in fields and to stored grains. S. oryzae has an intracellular symbiotic relationship (endosymbiosis) with the Gram-negative bacterium Sodalis pierantonius and is a valuable model to decipher host-symbiont molecular interactions. RESULTS: We sequenced the Sitophilus oryzae genome using a combination of short and long reads to produce the best assembly for a Curculionidae species to date. We show that S. oryzae has undergone successive bursts of transposable element (TE) amplification, representing 72% of the genome. In addition, we show that many TE families are transcriptionally active, and changes in their expression are associated with insect endosymbiotic state. S. oryzae has undergone a high gene expansion rate, when compared to other beetles. Reconstruction of host-symbiont metabolic networks revealed that, despite its recent association with cereal weevils (30 kyear), S. pierantonius relies on the host for several amino acids and nucleotides to survive and to produce vitamins and essential amino acids required for insect development and cuticle biosynthesis. CONCLUSIONS: Here we present the genome of an agricultural pest beetle, which may act as a foundation for pest control. In addition, S. oryzae may be a useful model for endosymbiosis, and studying TE evolution and regulation, along with the impact of TEs on eukaryotic genomes.
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Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Asunto principal: Escarabajos / Gorgojos Límite: Animals / Humans Idioma: En Revista: BMC Biol Asunto de la revista: BIOLOGIA Año: 2021 Tipo del documento: Article País de afiliación: Francia

Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Asunto principal: Escarabajos / Gorgojos Límite: Animals / Humans Idioma: En Revista: BMC Biol Asunto de la revista: BIOLOGIA Año: 2021 Tipo del documento: Article País de afiliación: Francia