Distribution and evolution of transposable elements in the Magnaporthe oryzae/grisea clade
2013
Amselem , Joelle (INRA , Thiverval-Grignon (France). UR 1290 BIOlogie GEstion des Risques en agriculture - Champignons Pathogènes des Plantes) | Mallet , Ludovic (INRA , Jouy-En-JosasVersailles (France). URUR 10771164 Mathématique, Informatique et GénomeUnité de Recherche Génomique-Info) | Chiapello , Helene (INRA , Jouy-En-JosasNantes (France). URUR 10771268 Mathématique, Informatique et GénomeBiopolymères, Interactions Assemblages) | Guerin , Cyprien (INRA , Jouy-En-Josas (France). UR 1077 Mathématique, Informatique et Génome) | Lebrun , Marc-Henri (INRA , Thiverval-Grignon (France). UR 1290 BIOlogie GEstion des Risques en agriculture - Champignons Pathogènes des Plantes) | Tharreau , Didier (INRA , Montpellier (France). UMR 0385 Biologie et Génétique des interactions Plantes-parasites pour la Protection Intégrée ) | Fournier , Elisabeth (INRA , Montpellier (France). UMR 0385 Biologie et Génétique des interactions Plantes-parasites pour la Protection Intégrée )
Magnaporthe oryzae is a successful pathogen of crop plants and a major threat for food production. This species gathers pathogens of different Poaceaes, and causes the main fungal disease of rice worldwide and severe epidemics on wheat in South America. The evolutionary genomics of Magnaporthe oryzae project aims at characterizing genomic determinants and evolutionary events involved in the adaptation of fungus to different host plants. Such evolution may rely on variations in Transposable Elements (TEs) and gene content as well as modification of coding and regulatory sequences. Indeed, TEs are essential for shaping genomes and are a source of mutations and genome re-organizations. We performed a comparative analysis of TEs in 9 isolates from the M. oryzae/grisea clade differing in their host specificity using a reference TEs consensus library (Mg7015_Refs_TE) made from M. grisea 70-15 reference genome. We used REPET pipelines (http://urgi.versailles.inra.fr/Tools/REPET) to detect ab initio and classify TEs in M. grisea 70-15 according to functional features (LTR, ITR, RT, transposase, etc.). After manual curation on consensus provided by the TEdenovo pipeline, we used the resulting consensus of TE families (Mg7015_Refs_TE) to annotate the 9 genome copies including nested and degenerated ones using TEannot pipeline. We will present results obtained for Mg7015_Refs_TE classification, their annotation, distribution along the genome and preliminary results provided by comparison in M. oryzae/grisea species studied regarding correlation with phylogeny and host specificity.
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