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Oryza Tag Line, a phenotypic mutant database for the genoplante rice insertion line library

Larmande Pierre, Gay Céline, Lorieux Mathias, Perin Christophe, Bouniol Matthieu, Droc Gaëtan, Sallaud Christophe, Perez Pascual, Barnola Isabelle, Biderre-Petit Corinne, Martin Jérôme, Morel Jean-Benoit, Johnson Alexander A.T., Bourgis Fabienne, Ghesquière Alain, Ruiz Manuel, Courtois Brigitte, Guiderdoni Emmanuel. 2008. Oryza Tag Line, a phenotypic mutant database for the genoplante rice insertion line library. Nucleic Acids Research, 36 : pp. 1022-1027.

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Abstract : To organize data resulting from the phenotypic characterization of a library of 30 000 T-DNA enhancer trap (ET) insertion lines of rice (Oryza sativa L cv. Nipponbare), we developed the Oryza Tag Line (OTL) database (http://urgi.versailles.inra.fr/OryzaTagLine/). OTL structure facilitates forward genetic search for specific phenotypes, putatively resulting from gene disruption, and/or for GUSA or GFP reporter gene expression patterns, reflecting ET-mediated endogenous gene detection. In the latest version, OTL gathers the detailed morpho-physiological alterations observed during field evaluation and specific screens in a first set of 13 928 lines. Detection of GUS or GFP activity in specific organ/tissues in a subset of the library is also provided. Search in OTL can be achieved through trait ontology category, organ and/or developmental stage, keywords, expression of reporter gene in specific organ/tissue as well as line identification number. OTL now contains the description of 9721 mutant phenotypic traits observed in 2636 lines and 1234 GUS or GFP expression patterns. Each insertion line is documented through a generic passport data including production records, seed stocks and FST information. 8004 and 6101 of the 13 928 lines are characterized by at least one T-DNA and one Tos17 FST, respectively that OTL links to the rice genome browser OryGenesDB. (Résumé d'auteur)

Mots-clés Agrovoc : Oryza sativa, Système d'information, Génie génétique, ADN, ontologie, Phénotype, Expression des gènes, Banque de gènes

Classification Agris : F30 - Plant genetics and breeding
C30 - Documentation and information

Champ stratégique Cirad : Axe 1 (2005-2013) - Intensification écologique

Auteurs et affiliations

  • Larmande Pierre, CNRS (FRA)
  • Gay Céline, INRA (FRA)
  • Lorieux Mathias, CIAT (COL)
  • Perin Christophe, CIRAD-BIOS-UMR DAP (FRA)
  • Bouniol Matthieu, CIAT (COL)
  • Droc Gaëtan, CIRAD-BIOS-UMR DAP (FRA)
  • Sallaud Christophe
  • Perez Pascual, Biogemma (FRA)
  • Barnola Isabelle, Biogemma (FRA)
  • Biderre-Petit Corinne, Biogemma (FRA)
  • Martin Jérôme, Biogemma (FRA)
  • Morel Jean-Benoit, INRA (FRA)
  • Johnson Alexander A.T., ACFPG (AUS)
  • Bourgis Fabienne, CNRS (FRA)
  • Ghesquière Alain, CNRS (FRA)
  • Ruiz Manuel, CIRAD-BIOS-UMR DAP (FRA) ORCID: 0000-0001-8153-276X
  • Courtois Brigitte, CIRAD-BIOS-UMR DAP (FRA) ORCID: 0000-0003-2118-7102
  • Guiderdoni Emmanuel, CIRAD-BIOS-UMR DAP (FRA)

Autres liens de la publication

Source : Cirad - Agritrop (https://agritrop.cirad.fr/542257/)

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