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Nucleic Acids Research Advance Access published online on October 18, 2007
Nucleic Acids Research, doi:10.1093/nar/gkm762
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© 2007 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Database Issue

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

Pierre Larmande1, Céline Gay1, Mathias Lorieux2, Christophe Périn1, Matthieu Bouniol2, Gaëtan Droc1, Christophe Sallaud1, Pascual Perez3, Isabelle Barnola3, Corinne Biderre-Petit3, Jérôme Martin3, Jean Benoît Morel5, Alexander A. T. Johnson1, Fabienne Bourgis4, Alain Ghesquière4, Manuel Ruiz1, Brigitte Courtois1 and Emmanuel Guiderdoni1,*

1CIRAD-INRA-SUPAGRO-UMII, UMR 1098 DAP, Biological Systems Department, 2477 Avenue Agropolis, F-34398 Montpellier Cedex 5, France, 2CIAT, Biotechnology Unit - AA 6713 - CALI, Colombia, 3Biogemma, 8, rue des frères Lumière, F-63100 Clermont Ferrand, France, 4IRD, UMR GDP 5096, 911, Avenue Agropolis, BP 64501, F-34394 Montpellier Cedex 5, France and 5INRA-SUPAGRO, UMR BGPI, Campus Baillarguet, F-34398 Montpellier Cedex 05, France

*To whom correspondence should be addressed. Tel: +33 4 67 61 56 29; Fax: 33 4 67 61 56 05; Email: guiderdoni{at}cirad.fr

Received August 2, 2007. Revised September 5, 2007. Accepted September 11, 2007.

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.

Present address: Christophe Sallaud, Librophyt, Centre de Cadarache, Bâtiment 185, DEVM, F- 13115 St Paul-Lez-Durance, France.

Alexander A.T. Johnson, ACPFG, Plant Genomics Centre, Waite Campus, PMB 1, Glen Osmond South Australia 5064, Australia.


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