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EU-OSTID: A Collection of Transposon Insertional Mutants for Functional Genomics in Rice

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Abstract

A collection of 1373 unique flanking sequence tags (FSTs), generated from Ac/Ds and Ac transposon lines for reverse genetics studies, were produced in japonica and indica rice, respectively. The Ds and Ac FSTs together with the original T-DNAs were assigned a position in the rice genome sequence represented as assembled pseudomolecules, and found to be distributed evenly over the entire rice genome with a distinct bias for predicted gene-rich regions. The bias of the Ds and Ac transposon inserts for genes was exemplified by the presence of 59% of the inserts in genes annotated on the rice chromosomes and 41% present in genes transcribed as disclosed by their homology to cDNA clones. In a screen for inserts in a set of 75 well annotated transcription factors, including homeobox-containing genes, we found six Ac/Ds inserts. This high frequency of Ds and Ac inserts in genes suggests that saturated knockout mutagenesis in rice using this strategy will be efficient and possible with a lower number of inserts than expected. These FSTs and the corresponding plant lines are publicly available through OrygenesDB database and from the EU consortium members.

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Author notes

  1. L. (Ellen) J. G van Enckevort, Gaëtan Droc & Pietro Piffanelli

    Present address: Plant Research International, Wageningen UR, Post Box 16, 6700 AA, Wageningen, The Netherlands

Authors and Affiliations

  1. Plant Research International, Wageningen UR, Post Box 16, 6700 AA, Wageningen, The Netherlands

    Raffaella Greco & Andy Pereira

  2. CIRAD-AMIS, UMR PIA 1096, 2477 Avenue d’ Agropolis, 34398, Montpellier Cedex 5, France

    Gaëtan Droc, Pietro Piffanelli, Cyril Gagneur, Christele Weber & Emmanuel Guiderdoni

  3. Plant Molecular Genetics Laboratory, CSIC-IRTA, Jordi Girona, 18-26, 08034, Barcelona, Spain

    Víctor M. González & Pere Cabot

  4. Dipartimento di Biologia , Università degli Studi di Milano, via Celoria 26, 20133, Milano, Italy

    Fabio Fornara

  5. Dipartimento di Scienze Biomolecolari e Biotecnologie, Università degli Studi di Milano, via Celoria 26, 20133, Milano, Italy

    Stefano Berri & Enrico Pe’

  6. Fraunhofer Institute of Molecular Biology and Applied Ecology (FhIME), Auf dem Aberg 1, 57392, Schmallenberg, Germany

    Berta Miro, Ping Lan, Marta Rafel, Teresa Capell, Lucia Colombo & Paul Christou

  7. Institute of Biology, Leiden University, Clusius Laboratory, PO Box 9505, 2300, RA Leiden, The Netherlands

    Raffaella Greco, Pere Puigdomènech, Pieter B. F. Ouwerkerk & Annemarie H. Meijer

Authors
  1. L. (Ellen) J. G van Enckevort
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  2. Gaëtan Droc
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  15. Pere Puigdomènech
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  18. Enrico Pe’
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  19. Lucia Colombo
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  20. Paul Christou
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Correspondence to Andy Pereira.

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van Enckevort, L.(.J.G., Droc, G., Piffanelli, P. et al. EU-OSTID: A Collection of Transposon Insertional Mutants for Functional Genomics in Rice. Plant Mol Biol 59, 99–110 (2005). https://doi.org/10.1007/s11103-005-8532-6

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