EU-OSTID: A collection of transposon insertional mutants for functional genomics in rice

L.J.G. van Enckevort, G. Droc, P. Piffanelli, R. Greco, C. Gagneur, C. Weber, V.M. Gonzalez, P. Cabot, F. Fornara, S. Berri, B. Miro, P. Lan, M. Rafel, T. Capell, P. Puigdomenech, P.B.F. Ouwerkerk, A.H. Meijer, E. Pe', L. Colombo, P. ChristouE. Guiderdoni

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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.
Original languageEnglish
Pages (from-to)99-110
JournalPlant Molecular Biology
Volume59
Issue number1
DOIs
Publication statusPublished - 2005

Keywords

  • reverse genetics
  • homeobox genes
  • mutagenesis
  • expression
  • system
  • family
  • annotation
  • generation
  • resources
  • activator

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    van Enckevort, L. J. G., Droc, G., Piffanelli, P., Greco, R., Gagneur, C., Weber, C., Gonzalez, V. M., Cabot, P., Fornara, F., Berri, S., Miro, B., Lan, P., Rafel, M., Capell, T., Puigdomenech, P., Ouwerkerk, P. B. F., Meijer, A. H., Pe', E., Colombo, L., ... Guiderdoni, E. (2005). EU-OSTID: A collection of transposon insertional mutants for functional genomics in rice. Plant Molecular Biology, 59(1), 99-110. https://doi.org/10.1007/s11103-005-8532-6