A collection of 11 800 single-copy Ds transposon insertion lines in Arabidopsis

Takashi Kuromori, Takashi Hirayama, Yuki Kiyosue, Hiroko Takabe, Saho Mizukado, Tetsuya Sakurai, Kenji Akiyama, Asako Kamiya, Takuya Ito, Kazuo Shinozaki

Research output: Contribution to journalArticle

167 Citations (Scopus)

Abstract

More than 10 000 transposon-tagged lines were constructed by using the Activator (Ac)/Dissociation (Ds) system in order to collect insertional mutants as a useful resource for functional genomics of Arabidopsis. The flanking sequences of the Ds element in the 11 800 independent lines were determined by high-throughput analysis using a semi-automated method. The sequence data allowed us to map the unique insertion site on the Arabidopsis genome in each line. The Ds element of 7566 lines is inserted in or close to coding regions, potentially affecting the function of 5031 of 25 000 Arabidopsis genes. Half of the lines have Ds insertions on chromosome 1 (Chr. 1), in which donor lines have a donor site. In the other half, the Ds insertions are distributed throughout the other four chromosomes. The intrachromosomal distribution of Ds insertions varies with the donor lines. We found that there are hot spots for Ds transposition near the ends of every chromosome, and we found some statistical preference for Ds insertion targets at the nucleotide level. On the basis of systematic analysis of the Ds insertion sites in the 11 800 lines, we propose the use of Ds-tagged lines with a single insertion in annotated genes for systematic analysis of phenotypes (phenome analysis) in functional genomics. We have opened a searchable database of the insertion-site sequences and mutated genes (http://rarge.gsc.riken.go.jp/) and are depositing these lines in the RIKEN BioResource Center as available resources (http://www.brc.riken.go.jp/ Eng/).

Original languageEnglish
Pages (from-to)897-905
Number of pages9
JournalPlant Journal
Volume37
Issue number6
DOIs
Publication statusPublished - Mar 2004
Externally publishedYes

Fingerprint

Arabidopsis
transposons
Genomics
Chromosomes
Genes
Insertional Mutagenesis
Chromosomes, Human, Pair 1
Nucleotides
Genome
Databases
Phenotype
chromosomes
genomics
genes
transposition (genetics)
nucleotides
phenotype
mutants
genome

Keywords

  • Ac/Ds
  • Arabidopsis
  • Transposon

ASJC Scopus subject areas

  • Plant Science

Cite this

Kuromori, T., Hirayama, T., Kiyosue, Y., Takabe, H., Mizukado, S., Sakurai, T., ... Shinozaki, K. (2004). A collection of 11 800 single-copy Ds transposon insertion lines in Arabidopsis. Plant Journal, 37(6), 897-905. https://doi.org/10.1111/j.1365.313X.2004.02009.x

A collection of 11 800 single-copy Ds transposon insertion lines in Arabidopsis. / Kuromori, Takashi; Hirayama, Takashi; Kiyosue, Yuki; Takabe, Hiroko; Mizukado, Saho; Sakurai, Tetsuya; Akiyama, Kenji; Kamiya, Asako; Ito, Takuya; Shinozaki, Kazuo.

In: Plant Journal, Vol. 37, No. 6, 03.2004, p. 897-905.

Research output: Contribution to journalArticle

Kuromori, T, Hirayama, T, Kiyosue, Y, Takabe, H, Mizukado, S, Sakurai, T, Akiyama, K, Kamiya, A, Ito, T & Shinozaki, K 2004, 'A collection of 11 800 single-copy Ds transposon insertion lines in Arabidopsis', Plant Journal, vol. 37, no. 6, pp. 897-905. https://doi.org/10.1111/j.1365.313X.2004.02009.x
Kuromori, Takashi ; Hirayama, Takashi ; Kiyosue, Yuki ; Takabe, Hiroko ; Mizukado, Saho ; Sakurai, Tetsuya ; Akiyama, Kenji ; Kamiya, Asako ; Ito, Takuya ; Shinozaki, Kazuo. / A collection of 11 800 single-copy Ds transposon insertion lines in Arabidopsis. In: Plant Journal. 2004 ; Vol. 37, No. 6. pp. 897-905.
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