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Development of intron-flanking EST markers for the Lolium/Festuca complex using rice genomic information

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タイトル: Development of intron-flanking EST markers for the Lolium/Festuca complex using rice genomic information
著者: Tamura, Ken-ichi 著作を一覧する
Yonemaru, Jun-ichi 著作を一覧する
Hisano, Hiroshi 著作を一覧する
Kanamori, Hiroyuki 著作を一覧する
King, Julie 著作を一覧する
King, Ian P. 著作を一覧する
Tase, Kazuhiro 著作を一覧する
Sanada, Yasuharu 著作を一覧する
Komatsu, Toshinori 著作を一覧する
Yamada, Toshihiko 著作を一覧する
キーワード: intergeneric (interspecific) hybrid
intron polymorphisms
insertion-deletion (indel)
specificity to species
rice genome
comparative genomics
発行日: 2009年 5月
出版者: Springer
誌名: Theoretical and Applied Genetics
巻: 118
号: 8
開始ページ: 1549
終了ページ: 1560
出版社 DOI: 10.1007/s00122-009-1003-8
抄録: DNA markers able to distinguish species or genera with high specificity are valuable in the identification of introgressed regions in interspecific or intergeneric hybrids. Intergeneric hybridization between the genera of Lolium and Festuca, leading to the reciprocal introgression of chromosomal segments, can produce novel forage grasses with unique combinations of characteristics. To characterize Lolium/Festuca introgressions, novel PCR-based expression sequence tag (EST) markers were developed. These markers were designed around intronic regions which show higher polymorphism than exonic regions. Intronic regions of the grass genes were predicted from the sequenced rice genome. Two hundred and nine primer sets were designed from Lolium/Festuca ESTs that showed high similarity to unique rice genes dispersed uniformly throughout the rice genome. We selected 61 of these primer sets as insertion-deletion (indel)-type markers and 82 primer sets as cleaved amplified polymorphic sequence (CAPS) markers to distinguish between Lolium perenne and Festuca pratensis. Specificity of these markers to each species was evaluated by the genotyping of four cultivars and accessions (32 individuals) of L. perenne and F. pratensis respectively. Evaluation using specificity indices proposed in this study suggested that many indel-type markers had high species specificity to L. perenne and F. pratensis, including 15 markers completely specific to both species. Forty-nine of the CAPS markers completely distinguish between the two species at bulk level. Chromosome mapping of these markers using a Lolium/Festuca substitution line revealed syntenic relationships between Lolium/Festuca and rice largely consistent with previous reports. This intron-based marker system that shows a high level of polymorphisms between species in combination with high species specificity will consequently be a valuable tool in Festulolium breeding.
Rights: The original publication is available at
資料タイプ: article (author version)
出現コレクション:雑誌発表論文等 (Peer-reviewed Journal Articles, etc)

提供者: 山田 敏彦


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