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ID 52816
フルテキストURL
著者
Monden, Yuki Graduate School of Environmental and Life Science, Okayama University Kaken ID researchmap
Yamamoto, Ayaka Faculty of Agriculture, Okayama University
Shindo, Akiko Graduate School of Environmental and Life Science, Okayama University
Tahara, Makoto Graduate School of Environmental and Life Science, Okayama University Kaken ID researchmap
抄録
In many crop species, DNA fingerprinting is required for the precise identification of cultivars to protect the rights of breeders. Many families of retrotransposons have multiple copies throughout the eukaryotic genome and their integrated copies are inherited genetically. Thus, their insertion polymorphisms among cultivars are useful for DNA fingerprinting. In this study, we conducted a DNA fingerprinting based on the insertion polymorphisms of active retrotransposon families (Rtsp-1 and LIb) in sweet potato. Using 38 cultivars, we identified 2024 insertion sites in the two families with an Illumina MiSeq sequencing platform. Of these insertion sites, 91.4% appeared to be polymorphic among the cultivars and 376 cultivar-specific insertion sites were identified, which were converted directly into cultivar-specific sequence-characterized amplified region (SCAR) markers. A phylogenetic tree was constructed using these insertion sites, which corresponded well with known pedigree information, thereby indicating their suitability for genetic diversity studies. Thus, the genome-wide comparative analysis of active retrotransposon insertion sites using the bench-top MiSeq sequencing platform is highly effective for DNA fingerprinting without any requirement for whole genome sequence information. This approach may facilitate the development of practical polymerase chain reaction-based cultivar diagnostic system and could also be applied to the determination of genetic relationships.
キーワード
DNA fingerprinting
high-throughput sequencing
molecular marker
retrotransposon
sweet potato
発行日
2014-06-16
出版物タイトル
DNA Research
出版者
Oxford University Press
ISSN
1340-2838
資料タイプ
学術雑誌論文
言語
English
著作権者
© The Author 2014. Published by Oxford University Press on behalf of Kazusa DNA Research Institute.
論文のバージョン
publisher
査読
有り
DOI