title: Development of cultivar-specific DNA markers based on retrotransposon-based insertional polymorphism in Japanese pear.
abstract: We developed retrotransposon-based insertional polymorphism (RBIP) markers based on the long terminal repeat (LTR) sequences of copia-like retrotransposon Ppcrt4 and flanking genome sequences, which were derived from 454 sequencing data from Japanese pear (Pyrus pyrifolia) 'Hosui'. Out of 40 sequences including both LTR and flanking genome regions, we developed 22 RBIP markers and used them for DNA profiling of 80 pear cultivars: 64 Japanese, 10 Chinese (Pyrus ussuriensis) and 6 European (Pyrus communis). Three RBIP markers were enough to differentiate 'Hosui' from the other Japanese pear cultivars. The 22 RBIP markers could also distinguish 61 of the 64 Japanese pear cultivars. European pears showed almost no amplification of the 22 RBIP markers, which might suggest that retrotransposons had transposed during Asian pear evolution or reflect the genetic relationship between Asian and European pears. Sixteen of the RBIP markers could be positioned on a genetic linkage map of 'Hosui'. The RBIP loci were distributed in 10 linkage groups, and some loci were very closely located within the same linkage group. The information obtained will be applicable to developing cultivar-specific RBIP marker sets in plants.
authors.affiliation: National Institute of Fruit Tree Science , 2-1 Fujimoto, Tsukuba, Ibaraki 305-8605, Japan.
authors.forename: Hoytaek
authors.initials: H
authors.lastname: Kim
authors.forename: Shingo
authors.initials: S
authors.lastname: Terakami
authors.forename: Chikako
authors.initials: C
authors.lastname: Nishitani
authors.forename: Kanako
authors.initials: K
authors.lastname: Kurita
authors.forename: Hiroyuki
authors.initials: H
authors.lastname: Kanamori
authors.forename: Yuichi
authors.initials: Y
authors.lastname: Katayose
authors.forename: Yutaka
authors.initials: Y
authors.lastname: Sawamura
authors.forename: Toshihiro
authors.initials: T
authors.lastname: Saito
authors.forename: Toshiya
authors.initials: T
authors.lastname: Yamamoto
keywords: DNA marker; LTR; Pyrus; copia; retrotransposon