Breeding Science
Online ISSN : 1347-3735
Print ISSN : 1344-7610
ISSN-L : 1344-7610

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DNA markers based on retrotransposon insertion polymorphisms can detect short DNA fragments for strawberry cultivar identification
Chiharu HirataTakamitsu WakiKatsumi ShimomuraTakuya WadaSeiya TanakaHidetoshi IkegamiYousuke UchimuraKeita HirashimaYoshiko NakazawaKaori OkadaKiyoshi NamaiMakoto TaharaYuki Monden
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JOURNAL OPEN ACCESS Advance online publication
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Article ID: 19116

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Abstract

In this study, DNA markers were developed for discrimination of strawberry (Fragaria × ananassa L.) cultivars based on retrotransposon insertion polymorphisms. We performed a comprehensive genomic search to identify retrotransposon insertion sites and subsequently selected one retrotransposon family, designated CL3, which provided reliable discrimination among strawberry cultivars. Through analyses of 75 strawberry cultivars, we developed eight cultivar-specific markers based on CL3 retrotransposon insertion sites. Used in combination with 10 additional polymorphic markers, we differentiated 35 strawberry cultivars commonly cultivated in Japan. In addition, we demonstrated that the retrotransposon-based markers were effective for PCR detection of DNA extracted from processed food materials, whereas a SSR marker was ineffective. These results indicated that the retrotransposon-based markers are useful for cultivar discrimination for processed food products, such as jams, in which DNA may be fragmented or degraded.

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© 2020 by JAPANESE SOCIETY OF BREEDING
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