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Development of EST ‐ SSR markers for diversity and breeding studies in opium poppy
Author(s) -
Şelale Hatice,
Çelik Ibrahim,
Gültekin Visam,
Allmer Jens,
Doğanlar Sami,
Frary Anne
Publication year - 2013
Publication title -
plant breeding
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.583
H-Index - 71
eISSN - 1439-0523
pISSN - 0179-9541
DOI - 10.1111/pbr.12059
Subject(s) - opium poppy , biology , poppy , microsatellite , genetic diversity , genetics , expressed sequence tag , papaver , botany , allele , gene , population , genome , demography , sociology
All publicly available opium poppy expressed sequence tag ( EST ) sequences, totalling 20 885, were assembled into unigenes and examined for simple sequence repeats ( SSR s). Nearly 19% of the 14 957 unigenes contained SSR s with 4% harbouring more than one SSR . Average density of the SSR s was 1 SSR per 3.6 kb of non‐redundant EST sequence. Trinucleotide SSR s were most frequently identified (39%), and many of the most prevalent motifs were AT ‐rich. Flanking primers were designed for 86% of the SSR s and 67 primer pairs were tested on 37 opium poppy accessions and seven related species. All markers were transferable to the related species. Polymorphism information content ( PIC ) values for the markers were intermediate for comparisons within opium poppy (average of 0.27) and slightly higher for comparisons across species (average of 0.29). The markers were found to be useful for diversity analysis as they successfully distinguished among Turkish opium poppy accessions and land races.