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Development and utility of EST-SSR marker in cabbage
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A total of 62 567 ESTs in Brassica oleracea were downloaded from NCBI for the identification and development of SSR marker. In total, I 219 SSRs distributed in 1 176 ESTs were identified from 19 611 non-redundant ESTs, with an average of one SSR per 11.48 kb, and included 273 SSR motifs. Analysis of SSR motifs revealed that the dinucleotides (353 SSR) and tricleotides (423 SSR) were major motifs, accounted for 28.96% and 34.70% respectively. The AG/CT was the most frequent motifs and accounted for 25.59%, followed by AAG/CTT (94 SSR, 7.71%). Based on the 1 176 SSR-containing ESTs, a total of978 primer pairs were successfully designed and assessed validation of the amplification using two cabbage inbreed lines (397 and 20-2-5). The results showed that 897 primer pairs yielded 1 026 amplification bands, of which 128 primer pairs exhibited polymorphism with 258 polymorphic bands accounted for 25.15%. SSR fingerprint was obtained for 4 cabbage F1, Zhonggan 11, 8398, Zhonggan 15 and Zhonggan 21, and their parents, and all the above materials could be discriminated by four specific EST-SSR primer pairs. The results indicated that the developed SSRs from ESTs of Brassica oleracea were validate and practicable.
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 Record created 2010-04-13, last modified 2019-07-02

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