Analysis of microsatellite markers from sheep UniGene
2007
Yan Qiuliang | Zhang Yinghan | Li Hongbing
Китайский. 为了利用生物信息学方法筛选绵羊微卫星标记，利用SSRIT和 SSRFinder软件对绵羊UniGene 数据库的4 081个簇进行搜索，筛选绵羊EST-SSRs标记。结果表明，从绵羊UniGene数据库中搜索到微卫星136个，含有微卫星的序列121个，占整个EST序列数据库的3.0%，其中双碱基重复47个，三碱基重复54个，四碱基重复3个，五碱基重复4个，六碱基重复28个。在这些微卫星序列中，AC/TG重复在双碱基类型中最丰富，CTG重复在三碱基类型中最常见，分别占双碱基和三碱基微卫星序列总数的64%和29%。根据筛选到的微卫星序列设计并合成引物30对，在设计的30对引物中，20对引物有扩增产物，且条带清晰，其中有2 对引物在小尾寒羊品种内呈现多态。
Показать больше [+] Меньше [-]Английский. In this study, SSRs markers were developed by bioinpormcotics methods and a total number of 4 081 sheep unigene sequences were downloaded. These UniGene sequences were screened for the presence of perfect microsatellites by using SSRIT and SSRFinder soft tools. A total number of 136 SSRs were identified from 121 EST sequences. The frequency of EST containing SSR is 3.0%. The trinucleotide repeat motif is the most abundant SSR, accounting for 39.71%, followed by 34.56% for dinucleotide repeats. Among the dinucleotide repeats, AC/TG was the most abundant repeat motif, accounting for 64% of all dinucleotide repeats. While CTG was the most abundant type in the trinucleotide repeat types, accounting for 29%. 30 primer pairs were designed from microsatellite and 20 pairs could show clear PCR products by electrophoresis for further polymorphism analysis. The result in this paper provided a basis for the development and further application of EST-SSR markers in sheep.
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