BIOINFORMATICAL MINING MICROSATELLITES IN GENOME OF SEA ANEMONE
In this paper, 62427 genome-SSRs of sea animal Nematostella vectensis was in silico predicted by searching its genome sequence. After mining, the SSR length, frequency of different repeat types, average repeated times and compound SSR comprising was analyzed in detailed. The results showed that tri- and mono- motif were the most common motif followed by tetr-, di- and pen-nucleotide motif. In the most frequency SSRs, A and T was enriched. The SSR sizes was not evenly distributed, hexa-motif giving the longest SSRs. Following with the length increasing, the number of SSRs was decreased. Motif association statistic results showed 4519 SSRs contained more than one microsatellites which recognized as compound SSRs, of which (AAT-AAT)424 giving the highest frequency. A set of 4287 tri-motif SSRs with exceed 50 bp in length were detected and provided valuable potential for SSR markers developing. Primers were designed specific to the top 5 longest tri-motif SSRs. Taken tighter, the results showed sea anemone genome was enrich for SSR developing and would facilitate evolution and comparative genome research of these two species.
Microsatellites Sea anemone Bioinformatical Mining
Wei Zhenlin Chang Yaqing Liu Xiaolin
College of Animal Science and Technology, Northwest A&F University, Yangling 712100, China Biology S Key lab of Mariculture, Agriculture Ministry China, College of Life Science and Technology,Dalian Fi College of Animal Science and Technology, Northwest A&F University, Yangling 712100, China
国际会议
The 6th International Forum on Post-genome Technologies(6IFPT)(第六届国际后基因组生命科学技术学术论坛)
北京
英文
67-70
2009-09-17（万方平台首次上网日期，不代表论文的发表时间）