中药材2014，Vol.37Issue(9)：1566-1569,4.DOI:10.13863/j.issn1001-4454.2014.09.015
半夏转录组中的SSR位点信息分析
SSR Information in Transcriptome of Pinellia ternata
摘要
Abstract
Objective:In order to establish new molecular markers and to design SSR primers,the SSR information was analyzed in the transcriptome of Pinellia ternata.Methods:The unigenes in transcriptome were filtered and then redundant sequences were removed by the tool of EST-trimmer and cross-match,respectively.Meanwhile,the non-redundant unigenes were examined by the tool of MISA.Results:14 468 SSRs were found,and these SSRs were distributed in 12 000 unigenes in the examined sequences.Frequency of occurrences for SSRs was 16.24％,and density of distribution was on average 1/4.33 kb in the present study.Di-nucleotide and tri-nucleotide were the major repeated types,accounting for 51.15％ and 41.50％,respectively.AG/CT and CCG/CGG were most frequent motifs in di-nucleotide and tri-nucleotide,accounting for 41.54％ and 11.84％,respectively.87.14％ motifs in the length ranged from 12 bp to 20 bp.Conclusion:The SSR site in the transcriptome of Pinellia ternata have the characteristics of high frequency of occurrences,type richness,high density and high potential of polymorphism,and these characteristics might be applied in the study on genetic diversity,marker-assisted breeding,and genetic map of Pinellia ternata.关键词
半夏/转录组/SSR/位点信息Key words
Pinellia ternata (Thunb.) Breit./ Transcriptome / SSR / Information of loci分类
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王森,张震,姜倪皓,张广辉,沙本才,杨生超,陈军文..半夏转录组中的SSR位点信息分析[J].中药材,2014,37(9):1566-1569,4.基金项目
云南省科技厅中药现代化科技产业云南基地建设项目(2012CG008) （2012CG008）
