中国现代中药2018，Vol.20Issue(1)：29-33,38,6.DOI:10.13313/j.issn.1673-4890.20170619003
夏枯草转录组SSR位点信息分析
Data Mining of Simple Sequence Repeats in Prunella vulgaris L. Transcriptome
王会敏 1苏秀红 1董诚明 2朱畇昊1
作者信息
- 1. 河南中医药大学 药学院, 河南 郑州 450046
- 2. 呼吸疾病诊疗与新药研发河南省协同创新中心, 河南 郑州 450046
- 折叠
摘要
Abstract
Objective: In order to establish new molecular markers and design SSR primers, the SSR information was analyzed in the transcriptome of Prunella vulgaris. Methods: MicroSAtelite (MISA) software was used to search for the SSR site of the P. vulgaris L transcriptome and the primers were designed by Primer3 software. Results: 5450 SSRs were distributed in 4248 Unigenes which accounted for 27.50％, each 5933 bp contains one SSR loci, dinucleotide、trinucleotide and mono nucleotide repeat was the main type of repetition, for 44.59％, 28.44％ 24.75％ of the total number of SSR. We found in the transcriptome of 160 kinds of variation pattern, the highest percentage was AG/CT, about 25％, followed by A/T, about 24.26％. The SSR of P. vulgaris transcript was mainly 5 to 11 replicates, 75.97％ of the motif length concentrated in the 12-20 bp; 4228 SSR locus specific primers were obtained. Conclusion: The SSR site in the transcriptome of P. vulgaris have the characteristics of high frequency of occurrences, type richness, high density and high potential of polymorphism. With the study of SSR information of P. vulgaris transcriptome, it will lay a foundation for the further development of P. vulgaris SSR molecular markers.关键词
夏枯草/转录组/SSR信息分析Key words
Prunella vulgaris L/transcriptome/SSR bioinformatic analysis引用本文复制引用
王会敏,苏秀红,董诚明,朱畇昊..夏枯草转录组SSR位点信息分析[J].中国现代中药,2018,20(1):29-33,38,6.
