膜荚黄芪的转录组测序质量评估及其SSR位点信息分析的研究

Study on quality evaluation of sequence and SSR information in transcriptome of Astragalus membranacus

该实验采用Roche 454 GS FLX测序仪获得黄芪的转录组数据,使用454 Sequencing System Software分析软件进行转录组从头拼接;利用MISA工具筛选了黄芪转录组测序获得的9 893条unigenes,对其SSR位点信息进行了分析。结果表明,进行测序所得的reads的平均长度为413 bp,约86%的reads参与了拼接,拼接的N50长度为1 205 bp,所测得的unigene数量基本涵盖了全部转录组信息;黄芪转录组搜索到1 729个SSR位点,SSR的发生频率为9.24%,SSR在黄芪整个转录组中出现的频率为13.42%,SSR的平均距离为7.97 kb。一共发现核心重复序列127种,占优势的是二核苷酸型中的TG/AC型,出现的频率占总SSR位点的4.25%。黄芪转录组的测序结果揭示了黄芪转录组的整体表达特征,并得到大量黄芪转录组unigene序列,并且黄芪转录组SSR位点出现频率高,类型多样,多态性潜能高。

In this study,454 /Roche GS FLX sequencing technology was used to obtain the data of the Astragalus membranaceus.Four hundred and fifty-four Sequencing System Software was applied to carry out the transcription of the group from scratch. Using MISA tools,9 893 unigenes were selected for the sequence of the genome of A. membranaceus,and the information of SSR locus was analyzed. According to the result,the average length of reads was 413 bp,about 86% of the reads was involved in the splicing,the length of the N50 was 1 205 bp,the number of unigenes was measured by the whole transcript. 1 729 SSR loci in the A. membranaceus transcriptome were searched,the occurrence frequency of SSR was 9. 24%,the frequency of SSR in the whole transcriptome was 13. 42%,the average length of SSR was 7. 97 kb. One hundred and twenty-seven kinds of core repeat sequences were found,the dominant type was TG / AC type of dinucleotide,it appeared to account for 4. 25% of the total SSR locus. The results of the sequence of the transcription of the A. membranaceus transcriptome revealed the overall expression,and a large number of unigenessequence was obtained,and the SSR locus in the genome of the A. membranaceus is high,and the type is diverse,and the polymorphism of the gene is high.