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四球茶转录组SSR位点信息分析
黎瑞源,邢辉,申铁
0
(贵州师范大学贵州省信息与计算科学重点实验室,贵阳 550001)
摘要:
对基于高通量测序拼接获得的99 741条四球茶嫩叶Unigenes进行了SSR(simple sequence repeats)位点分析,共揭示了23 732个SSR位点,分布于18 552条Unigenes中,SSR发生频率为23.79%;含有SSR位点的Unigenes的总长度为226 188 bp,SSR位点间的平均距离为1/2.07 kb,重复长度平均长度为9.53 bp。在四球茶转录组SSR中,二核苷酸重复和三核苷酸重复是主要的重复类型,分别占总SSRs的47.53%和25.92%;在181种重复基元类型中,优势重复基元分别是AG/CT、A/T、ACC/GGT,分别占总SSRs的41.38%、22.10%和6.49%,共占总SSRs的比例达69.97%。
关键词:  四球茶  转录组  SSR
DOI:10.13610/j.cnki.1672-352x.20170811.001
投稿时间:2016-10-22
基金项目:国家自然科学基金地区项目(31460233)和贵州师范大学博士基金(11904/0514027)共同资助。
Analysis of SSR information in Camellia tetracocca Zhang transcriptome
LI Ruiyuan,XING Hui,SHEN Tie
(Key Laboratory of Information and Computing Science Guizhou Province, Guizhou Normal University, Guiyang 550001)
Abstract:
In this study, a total of 99 741 unigenes were de novo assembled based on the bud transcriptome sequencing of Camellia tetracocca Zhang. Totally, 23 732 SSRs were detected in 18 552 unigenes, accounting for 23.79% of all the unigenes. The total length of unigenes containing SSR loci was 226 158 bp. The mean distance between SSRs was 1/2.07 kb and the mean length of the repeat motif was 9.53 bp. Di-nucleotide repeats were the most abundant followed by tri-nucleotide repeats, making up about 47.53% and 25.92% of the total SSRs, respectively. Among the 181 repeat motifs, AG/CT, A/T and ACC/GGT were the most frequent motifs in di-, mono- and tri-nucleotide repeats, accounted for 41.38%, 22.10% and 6.49%, respectively, and which totally accounted for 69.97% of the total SSRs. These results will provide abundant sequences for SSR markers development on Camellia tetracocca Chang.
Key words:  Camellia tetracocca Zhang  transcriptome  SSR

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