摘要
从NCBI数据库中下载到50776条茶树表达序列标签(expressed sequence tags,EST)序列,利用Tandem Repeats Finder程序,对≧24 bp的微卫星(简单重复序列)进行系统分析。结果表明,在所分析的茶树EST序列中,搜索到长度大于或等于24 bp,基序匹配值大于80%的微卫星序列5299个,在这些微卫星中,单核甘酸的最多,数量达3283个,占SSR总数的61.96%,其次为2核甘酸微卫星序列,共1113个,占微卫星总数的21%。4核苷酸微卫星数量最少,仅39个,占总数的0.74%,搜索到6核苷酸471个,其基序组成可分为83类,优势基序为AAAACT(130个)。以上结果说明茶树EST序列中含有丰富的微卫星,这非常有利于开发表达序列中的微卫星标记,为含有微卫星的基因的标识、表达提供了很好的基础。
A total of 50776 expressed sequence tags （ESTs） of Camellia sinensis from NCBI database were searched for mono- to hexa-nucle- otide simple sequence repeats （ SSR or micresatelllte ） by using software of ＇Tandem Repeats Finder＇. The size, type and frequency of these SSRs were systematically analyzed. The results showed that a total of 5299 SSRs were found out in these ESTs with the criteria of SSR length≥24 bp and 80 % matches. Considering all six classes of SSR, the most abundant microsatellites were mono-nucleotide repeat, and the number of mono-nucleotide repeat SSR was 3283 ,accounting for 61.96 % of total SSRs. It was followed by dinucleotide repeat whose number was 1113 ,accounting for 21% d all SSRs. The least micresatellites were tetra-nuclcofide, and their number was 39 ,only accounting for 0.74 % of all SSRa. Specifically, 471 hexa-nucleotide repeats SSRs were observed,and their motifs were also very abundant,with 83 types,and AAAACT was the major motif,heing 130. These results would he useful for further molecular biological studies and development of expressed sequence microsateilite markers of Camellia sinensis, and this study could provide a good basis for identification and expression of genes harboring microsatellite in C. sinensis.
出处
《西南农业学报》
CSCD
北大核心
2015年第3期1014-1019,共6页
Southwest China Journal of Agricultural Sciences
基金
国家"973"项目(2012CB722900)
关键词
茶树
表达序列标签
微卫星
Tea（ Camellia sinensis ）
Expressed sequence tags （EST）
Simple sequence repeat （SSR）
