茶树EST-SNP分布特征及标记开发

王丽鸳; 张成才; 成浩; 韦康

doi:10.13305/j.cnki.jts.2012.04.014

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茶叶科学 ›› 2012, Vol. 32 ›› Issue (4) : 369-376. DOI: 10.13305/j.cnki.jts.2012.04.014

茶树EST-SNP分布特征及标记开发

王丽鸳, 张成才, 成浩^*, 韦康

作者信息 +

Characterization of EST-derived SNPs and Development of SNP-markers in Tea (Camellia sinensis)

WANG Li-yuan, ZHANG Cheng-cai, CHENG Hao^*, WEI Kang

Author information +

文章历史 +

摘要

对NCBI网上公开的12757条茶树ESTs序列进行聚类,成功构建了茶树的独立基因（Unigene）数据库,发现茶树的EST序列冗余率约为68.2%。初步建立了茶树EST-SNP标记开发体系,明确了茶树EST中SNP的分布规律,茶树编码区的SNP发生频率约为0.58%,平均200bp就有1个SNP位点,并进一步推算出茶树基因组DNA序列的杂合率约为0.38%,平均300个碱基就可能出现1个杂合位点。从237个多基因聚类簇中发现了818个SNP候选位点,设计了25对SNP引物进行DNA重测序验证,发现EST-SNP候选位点的多态检出率为75%。

Abstract

By clustering the 12757 ESTs of tea downloaded from NCBI, a unigene database of tea was successfully built. It was found that the redundancy rate for ESTs from tea was approximately 68.2%. An EST-SNP exploiting system for tea was established preliminarily. The SNP distribution was identified. The occurrence frequency for coding region SNP in tea was appropriately 0.58%. It meant that there was average one SNP in every 200bp of tea ESTs. Furthermore, the hybrid rate for tea genome was deduced to be 0.38%, averagely one hybrid DNA site per 300bp. Totally 818 candidated SNP were exploited from 237 multigene clusters. Then 25 pairs of SNP primers were designed and 75% of these sites were validated to be polymorphism by DNA sequencing.

导出引用

王丽鸳, 张成才, 成浩, 韦康. 茶树EST-SNP分布特征及标记开发[J]. 茶叶科学. 2012, 32(4): 369-376 https://doi.org/10.13305/j.cnki.jts.2012.04.014

WANG Li-yuan, ZHANG Cheng-cai, CHENG Hao, WEI Kang. Characterization of EST-derived SNPs and Development of SNP-markers in Tea (Camellia sinensis)[J]. Journal of Tea Science. 2012, 32(4): 369-376 https://doi.org/10.13305/j.cnki.jts.2012.04.014

中图分类号： S571.1 Q52

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