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甘薯近缘野生种三浅裂野牵牛EST资源的SSR信息分析

DOI: 10.3969/j.issn.1000-7091.2012.z1.006, PP. 27-32

Keywords: 三浅裂野牵牛,生物信息学,EST,SSR

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Abstract:

利用生物信息学方法对NCBI公共数据库的1458条三浅裂野牵牛ESTs序列进行EST-SSRs信息特征分析。结果显示,剔除低质量的和冗余的序列后,得到总长度为334.368kb无冗余序列868条。这些无冗余序列中有35个微卫星简单重复序列(Simplesequencerepeat,SSR),分布于35条EST中,出现频率为4.03%,平均分布距离为9.55kb。在2~6核苷酸的重复类型中,二、三核苷酸SSR之和占总EST-SSR的68.57%,其中三核苷酸SSR占总SSR数量的45.71%。在所有重复单元中,所占比例最高的是AT/AT(14.29%),其次是TCT/AGA为11.43%,TAA/TTA为8.57%列第3位。在所有的SSR中,EST-SSRs重复次数5次的有13个,占全部SSR的37.14%,其次是重复次数为4次和7次,各有5个,占全部SSR的14.29%。结果说明,甘薯近缘野生种三浅裂野牵牛的EST-SSR出现频率较高、类型丰富、具有一定的研究利用价值。

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