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鹰嘴豆EST资源中SSR的信息分析
  • 期刊名称:湖南农业大学学报(自然科学版)
  • 时间:0
  • 页码:82-86
  • 语言:中文
  • 分类:S529.024[农业科学—作物学]
  • 作者机构:[1]南京农业大学作物遗传与种质创新国家重点实验室,江苏南京210095, [2]新疆农业大学农业生物技术重点实验室,新疆乌鲁木齐830052
  • 相关基金:基金项目:国家科技支撑计划项目(2006BAD09A04,2006BAD09A08,2007BAC15806);国家自然科学基金项目(30860152);国家博士后科学基金项目(20080431107);高等学校学科创新引智计划项目(教育部);科技支疆项目(200991254)
  • 相关项目:鹰嘴豆中与干旱相关的NAC家族基因的克隆与功能分析
中文摘要:

从NCBI公共数据库下载获得27904条鹰嘴豆表达序列标签EST,去除其中低质量的和冗余序列后得到全长为6198092bp的11224条无冗余EST.利用SSRIT(Simplesequencerepeatidentificationt001)软件共在这些序列中发掘出982个SSR,它们分布于865条EST中,出现频率为8.69%,平均长度为15.58bp,平均距离为6.31kb.在鹰嘴豆EST—SSR中,二核苷酸重复是最主要的重复类型(66.90%),其次是三核苷酸重复类型(30.75%),出现最多的重复基元类型是TA/AT(24.95%).

英文摘要:

27 904 ESTs of chickpea (Cicer arietinum L.) were downloaded from the database of NCBI and some redundant or low quality sequences were removed. Finally, 11 224 non-redundant ESTs with total length of 6 198 092 bp were obtained. SSRIT (Simple sequence repeat identification tool), a web tool for SSR hunting, was used to analyze the sequences. The results showed that a total of 982 SSRs distributed in 865 ESTs were detected, with the frequency for the non-redundant ESTs being 8.69%. The average length and distribution distance of the EST-SSRs were about 15.58 bp and 6.31 kb. Among the different SSRs ranging from 2 to 7 bp, dinucleotide repeats were most abundant (66.90%), followed by trinucleotide repeats (30.75%). Among 83 identified motif types, TA/AT had the highest EST frequency (24.95%). The results would contribute to the development of EST-SSR markers in chickpea.

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