[1]詹少华,盛新颖,樊洪泓,等.大豆EST序列长度与SSR特性的关系[J].大豆科学,2009,28(02):204-209.[doi:10.11861/j.issn.1000-9841.2009.02.0204]
　ZHAN Shao-hua,SHENG Xin-ying,FAN Hong-hong,et al.Relationship between Length of Soybean ESTs Sequence and Characters of EST-SSR[J].Soybean Science,2009,28(02):204-209.[doi:10.11861/j.issn.1000-9841.2009.02.0204]
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大豆EST序列长度与SSR特性的关系

《大豆科学》[ISSN:1000-9841/CN:23-1227/S] 卷: 第28卷 期数: 2009年02期 页码: 204-209 栏目: 出版日期: 2009-04-25
Title:
Relationship between Length of Soybean ESTs Sequence and Characters of EST-SSR
文章编号:
1000-9841(2009)06-0204-06
作者:
詹少华1 ; 盛新颖2; 樊洪泓2; 蔡永萍2; 林毅2
1皖西学院化学与生命科学系，安徽 六安 237012 ;
2安徽农业大学生命科学学院，安徽 合肥 230036
Author(s):
ZHAN Shao-hua1; SHENG Xin-ying2; FAN Hong-hong2; CAI Yong-ping2; LIN Yi2
1Chemistry and Biology Department，West Anhui University，Lu’an 237012，Anhui;
2Life Science School，Anhui Agricultural University，Hefei 230036，Anhui，China
关键词:
大豆; 表达序列标签; EST-SSR; 序列长度; 重复基元
Keywords:
Soybean; EST; EST-SSR; Sequence length; Repeat Conting
分类号:
S565.1
DOI:
10.11861/j.issn.1000-9841.2009.02.0204
文献标志码:
A
摘要:
为了分析大豆EST-SSR的特征和比较其不同长度EST序列中的SSR特性，从NCBI下载了大豆EST序列，应用SSRIT搜索SSR，分析了20 183个无冗余的EST序列，发现了1747个EST序列（8.66％）含有SSR，长度超过400 bp的EST序列含SSR的比例为10.05％，而长度在400 bp以下的EST序列SSR的比例为4.74％。二核苷酸和三核苷酸SSR是大豆EST-SSR的主要类型，分别的60.45％和37.04％，最常见的SSR基元是：AT、AG、AAT、AC、AAG、ACG。在1 798个EST-SSR中，51.45％的长度大于12 bp，13.35％长度大于20 bp。推断NCBI大豆EST数据库中含有12 3527个SSR，大豆EST-SSR可用于大豆分子标记，具有重要的开发价值，为有针对性设计EST-SSR引物奠定基础。
Abstract:
The objective of this study was to research the traits of simple sequence repeats (SSR) derived from expressed sequence tags(EST) of soybean and to compare the characters of SSRs in different length of ESTs，so 20183 no redundancy EST sequences were analyzed.The EST sequences were downloaded from NCBI，and SSRs were screened using SSRIT program.The results showed 1747 ESTs (8.66％)contained one or more SSRs.According to EST sequence length over or less than 400bp，the SSRs rates were 10.05％ and 4.74％，respectively.Di-nucleotide repeats (60.45%)were the most abundant type of repeats followed by Tri-nucleotide repeats(37.04％).AT，AG，AAT，AC，AAG，ACG were the most common SSR repeat motifs.In the 1798 EST-SSRs，the length of EST-SSR over 12bp accounted for 51.45 percent，and proportion of the length more than 20bp accounted for 13.35 percent.The average distance of distribution was 7.91(1/kb).123527 SSRs were deduced in EST database of NCBI，so we claimed exploration value of the EST-SSRs for the soybean molecular marker.The results would contribute to EST-SSR primer efficient design.

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备注/Memo

基金项目：安徽高校省级自然科学研究重点项目资助（KJ2008A089）。

作者简介：詹少华（1963-），男，副教授，博士，研究方向为大豆和棉花分子育种。E-mail:zhansh@wxc.edu.cn。

更新日期/Last Update: 2014-10-03