Information analysis of EST resource of chickpea

WANG Xian-sheng1, JIA Yu-ying1, GU Han-yan1, HE Xiao-ling1, ZHANG Hua2, ZHANG Ju-song2, SHI Shu-bing2, LI Jian-gui2*, MA Hao1* (1.State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China; 2.Key Laboratory of Agriculture Biotechnology, Xinjiang Agricultural University, Urumqi 830052, China)  

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.

【Key Words】： chickpea EST-SSR frequency characteristics
【Fund】： 国家科技支撑计划项目(2006BAD09A04 2006BAD09A08 2007BAC15B06);; 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)
【CateGory Index】： S529.024

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