tailieunhanh - báo cáo khoa học: "Characterization and development of EST-derived SSR markers in cultivated sweetpotato (Ipomoea batatas)"

Tuyển tập báo cáo các nghiên cứu khoa học quốc tế ngành y học dành cho các bạn tham khảo đề tài: Characterization and development of EST-derived SSR markers in cultivated sweetpotato (Ipomoea batatas) | Wang et al. BMC Plant Biology 2011 11 139 http 1471 -2229 11 139 BMC Plant Biology RESEARCH ARTICLE Open Access Characterization and development of EST-derived SSR markers in cultivated sweetpotato Ipomoea batatas 1 2 1 1 1 1 1 1 Zhangying Wang Jun Li Zhongxia Luo Lifei Huang Xinliang Chen Boping Fang Yujun Li Jingyi Chen and Xiongjian Zhang1 Abstract Background Currently there exists a limited availability of genetic marker resources in sweetpotato Ipomoea batatas which is hindering genetic research in this species. It is necessary to develop more molecular markers for potential use in sweetpotato genetic research. With the newly developed next generation sequencing technology large amount of transcribed sequences of sweetpotato have been generated and are available for identifying SSR markers by data mining. Results In this study we investigated 181 615 ESTs for the identification and development of SSR markers. In total 8 294 SSRs were identified from 7 163 SSR-containing unique ESTs. On an average one SSR was found per kb of EST sequence with tri-nucleotide motifs being the most abundant followed by di- tetra- penta- and hexa-nucleotide repeat types. The top five motifs included AG CT AAG CTT AT TA CCG CGG and AAT ATT . After removing possible duplicate of published EST-SSRs of sweetpotato a total of non-repeat 7 958 SSR motifs were identified. Based on these SSR-containing sequences 1 060 pairs of high-quality SSR primers were designed and used for validation of the amplification and assessment of the polymorphism between two parents of one mapping population E Shu 3 Hao and Guang 2k-30 and eight accessions of cultivated sweetpotatoes. The results showed that 816 primer pairs could yield reproducible and strong amplification products of which 195 and 342 primer pairs exhibited polymorphism between E Shu 3 Hao and Guang 2k-30 and among the 8 cultivated sweetpotatoes respectively. .