摘要
旨在对中间锦鸡儿转录组数据库EST信息进行SSR系统性识别和初步验证,为进一步SSR分子标记开发提供依据。对Hi Seq2000测序技术获得的中间锦鸡儿转录组Unigenes进行SSR位点搜索,共获得45 706个SSR位点,出现频率为10.38%,平均4.30kb出现一个SSR位点。SSR重复类型以单核苷酸重复序列基元为主,所占比例为56.47%;二核苷酸、三核苷酸重复序列基元的数量所占比例分别是20.56%和21.04%;其他数量的基元所占比例仅为1.9%。多核苷酸重复类型中最多的为2核苷酸重复AG/CT;其次为3核苷酸重复AAG/CTT。针对EST-SSR位点随机挑选了150对引物,通过琼脂糖凝胶电泳进行PCR验证,其中有79对能获得扩增条带,21对引物扩增出单一条带,比例为14.0%。
The aim of the study is to systematically identify and preliminary validate the SSR（simple sequence repeats）of EST（expr-essed sequence tags）in transcriptome database of Caragana intermedia for providing the basis in the further development of SSR molecular marker. Searching the SSR loci from Unigenes of the C. intermedia transcriptome by Hi Seq2000 sequencing technology, total 45 706 SSR were obtained, accounting for 10.38% of the total Unigenes, averagely one SSR per 4.30 kb. Mononucleotide repeats were dominant in SSR with the ratio of 56.47%, bi- and tri-nucleotide repeats were 20.56% and 21.04%, and others were only 1.9%. Among all polynucleotide motifs, bi-nucleotide AG/CT were the most, second most was tri-nucleotide AAG/CTT. Totally 150 SSR primer pairs were randomly selected according to EST-SSR loci, PCR was verified by agarose gel electrophoresis, and 79 primer pairs showed clear amplified DNA fragments. While 21 out of the 79 primer pairs amplified single band, with a ratio of 14.0%.
出处
《生物技术通报》
CAS
CSCD
北大核心
2016年第2期178-184,共7页
Biotechnology Bulletin
基金
国家自然科学基金项目(31360169)
国家高技术研究发展计划"十二五"重点项目(2011AA100203)
内蒙古科技计划2015团队项目
