Development of EST-SSR markers based on transcriptome sequences of Phoebe chekiangensis
Phoebe chekiangensis is an important rare and endangered plant in China.The distribution of SSR loci and the development of molecular markers in P.chekiangensis provide a scientific basis for the resource evaluation,protection and utilization.The Simple Sequence Repeats(SSRs)loci were developed by bioinformatic analyses of P.chekiangensis transcriptome sequences.A total of 116 582 SSR loci were obtained in the transcriptome of P.chekiangensis with the occurrence frequency of 42.38%.The average distribution distance of SSRs was 1.56 kb.The SSR of P.chekiangensis transcriptome was dominated by mononucleotides(63.42%)and dinucleotide repeats(25.58%),and the top three dominant SSR motifs are A/T,AG/CT and AT/AT;SSR repeat motifs are dominated by 10 to 20 repeats,accounting for 64.3%;the length of SSR sequences ranged from 10 to 646 bp,and the SSR loci exceeding 20 bp accounted for 29.05%of the total SSRs,indicating that the SSR loci in the transcriptome of P.chekiangensis have good polymorphism potential.72 of 96 pairs of SSR primers were successfully amplified bands,the amplification achievement ratio was 75%,and 35 pairs of primers showed high polymorphic information content and enriched the existing SSR molecular marker of Phoebe.
NETL
NSTL
万方数据
