Characterization of SSRs and development of EST-SSR markers in transcriptome of Xanthoceras sorbifolia Bunge
[Objective] High-throughput sequencing technology was used to analyze the distribution types and characteristics of SSRs in transcriptome of Xanthoceras sorbifolia and EST-SSR markers were developed to provide basis for genetic diversity and evolutionary origin analysis of X.sorbifolia.[Method] The number,distribution characteristics,frequency of occurrence and mean distribution distance of SSRs screened by MISA from 51 867 unigenes of X.sorbifolia were counted and analyzed.Sixty EST-SSR primers were designed by on line software Prime 3 and 16 germplasms of X.sorbifolia from seven provinces of China combined with 6％ modified polyacrylamide gel electrophoresis were used for polymorphism screening of these markers.The number of alleles,observed heterozygosity and expected heterozygosity of these markers were analyzed using Popgene 32.[Result] A total of 6 707 SSRs were identified from the X.sorbifolia unigenes.The average frequency of occurrence,distribution distance and average SSR length of these SSRs were 12.93％,5.38 kb and 17.30 bp.The frequencies of occurrence of dinucleotide and trinucleotide repeats were 6.24％ and 4.93％,respectively.Among the 60 markers,47 amplified the targeted fragments and 14 markers appeared to be polymorphic with a total of 52 alleles,the observed and expected heterozygosity ranged from 0 to 0.813 and 0.353 to 0.762,respectively.The PIC values varied from 0.283 to 0.701.[Conclusion] The SSR repeat units in transcriptome of X.sorbifolia were mainly dinucleotide and trinucleotide repeats and the 14 EST-SSR markers developed in this work are useful for genetic diversity a-nalysis in X.sorbi folia.
NETL
NSTL
万方数据
维普
