基于转录组测序的黄麻SSR分子标记开发与初步验证
Development and identification of SSR molecular markers based on transcriptome sequences of jute (Corchorus Capsularis L.)

为开发黄麻SSR引物，为黄麻分子标记辅助育种等研究提供有利工具，在黄麻转录组测序的基础上，采用MicroSAtellite （MISA）软件进行SSRs搜索，并对部分SSR引物的多态性进行验证，结果表明：1）在1 kb以上的13 718条unigene中，共检测到8 571个SSR位点，占评估序列数目的62.47%，平均每3.47 kb有1个SSR；2）所开发的SSR标记中，单核苷酸重复序列最多，占42.15%，二核苷酸和三核苷酸序列也较丰富，分别占14.80%和16.74%；3）利用Primer3.0软件设计了与木质素合成酶基因及MYB转录因子相关的880对引物，随机选取29对引物，以8份不同类型黄麻种质进行多态性验证，获得8对具有稳定多态性的引物，多态性引物比率为27.58%。结果表明，基于黄麻转录组序列的SSR标记开发是可行的，开发的SSR标记可为黄麻属遗传多样性分析、遗传图谱构建及功能基因的挖掘等研究提供有利工具。
In order to develop SSR markers and provide powerful tools for the molecular marker-assisted breeding of jute, the SSR loci from transcriptome sequences were searched by MicroSAtellite (MISA) software, and the polymorphism of some SSRs were identified.The result showed that:1) A total of 8 571 locus, which were longer than 1 kb and accounted for 62.47% of the screened Unigenes, were identified from 13 718 Unigenes, resulting in one SSR per 3.47 kb on average;2) Mononucleotide repeat was the most abundant repeat type, accounting for 42.15% of the total number of SSRs.The dinucleotide and trinucleotide repeat were less abundant, which ratio was 14.80% and 16.74%, respectively;3) A total of 880 primers related to lignin synthase gene and MYB transcription factor were designed by Primer 3.0, among which 29 were screened and 8 pairs of primers produced polymorphic bands.The ratio of polymorphic primers was 27.58%.In conclusion, it is feasible to develop SSR molecular markers based on transcriptome sequencing analysis of jute, which could be applied for analyzing genetic diversity, genetic linkage mapping and functional gene mining of jute.