青檀(Pteroceltis tatarinowii)全长转录组SSR分布及其序列特征
SSR Distribution and Sequence Characteristics of the Full-length Transcrip-tome of Pteroceltis tatarinowii
郭伟 1罗磊 1李国华 1王迎 1季霞 1周光锋 1于永畅 2孙忠奎 3程甜甜 1边晓惠 1杨波 1王新花 1张林1
作者信息
- 1. 泰安市泰山林业科学研究院,泰安,271000
- 2. 泰山学院,泰安,271021
- 3. 泰安时代园林科技开发有限公司,泰安,271000
- 折叠
摘要
采用生物信息学方法对青檀(Pteroceltistatarinowii)全长转录组中的SSR位点信息进行分析,以期为青檀SSR标记开发提供依据.利用MISA工具对全长转录组测序获得的基因序列进行SSR检索、位点信息分析.从11 801条基因序列中检索到6 524个SSR位点,平均距离为2.49kb,发生频率为55.29％.单核苷酸所占比例为44.70％,优势重复单元是A/T,占单核苷酸的99.28％.二核苷酸所占比例为19.33％,优势重复单元是AG/TC,占二核苷酸的37.67％.大部分SSR长度集中在10～25 bp之间,所占比例为77.16％.研究结果表明青檀SSR位点类型丰富、具有较高的多态性,可为青檀SSR分子标记开发和利用、种质资源的遗传多样性分析、分子标记辅助选择育种等方面提供的理论基础.
Abstract
In order to provide a basis for the development of SSR markers in Pterocarpus tatarinowii,SSR loci in-formation was analyzed in the full-length transcriptome of P.tatarinowii by bioinformatics method.MISA software was used to perform SSR loci search and information analysis in gene sequences obtained by the full-length tran-scriptome.A total of 6 524 SSR loci distributed were detected in 11 801 genes.The frequency of SSR loci was 55.29％,with an average distribution of 2.49 kb in length.In the mononucleotide repeat type accounting for 44.70％in all repeat types,the dominating motif was A/T accounting for 99.28％.In the dinucleotide repeat type accounting for 19.33％in all repeat types,the dominating motif was AG/TC accounting for 37.67％.Most of the SSR makers were 10～25 bp in length with the corresponding percentage 77.16％.The results showed that there were abundant types of SSR loci and high polymorphism in P.tatarinowii,which could provide a theoretical basis for the development and utilization of S SR molecular markers,analysis of genetic diversity of germplasm re-sources and molecular marker assisted breeding.
关键词
青檀/全长转录组/EST-SSRKey words
Pteroceltis tatarinowii/Full-length transcriptome/EST-SSR引用本文复制引用
基金项目
泰安市乡土观赏树种国家林木种质资源库项目(林场发[2016]153号)
2019年山东省农业科技园区产业提升工程项目(2019YQ012)
泰安市科技发展计划(引导计划)(2018NS0090)
出版年
2024
NETL
NSTL
万方数据