长蕊甜菜树转录组SSR的分布及其序列特征分析
The Distribution and Characteristics Analysis of SSR in Transcriptome of Yunnanopilia longistaminata
夏晞 1彭劲谕 1王大玮 1段安安1
作者信息
- 1. 西南林业大学,云南省高校林木遗传改良与繁育重点实验室,云南森林资源培育与利用协同创新中心,昆明,650224
- 折叠
摘要
本研究对长蕊甜菜树转录组文库中SSR位点的发生频率、平均分布距离、重复基元类型等进行统计分析.在147 990条去冗余的unigene中,有129 734个微卫星位点分布于50 991条序列中,总发生频率为34.46％,平均每1.57 kb就会出现1个SSR位点.在微卫星位点中共有113种重复基元,主要的重复类型是二核苷酸(37.55％)和单核苷酸(26.86％),其中AG/CT和A/T分别是二核苷酸和单核苷酸的优势重复基元,占总SSR位点的43.34％.SSR的重复次数以5～10次为主,占总SSR位点的70.93％,当重复次数为6时,二至六核苷酸数量最多,占总SSR的18.25％.SSR重复序列的长度为10～92 bp,平均长度为19.22 bp,基序长度10～20 bp的占总数的70.53％,在各重复单元中,当序列长度增加时,SSR的出现频率也随之下降.该研究结果为长蕊甜菜树后续的SSR标记开发、种质资源鉴定和遗传多样性分析等奠定了理论基础.
Abstract
In this study,the frequency of occurrence,average distribution distance,and type of repeat motifs of SSR loci in the transcriptome of Yunnanopilia longistaminata were statistically analyzed.Among 147 990 non-re-dundant unigene,129 734 microsatellite loci were distributed in 50 991 sequences,with a total frequency of 34.46％and an average of 1 SSR locus per 1.57 kb.There were 113 repeat motifs in microsatellite loci,and the main repeat types were dinucleotide(37.55％)and mononucleotide(26.86％),among which AG/CT and A/T were the dominant repeat motifs for dinucleotide and mononucleotide,respectively,accounting for 43.34％of the total SSR loci.The number of SSR repeats was mainly 5～10,accounting for 70.93％of the total SSR loci.When the number of repeats was 6,the number of dinucleotide to hexanucleotide was the highest,accounting for 18.25％of the total SSR.The length of SSR repeats ranged from 10 to 92 bp,with an average length of 19.22 bp,and the mo-tiflength of 10～20 bp accounted for 70.53％of the total.In each repeat unit,the frequency of SSR decreased when the sequence length increased.The results of this study provide a basis for subsequent SSR marker development,germplasm resource identification and genetic diversity analysis of Yunnanopilia longistaminata.
关键词
长蕊甜菜树/转录组/SSR/序列特征Key words
Yunnanopilia longistaminata/The transcriptome/SSR/Sequence characteristics引用本文复制引用
基金项目
国家林业和草原局林业科技发展项目(KJZXSA2019036)
出版年
2024
NETL
NSTL
万方数据