草地学报

草地学报 ›› 2022, Vol. 30 ›› Issue (8): 1990-2001.DOI: 10.11733/j.issn.1007-0435.2022.08.008

• 研究论文 • 上一篇    

沙鞭转录组简单重复序列(SSR)位点特征分析

毛轩睿1, 刘玉萍1, 苏旭1,2,3,4, 富贵5, 陈金元1, 郑长远1, 刘涛5, 吕婷5, 张雨1, 胡夏宇1, 杨萍1   

  1. 1. 青海师范大学生命科学学院, 青海 西宁 810008;
    2. 青海师范大学高原科学与可持续发展研究院, 青海 西宁 810016;
    3. 青海师范大学青海省青藏高原药用动植物资源重点实验室, 青海 西宁 810008;
    4. 青海师范大学青藏高原地表过程与 生态保育教育部重点实验室, 青海 西宁 810008;
    5. 青海师范大学地理科学学院, 青海 西宁 810008
  • 收稿日期:2022-02-08 修回日期:2022-04-10 发布日期:2022-09-01
  • 通讯作者: 苏旭,E-mail:xusu8527972@126.com
  • 作者简介:毛轩睿(1997-),男,汉族,湖南长沙人,硕士研究生,主要从事高山植物遗传多样性和系统进化研究,E-mail:maoxuanrui@163.com
  • 基金资助:
    国家自然科学基金项目（32160297，41761009）；青海省自然科学基金面上项目（2022-ZJ-918）资助

Characteristics Analysis of Simple Sequence Repeat (SSR) Loci in Psammochloa villosa (Poaceae) Based on Transcriptome Data

MAO Xuan-rui1, LIU Yu-ping1, SU Xu1,2,3,4, FU Gui5, CHEN Jin-yuan1, ZHENG Chang-yuan1, LIU Tao5, LYU Ting5, ZHANG Yu1, HU Xia-yu1, YANG Ping1   

  1. 1. School of Life Sciences, Qinghai Normal University, Xining, Qinghai 810008, China;
    2. Academy of Plateau Science and Sustainability, Qinghai Normal University, Xining, Qinghai 810016, China;
    3. Key Laboratory of Medicinal Animal and Plant Resources of the Qinghai-Tibet Plateau in Qinghai Province, Qinghai Normal University, Xining, Qinghai 810008, China;
    4. Key Laboratory of Land Surface Process and Ecological Conservation of the Qinghai-Tibet Plateau, the Ministry of Education, Qinghai Normal University, Xining, Qinghai 810008, China;
    5. School of Geographical Sciences, Qinghai Normal University, Xining, Qinghai 810008, China
  • Received:2022-02-08 Revised:2022-04-10 Published:2022-09-01

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摘要： 沙鞭是禾本科、沙鞭属的一种多年生大型根茎类草本植物，主要分布于青海柴达木盆地和内蒙古高原及其毗邻荒漠地区，具有较强的耐旱、耐寒、耐碱、抗风沙和抗病能力。本研究使用MISA(Microsatellite identification tool)软件对沙鞭全长转录组测序获得的184 076条Unigenes的SSR位点进行搜索和特征分析，共获得3 563个SSR重复序列，分布于56 824条Unigenes上，SSR发生和出现频率分别为30.87%和50.83%；重复类型以单核苷酸、二核苷酸和三核苷酸重复为主。单核苷酸重复中，(A/T)n基元类型占总SSR位点的42.26%；二核苷酸重复优势基元类型为(AG/CT)n，占总SSR位点的9.29%。SSR数量随重复次数增加而降低；重复次数类型随基元序列长度增长而减少。此外，本研究还得到沙鞭29 444条和10 864条Unigenes的KOG和GO注释，其主要集中于翻译后修饰、蛋白质周转、催化活性和代谢过程。因此，本研究认为沙鞭转录组SSR序列呈现较高的多态性潜能，具有较大的开发价值，为今后沙鞭分子标记开发、辅助育种、种质资源评价提供了理论依据。

关键词: 禾本科, 沙鞭, 转录组, SSR, 微卫星

Abstract: Psammochloa villosa is a perennial herb with large rhizomes of Psammochloa in Poaceae,which is mainly distributed in the desert area of the Qaidam Basin in Qinghai Province,and the Inner Mongolia Plateau and its adjacent desert areas. It has strong resistantace to drought,cold,alkali,wind and sand,and disease resistance. In this study,we searched and characterized SSR sites of 184 076 unigenes obtained through high-throughput sequencing of full-length transcriptoions of Psammochloa villosa with the microsatellite identification tool software. A total of 93 563 SSR sequences were obtained,which were distributed in 56 824 unigenes. The occurrence and appearance frequency of SSRs were 30.87% and 50.83%,respectively;and the dominant repeat motifs of SSRs within transcriptomes were mono-,di- and tri-nucleotide. During the mono-nucleotide repeat,the motif type of (A/T)n accounted for 42.26% of the total SSR loci,whereas the dominant motif type of di-nucleotide repeats was (AG/CT)n,which was 9.29% of the total SSR loci. Meanwhile,the number of SSRs decreased with increasing of repetition number,while the type of repetition numbers basically decreased with increasing of the length of motif sequences. Additionally,we also obtained the KOG and GO functional annotations of 29 444 and 10 864 Unigenes,whose major functions were focused on post-translational modifications,protein turnover,catalytic activity,and metabolic processes. Thus,we thought that SSR sequences of the transcriptome of Psammochloa villosa showed higher polymorphism potential,which had greater developmental values. The study provided theoretical basis for the development of molecular markers,auxiliary breeding,and evaluation of germplasm resources of Psammochloa villosa.

Key words: Poaceae, Psammochloa villosa, Transcriptome, SSR, Microsatellite

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