期刊文献+

基于转录组测序的温带臭虫SSR和SNP位点分析 预览

Transcriptome analysis of SSR and SNP Loci in Cimexlectularius
在线阅读 免费下载
分享 导出
摘要 [目的]温带臭虫( Cimex lectularius )是世界性分布的吸血性寄生虫,主要靠吸食人血为生。探究温带臭虫转录组SSR和SNP分布规律,可为后期温带臭虫的SSR和SNP分子标记开发、遗传多样性分析以及遗传图谱构建等研究奠定基础。[方法]以转录组数据为基础,利用软件msatcommander v0.8.2和SOAPsnp v1.03系统分析了SSR 和SNP 位点多态性和分布特征。[结果]温带臭虫转录组数据的25 468条unigene中含有4 758个SSR位点,分布在4 171 unigene序列中。其中单核苷酸重复的次数最多,共有2 795个,占总数的58.74%,其次是三核苷酸重复和二核苷酸重复分别是984个(20.68%)和764个(16.06%),四核苷酸重复有195个(4.10%),而五、六核苷酸重复最少,仅出现20次(0.42%)。在温带臭虫的SSR位点中,共出现30个重复基元,其中优势的重复基元类型是A/T,共有 2 757 个,其次是AT/AT,有474个,ATT/AAT有342个。在25 468个unigene中共发现76 562个simple SNPs,其中转换类型46 634个,占60.91%,颠换类型29 928个,占39.09%。碱基转换类型比例高于颠换类型。6种单碱基变异类型中,C-T发生频率最高,比例为30.69%,其次为A-G,比例为30.22%。[结论]温带臭虫转录组中SSR和SNP位点数量多,出现频率高,且类型丰富。 [Objectives] Cimexlectularius (Bedbug) is a worldwide distributionblood-feeding ectoparasites that preferentiallyfeed on humans. Better understanding the distribution pattern of simple sequence repeat (SSR) and single nucleotide polymorphism (SNP) of C. lectularius would be greatly benefit for the molecular marker development, genetic diversity analysis, and genetic map construction study in the further research.[Methods ] The genetic polymorphism and distribution of SSR and SNP loci were analyzed based on the transcriptomic data of C. lectularius , using the software of msatcommander v0.8.2 and SOAPsnp v1.03, respectively.[Results]A total of 25 468 unigenes were detected, and among of them 4 758 SSR loci were identified which were distributed in 4 171unigenes. The mononucleotide repeats were the mostabundant SSR type with a frequency of 58.74%, followed by trinucleotide repeatat 20.68%,dinuclotide repeat at 16.06%, and tetranucleotide at 4.10%. The least repeat number was observed for Pentonucleotide and hexanucleotidewith a total of 20 times. 30 repeated motif types were observed in C. lectulariustranscriptome SSR. The dominant repeat motif types was detected as A/T (2,757), followed byAT/AT (474), and ATT/AAT (342). A total of 76 562 simple SNPs were identified from 25 468unigenes, in whichthe transition types of SNPs were 46 634 at the proportion of 60.91%, and the transversion type were 29 928 at the proportion of 39.09%.Among six SNP transition types which occurred most frequently, the C/T possessed the highest frequency at 30.69%, and followed by A/G at 30.22%.[Conclusion]Abundant of SSR and SNP loci were observed in the sequence of the bedbug transcriptome. The frequencies of SSR and SNP loci are high withrich types.
作者 李敏 王青 陈晨 付艺杰 石太瑞 Li Min;Wang Qing;Chen Chen;Fu Yijie;Shi Tairui(Department of Biology, Taiyuan Normal University, Jinzhong 030031, China;College of Agriculture, Shanxi Agricultural University, Taigu 030801, China)
出处 《山西农业大学学报:自然科学版》 CAS 北大核心 2019年第4期52-57,共6页 Journal of Shanxi Agricultural University(Natural Science Edition)
基金 国家自然科学基金(31501840) 山西农业大学博士后科学基金(134845) 山西省高等学校科技创新项目(2017169) 国家级大学生创新创业项目(2017361).
关键词 温带臭虫 转录组 微卫星 单核苷酸多态性 Cimex lectularius Transcriptome Simple sequencerepeat Single nucleotide polymorphism
作者简介 李敏(1983-),女(汉),山东莱芜人,副教授,博士,研究方向:昆虫分子生物学;通信作者:王青,副教授;Tel:13603585708;E-mail:wangqing6202@126.com.
  • 相关文献

参考文献11

二级参考文献176

共引文献33

投稿分析

相关作者

内容加载中请稍等...

相关机构

内容加载中请稍等...

相关主题

内容加载中请稍等...

浏览历史

内容加载中请稍等...
;
使用帮助 返回顶部 意见反馈