黄勇,龚望宝,陈海刚,孙西红.基于高通量测序的杂交鳢转录组数据分析[J].湖南农业大学学报:自然科学版,2019,45(5):.
基于高通量测序的杂交鳢转录组数据分析
  
DOI:
中文关键词:  杂交鳢  转录组  unigenes  基因注释
英文关键词:hybrid snakehead  transcriptome  unigenes  gene annotation
基金项目:国家科技支撑计划(2012BAD25B04);河南省自然科学基金项目(162300410069);河南省高等学校重点科研项目(16A240002);广东省渔业生态环境重点实验室开放基金(LFE–2016–13)
作者单位
黄勇,龚望宝,陈海刚,孙西红 1.河南科技大学动物科技学院河南 洛阳 4710232.中国水产科学研究院珠江水产研究所广东 广州 5103803.中国水产科学研究院南海水产研究所广东 广州 5103804.广东省渔业生态环境重点实验室广东 广州 510380 
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中文摘要:
      运用高通量技术对杂交鳢进行转录本测序和数据分析,经拼接与组装,最终获得52 065条unigenes,长度范围201~12 407 bp,序列平均长度为710 bp。从长度分布、GC含量和基因表达量等方面对unigenes进行评估,数据显示测序质量较好。进一步的数据分析,共鉴定出20 535个CDS,37 324个SNP 位点和7 830个微卫星。用6大数据库Swiss–Prot、Nr、Pfam、KEGG、KOG和GO注释杂交鳢转录组unigenes,分别对应有20 955、28 938、19 339、14 052、19 358和18 635条unigenes获得注释。根据GO数据库的注释,可将这些unigenes分为生物过程、细胞组分和分子功能3大类共50亚类。KEGG代谢通路分析表明,这些unigenes参与了5大类30亚类共268个代谢通路,其中,参与信号转导通路的unigenes数量最多,有1 716条。
英文摘要:
      To attain genomic infromation of hybrid snakehead, the transcripts of hybrid snakehead were collected using high-throughput sequencing and subject to the transcriptomic analysis. A total 52 065 unigenes were generated by de novo assembly with base length ranging from 201 bp to 12 407 bp in length and the average length 710 bp. Unigenes qualities for several aspects were assessed, such as length distribution, GC content and expression level. The sequencing data was of high quality. Further analysis of data showed that 20 535 coding sequence(CDS) and 37 324 single nucleotide polymorphisms(SNP) and 7 830 microsatellite markers(SSR) were in transcriptome data. With blast the results against 6 available databases(Swiss-Prot, Nr, Pfam, KEGG, KOG and GO), a total of 20 955, 28 938, 19 339, 14 052, 19 358 and 18 635 unigenes were annotation, respectively. Based on the results of comparative analysis with the GO functional database, all unigenes could be annotated into three categories including biological processes, cellular components and molecular function. The three categories could be further subdivided to 50 groups. KEGG metabolic pathways analysis indicated that the unigenes could be divided into 5 categories that can be further grouped into 30 subgroups and 268 pathways, with the signal transduction pathway having the most unigenes, 1 716 unigenes.
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