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首页> 外文期刊>Journal of genetics >De novo sequencing of the Antarctic krill (Euphausia superba) transcriptome to identify functional genes and molecular markers
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De novo sequencing of the Antarctic krill (Euphausia superba) transcriptome to identify functional genes and molecular markers

机译：南极KRILL（Euphausia SuperBA）转录组的Novo测序以鉴定功能基因和分子标记

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摘要

To provide massive genetic resources for the Antarctic krill (Euphausia superba), we sequenced and analysed the transcriptome by using high-throughput Illumina paired-end sequencing technology. A total of 77.1 million clean reads representing similar to 11.0 Gb data were generated. The average length of these reads was 142 bp. De novo assembly yielded 125,211 transcripts with a N50 of 690 bp. Further analysis produced 106,250 unigenes, of which 31,683 were annotated based on protein homology searches against protein databases. Gene ontology analysis showed that ion binding, organic substance, metabolic process, and cell part were the most abundantly used terms in molecular function, biological process and cellular component categories, respectively. In addition, 3067 unigenes were mapped onto 311 signal pathways by the Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis. Finally, 15,224 simple sequence repeats were identified from 13,535 transcripts, and 103,593 single-nucleotide polymorphisms were found from 21.6% of total transcripts. These genetic resources obtained in this study forms a good foundation for investigating gene function, and evaluating population genetic diversity for this important Southern Ocean fisheries resource, E. superba.
机译：为了为南极磷虾（Euphausia SuperBa）提供大规模的遗传资源，通过使用高通量Illumina成对端测序技术对转录组进行测序和分析。生成总共7710万个清洁读数，类似于11.0 GB数据。这些读数的平均长度为142bp。 De Novo组件产生125,211个转录物，N50为690bp。进一步的分析产生了106,250个unigenes，其中基于蛋白质同源物针对蛋白质数据库进行注释31,683。基因本体本体分析表明，离子结合，有机物质，代谢过程和细胞部分分别是分子功能，生物过程和细胞组分类别中最丰富的术语。此外，通过基因和基因组（Kegg）途径分析，将3067个unigenes映射到311个信号途径上。最后，从13,535转录物中鉴定了15,224个简单的序列重复，并从总转录物的21.6％中发现了103,593个单核苷酸多态性。本研究中获得的这些遗传资源形成了研究基因功能的良好基础，并评估这一重要南部海洋渔业资源的人口遗传多样性，E. Superba。

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  • 来源
    《Journal of genetics》 |2018年第4期|共5页
  • 作者

    Ma Chunyan; Ma Hongyu; Xu Guodong; Feng Chunlei; Ma Lingbo; Wang Lumin;

  • 作者单位

    Chinese Acad Fishery Sci East China Sea Fisheries Res Inst Shanghai 200090 Peoples R China;

    Chinese Acad Fishery Sci East China Sea Fisheries Res Inst Shanghai 200090 Peoples R China;

    Chinese Acad Fishery Sci East China Sea Fisheries Res Inst Shanghai 200090 Peoples R China;

    Chinese Acad Fishery Sci East China Sea Fisheries Res Inst Shanghai 200090 Peoples R China;

    Chinese Acad Fishery Sci East China Sea Fisheries Res Inst Shanghai 200090 Peoples R China;

    Chinese Acad Fishery Sci East China Sea Fisheries Res Inst Shanghai 200090 Peoples R China;

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  • 原文格式 PDF
  • 正文语种 eng
  • 中图分类 遗传学;
  • 关键词

    transcriptome resource; de novo assembly; gene annotation; molecular markers; Euphausia superba;

    机译：转录组资源;de novo组装;基因注释;分子标记;euphausia superba;

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