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首页> 外文期刊>Marine genomics >A full-length transcriptome of Sepia esculenta using a combination of single-molecule long-read (SMRT) and Illumina sequencing
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A full-length transcriptome of Sepia esculenta using a combination of single-molecule long-read (SMRT) and Illumina sequencing

机译：使用单分子长读（SMRT）和Illumina测序的组合的Sepia Esculenta的全长转录组

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摘要

As an economically important cephalopods species, wild-caught Sepia esculenta fishery has suffered a server decline due to over-fishing and ocean environmental damage. To restore this seriously declining fishery resource, we should understand the genetic foundation and molecular mechanism of spawning, reproduction and mortal of golden cuttlefish. In this study, we generated the full-length transcriptome of S. esculenta based on the total RNA of tissue samples (brain, optic gland, nidamental gland, ovary and muscle at different developmental stages) using a combination of single-molecule real-time (SMRT) and Illumina RNA-seq technology. A total of 14.16 Gb SMRT sequencing data were assembled into 94,635 transcripts. Meanwhile, 35.15 Gb Illumina HiSeq data were assembled into 177,226 non-redundant transcripts. Then, we merged SMRT and Illumina assembled data to generate a more complete/full-length S. esculenta transcriptome with 177,951 high-quality transcripts. Based on the obtained transcriptome data, total 81,459 transcripts were annotated in at least one of seven functional databases and 49,189 nucleotide sequences of coding regions were identified. Additionally, 161,327 SSRs distributed in 64,933 transcripts were identified based on SSR analysis. This fulllength and high-quality transcriptome of S. esculenta can provide an important foundation for future genomic research on growth and development, reproduction and mortal of cephalopod and further recovery of this recessionary fisheries resources.
机译：作为一种经济上重要的头孢氨酸物种，由于过度捕捞和海洋环境损害，野生群岛Esculenta渔业遭遇了服务器下跌。为了恢复这一认真的渔业资源，我们应该了解产卵，繁殖和凡人的遗传基础和分子机制。在这项研究中，使用单分子实时组合的组织样品（脑，光学腺，纯腺，卵巢和卵巢和肌肉）的组织样本（脑，光学腺，纯腺，卵巢和肌肉）的总RNA产生了S.Seculenta的全长转录组。 （SMRT）和Illumina RNA-SEQ技术。共组装成94,635个转录物的14.16 GB SMRT测序数据。同时，35.15 GB Illumina Hiseq数据组装成177,226个非冗余成绩单。然后，我们合并SMRT和Illumina组装数据，以产生更完整/全长的S. Esculenta转录组，具有177,951种高质量的成绩单。基于所获得的转录组数据，鉴定了七个功能数据库中的至少一种中的81,459种转录物，并鉴定了49,189个编码区域的核苷酸序列。另外，基于SSR分析鉴定了64,933转录物中分布的161,327 SSR。这种全长和高质量的S.SceSuenta转录组可以为未来的基因组研究，Cephalopod的生长和发展，繁殖和凡人提供重要基础，进一步恢复这一衰退渔业资源。

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  • 来源
    《Marine genomics》 |2019年第2019期|共4页
  • 作者

    Zhang Jinyong; Liu Changlin; He Muchun; Xiang Zilong; Yin Yanan; Liu Shufang; Zhuang ZhiMeng;

  • 作者单位

    Nanjing Agr Univ Wuxi Fisheries Coll Wuxi 214081 Peoples R China;

    Chinese Acad Fishery Sci Yellow Sea Fisheries Res Inst Qingdao 266071 Peoples R China;

    Chinese Acad Fishery Sci Yellow Sea Fisheries Res Inst Qingdao 266071 Peoples R China;

    Chinese Acad Fishery Sci Yellow Sea Fisheries Res Inst Qingdao 266071 Peoples R China;

    Chinese Acad Fishery Sci Yellow Sea Fisheries Res Inst Qingdao 266071 Peoples R China;

    Nanjing Agr Univ Wuxi Fisheries Coll Wuxi 214081 Peoples R China;

    Nanjing Agr Univ Wuxi Fisheries Coll Wuxi 214081 Peoples R China;

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  • 正文语种 eng
  • 中图分类 遗传学;
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