De novo assembly and annotation of the whole transcriptome of Sepiella maindroni

Tian Kuo; Lou Fangrui; Gao Tianxiang; Zhou Yongdong; Miao Zhenqing; Han Zhiqiang

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De novo assembly and annotation of the whole transcriptome of Sepiella maindroni

机译：De Novo组装和吞噬蜂房莫德隆的整个转录组的注释

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As an important cephalopods species, Sepiella maindroni fishery has suffered a severe decline due to over-fishing since the 1980s. Stock enhancement has been applied to the resource recovery of this species, but a sexual precocity appeared in breeding process. In order to understand the regulatory mechanism of this phenomenon, we generated the whole transcriptome of S. maindroni based on the total RNA of tissue samples (eyestalk, peduncle, tentacle, gill, muscle and ovary) using Illumina RNA-seq technology. De novo assembly was performed using Trinity software and a total of 31,979,244 high-quality clean reads were randomly assembled to produce 74,245 contigs. All contigs were further assembled and clustered into 58,224 unigenes. Among the predictable unigenes, a total of 14,346 unigenes were annotated based on protein databases. We assessment the annotation completeness using BUSCO software package and the result showed that 91.5% protein-coding genes were found in our assembled transcripts. At last, we predicted the structure of all unigenes using TransDecoder software and MicroSAtellite identification tool, respectively. Result showed that a total of 26,037 nucleotide sequences of coding regions (direction of the sequences is 5' - 3') were confirmed to the protein database and a total of 13,471 simple sequence repeats were identified. Our goal was to provide an important foundation for future genomic research on the cephalopod and further evaluate the effectiveness of stock enhancement. (C) 2017 Elsevier B.V. All rights reserved.

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来源
《Marine genomics》 |2018年第2018期|共4页
作者
Tian Kuo; Lou Fangrui; Gao Tianxiang; Zhou Yongdong; Miao Zhenqing; Han Zhiqiang;
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作者单位

Zhejiang Ocean Univ Fishery Coll Zhoushan 316022 Peoples R China;

Zhejiang Ocean Univ Fishery Coll Zhoushan 316022 Peoples R China;

Zhejiang Ocean Univ Fishery Coll Zhoushan 316022 Peoples R China;

Zhejiang Ocean Univ Fishery Coll Zhoushan 316022 Peoples R China;

Zhejiang Ocean Univ Fishery Coll Zhoushan 316022 Peoples R China;

Zhejiang Ocean Univ Fishery Coll Zhoushan 316022 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
Sepiella maindroni; Transcriptome; RNA-seq technology; De novo assembly; Gene annotation;

机译：Sepiella Maindroni;转录组;RNA-SEQ技术;De Novo组装;基因注释;

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De novo assembly and annotation of the whole transcriptome of Sepiella maindroni

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