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De novo annotation of the immune-enriched transcriptome provides insights into immune system genes of Chinese sturgeon (Acipenser sinensis)

文献类型： 外文期刊

作者： Zhu, Rong 1 ; Du, He-Jun 2 ; Li, Shun-Yi 1 ; Li, Ya-Dong 1 ; Ni, Hong 1 ; Yu, Xue-Jing 1 ; Yang, Yan-Yan 1 ; Fan, Yu-Ding 3 ;

作者机构： 1.Hubei Univ, Fac Life Sci, Hubei Collaborat Innovat Ctr Green Transformat Bi, Wuhan 430062, Hubei, Peoples R China

2.China Three Gorges Corp, Inst Chinese Sturgeon, Hubei Key Lab Three Gorges Project Conservat Fish, Yichang 443100, Hubei, Peoples R China

3.Chinese Acad Fishery Sci, Yangtze River Fisheries Res Inst, Wuhan 430223, Hubei, Peoples R China

关键词： Chinese sturgeon (Acipenser sinensis); Transcriptome; De novo assembly; Immune-related gene; Microsatellites

期刊名称：FISH & SHELLFISH IMMUNOLOGY （ 影响因子：4.581； 五年影响因子：4.851 ）

ISSN： 1050-4648

年卷期： 2016 年 55 卷

页码：

收录情况： SCI

摘要： Chinese sturgeon (Acipenser sinensis), one of the oldest extant actinopterygian fishes with very high evolutionary, economical and conservation interest, is considered to be one of the critically endangered aquatic animals in China. Up to date, the immune system of this species remains largely undetermined with little sequence information publicly available. Herein, the first comprehensive transcriptome of immune tissues for Chinese sturgeon was characterized using Illumina deep sequencing. Over 67 million high-quality reads were generated and de novo assembled into the final set of 91,739 unique sequences. The annotation pipeline revealed that 25,871 unigenes were successfully annotated in the public databases, of which only 2002 had significant match to the existing sequences for the genus Acipenser. Overall 22,827 unigenes were categorized into 52 GO terms, 12,742 were classified into 26 KOG categories, and 4968 were assigned to 339 KEGG pathways. A more detailed annotation search showed the presence of a notable representation of immune-related genes, which suggests that this non-teleost actinopterygian fish harbors the same intermediates as in the well known immune pathways from mammals and teleosts, such as pattern recognition receptor (PRR) signaling pathway, JAK-STAT signaling pathway, complement and coagulation pathway, T-cell receptor (TCR) and B-cell receptor (BCR) signaling pathways. Additional genetic marker discovery led to the retrieval of 20,056 simple sequence repeats (SSRs) and 327,140 single nucleotide polymorphisms (SNPs). This immune-enriched transcriptome of Chinese sturgeon represents a rich resource that adds to the currently nascent field of chondrostean fish immunogenetics and furthers the conservation and management of this valuable fish. (C) 2016 Elsevier Ltd. All rights reserved.

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