An integrated and comprehensive transcriptome reveals immune-related genes and signal pathways in topmouth culter (Culter alburnus)

Shuangyong Lei, Xiaowen Chen, Jun Wang, Lu Zhou, Youliang Zhang, Guoqi Zhang, Guoqing Lu, Chenghui Wang

Research output: Contribution to journalArticle

2 Citations (Scopus)

Abstract

Topmouth culter (Culter alburnus) is an important freshwater species in China. In recent years, the population of topmouth culter has declined sharply due to the increasing pollution, overfishing and habitat destruction. It may lead to adverse effects, including weakening health, causing disease, and reducing the quality of topmouth culter. It is urgent to conduct resource management, protection and genetic improvement strategies in topmouth culter, especially develop genetic breeding program with disease resistance. In this study, we applied RNA-seq technology to de novo assemble a comprehensive transcriptome, and to discover immune-related genes and pathways in topmouth culter. A total of 102 017 transcripts were assembled with an average length of 945 bp, of which 45 482 protein coding sequences were predicted. BLAST search resulted in 53 575 and 45 602 transcripts with homologous sequences in NCBI-NR and UniProt respectively. Further functional analysis identified 24 052 transcripts in Gene Ontology (GO) categories and 19 260 transcripts in KEGG pathways. Significantly, 13 immune-related pathways with 524 immune-related genes were identified. Our data provided an integrated and comprehensive transcriptome resource for topmouth culter, which could be essential for further research in selective breeding of disease resistance, functional genomics, and genome editing of topmouth culter.

Original languageEnglish (US)
Pages (from-to)2231-2242
Number of pages12
JournalAquaculture Research
Volume48
Issue number5
DOIs
StatePublished - May 1 2017

Fingerprint

transcriptome
signal transduction
disease resistance
gene
health and disease
selective breeding
genes
overfishing
RNA
resource management
genomics
genome
breeding
pollution
protein
resource
Culter alburnus
natural resource management
selection methods
sequence homology

Keywords

  • annotation
  • genetic breeding
  • immune-related pathways
  • topmouth culter (Culter alburnus)
  • transcriptome

ASJC Scopus subject areas

  • Aquatic Science

Cite this

An integrated and comprehensive transcriptome reveals immune-related genes and signal pathways in topmouth culter (Culter alburnus). / Lei, Shuangyong; Chen, Xiaowen; Wang, Jun; Zhou, Lu; Zhang, Youliang; Zhang, Guoqi; Lu, Guoqing; Wang, Chenghui.

In: Aquaculture Research, Vol. 48, No. 5, 01.05.2017, p. 2231-2242.

Research output: Contribution to journalArticle

Lei, Shuangyong ; Chen, Xiaowen ; Wang, Jun ; Zhou, Lu ; Zhang, Youliang ; Zhang, Guoqi ; Lu, Guoqing ; Wang, Chenghui. / An integrated and comprehensive transcriptome reveals immune-related genes and signal pathways in topmouth culter (Culter alburnus). In: Aquaculture Research. 2017 ; Vol. 48, No. 5. pp. 2231-2242.
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