Research Article: Screening of the candidate genes related to low-temperature tolerance of Fenneropenaeus chinensis based on high-throughput transcriptome sequencing

Date Published: April 8, 2019

Publisher: Public Library of Science

Author(s): Xianhong Meng, Lijun Dong, Xiaoli Shi, Xupeng Li, Juan Sui, Kun Luo, Sheng Luan, Baolong Chen, Baoxiang Cao, Jiawang Cao, Jie Kong, Peng Xu.

http://doi.org/10.1371/journal.pone.0211182

Abstract

In order to screen the candidate genes of Fenneropenaeus chinensis related to low-temperature tolerance, this research takes juvenile prawns of F. chinensis (P40) in low temperature stress group (4°C) and normal temperature group (18°C) as experimental materials. The results showed that a total of 127,939 Unigenes with average length of 1,190 bp were obtained by assembly, of which 46% were annotated in the Nr database. A total of 1,698 differentially expressed genes were screened by differential gene expression analysis, of which 920 genes showed up-regulated expression and 778 genes showed down-regulated expression. Both GO and KEGG enrichment analysis revealed that differentially expressed genes were enriched in spliceosomes, ribosomes, bile secretion, ABC transport pathways, and cellular nitrogen compound synthesis. A further in-depth analysis obtained 8 genes that may be associated with low-temperature traits of F. chinensis. Five of them displayed up-regulated expression, including ATP-binding cassette protein C, acid ceramidase, glutathione transferase, C-type lectin and heat shock protein HSP70. The remaining three genes, γ-butyl betaine hydroxylase, β-hexosaminidase A and long chain fatty acid-CoA ligase displayed down-regulated expression. Eight differentially expressed genes were randomly selected and the real time RT-PCR verification showed that their expression levels were consistent with the sequencing results, demonstrating the accuracy of the sequencing results. The results of this study provide basic data for revealing the molecular mechanisms of F. chinensis in response to low temperature stress and the molecular assisted breeding of F. chinensis in low temperature.

Partial Text

As one of the most important Chinese native mariculture species, Chinese fleshy shrimp (Fenneropenaeus chinensis) belongs to Fenneropenaeus, Penaeidae, Decapoda and Crustacea. It’s naturally distributed in the Yellow Sea, Bohai Sea (including the North West coast of Korea Peninsula), as well as Rongqiu Archipelago and Zhoushan Archipelago in the northern part of the East China Sea. [1]. As early as the 1950s, China conducted research on the reproduction and development of F. chinensis and carried out large-scale research on breeding and cultivation techniques for obtaining practical production techniques of this shrimp. In the late 1990s, China began to conduct the selective breeding. New variety of F. chinensis named ‘Huanghai No. 1’, ‘Huanghai No. 2’ and ‘Huanghai No. 3’ were cultivated [2–4].

Basing on transcriptome sequencing, this paper provided a comprehensive investigation of the differentially expressed genes of F. chinensis under low temperature stress. The research results are crucial for clarifying the molecular mechanism of low temperature tolerance of F. chinensis in obtaining the low temperature-resistance related genes. It will also provide theoretical support for low temperature molecularly assisted breeding of F. chinensis in China.

 

Source:

http://doi.org/10.1371/journal.pone.0211182

 

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