Genetics Responses to Hypoxia and Reoxygenation Stress in Larimichthys crocea Revealed via Transcriptome Analysis and Weighted Gene Co-Expression Network

The large yellow croaker (Larimichthys crocea) is an important marine economic fish in China; however, its intolerance to hypoxia causes widespread mortality. To understand the molecular mechanisms underlying hypoxia tolerance in L. crocea, the transcriptome gen...

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Autores principales:	Yibo Zhang, Jie Ding, Cheng Liu, Shengyu Luo, Xinming Gao, Yuanjie Wu, Jingqian Wang, Xuelei Wang, Xiongfei Wu, Weiliang Shen, Junquan Zhu
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	hypoxia transcriptome WGCNA hub genes <i>Larimichthys crocea</i> Veterinary medicine SF600-1100 Zoology QL1-991
Acceso en línea:	https://doaj.org/article/aece23d3634644828301fb268ffaba40
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spelling	oai:doaj.org-article:aece23d3634644828301fb268ffaba402021-11-25T16:13:45ZGenetics Responses to Hypoxia and Reoxygenation Stress in <i>Larimichthys crocea</i> Revealed via Transcriptome Analysis and Weighted Gene Co-Expression Network10.3390/ani111130212076-2615https://doaj.org/article/aece23d3634644828301fb268ffaba402021-10-01T00:00:00Zhttps://www.mdpi.com/2076-2615/11/11/3021https://doaj.org/toc/2076-2615The large yellow croaker (<i>Larimichthys crocea</i>) is an important marine economic fish in China; however, its intolerance to hypoxia causes widespread mortality. To understand the molecular mechanisms underlying hypoxia tolerance in <i>L. crocea</i>, the transcriptome gene expression profiling of three different tissues (blood, gills, and liver) of <i>L. crocea</i> exposed to hypoxia and reoxygenation stress were performed. In parallel, the gene relationships were investigated based on weighted gene co-expression network analysis (WGCNA). Accordingly, the Gene Ontology and Kyoto Encyclopedia of Genes and Genomes enrichment analysis showed that several pathways (e.g., energy metabolism, signal transduction, oxygen transport, and osmotic regulation) may be involved in the response of <i>L. crocea</i> to hypoxia and reoxygenation stress. In addition, also, four key modules (darkorange, magenta, saddlebrown, and darkolivegreen) that were highly relevant to the samples were identified by WGCNA. Furthermore, some hub genes within the association module, including <i>RPS16, EDRF1, KCNK5, SNAT2, PFKL, GSK-3β,</i> and <i>PIK3CD,</i> were found. This is the first study to report the co-expression patterns of a gene network after hypoxia stress in marine fish. The results provide new clues for further research on the molecular mechanisms underlying hypoxia tolerance in <i>L. crocea</i>.Yibo ZhangJie DingCheng LiuShengyu LuoXinming GaoYuanjie WuJingqian WangXuelei WangXiongfei WuWeiliang ShenJunquan ZhuMDPI AGarticlehypoxiatranscriptomeWGCNAhub genes<i>Larimichthys crocea</i>Veterinary medicineSF600-1100ZoologyQL1-991ENAnimals, Vol 11, Iss 3021, p 3021 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	hypoxia transcriptome WGCNA hub genes <i>Larimichthys crocea</i> Veterinary medicine SF600-1100 Zoology QL1-991
spellingShingle	hypoxia transcriptome WGCNA hub genes <i>Larimichthys crocea</i> Veterinary medicine SF600-1100 Zoology QL1-991 Yibo Zhang Jie Ding Cheng Liu Shengyu Luo Xinming Gao Yuanjie Wu Jingqian Wang Xuelei Wang Xiongfei Wu Weiliang Shen Junquan Zhu Genetics Responses to Hypoxia and Reoxygenation Stress in <i>Larimichthys crocea</i> Revealed via Transcriptome Analysis and Weighted Gene Co-Expression Network
description	The large yellow croaker (<i>Larimichthys crocea</i>) is an important marine economic fish in China; however, its intolerance to hypoxia causes widespread mortality. To understand the molecular mechanisms underlying hypoxia tolerance in <i>L. crocea</i>, the transcriptome gene expression profiling of three different tissues (blood, gills, and liver) of <i>L. crocea</i> exposed to hypoxia and reoxygenation stress were performed. In parallel, the gene relationships were investigated based on weighted gene co-expression network analysis (WGCNA). Accordingly, the Gene Ontology and Kyoto Encyclopedia of Genes and Genomes enrichment analysis showed that several pathways (e.g., energy metabolism, signal transduction, oxygen transport, and osmotic regulation) may be involved in the response of <i>L. crocea</i> to hypoxia and reoxygenation stress. In addition, also, four key modules (darkorange, magenta, saddlebrown, and darkolivegreen) that were highly relevant to the samples were identified by WGCNA. Furthermore, some hub genes within the association module, including <i>RPS16, EDRF1, KCNK5, SNAT2, PFKL, GSK-3β,</i> and <i>PIK3CD,</i> were found. This is the first study to report the co-expression patterns of a gene network after hypoxia stress in marine fish. The results provide new clues for further research on the molecular mechanisms underlying hypoxia tolerance in <i>L. crocea</i>.
format	article
author	Yibo Zhang Jie Ding Cheng Liu Shengyu Luo Xinming Gao Yuanjie Wu Jingqian Wang Xuelei Wang Xiongfei Wu Weiliang Shen Junquan Zhu
author_facet	Yibo Zhang Jie Ding Cheng Liu Shengyu Luo Xinming Gao Yuanjie Wu Jingqian Wang Xuelei Wang Xiongfei Wu Weiliang Shen Junquan Zhu
author_sort	Yibo Zhang
title	Genetics Responses to Hypoxia and Reoxygenation Stress in <i>Larimichthys crocea</i> Revealed via Transcriptome Analysis and Weighted Gene Co-Expression Network
title_short	Genetics Responses to Hypoxia and Reoxygenation Stress in <i>Larimichthys crocea</i> Revealed via Transcriptome Analysis and Weighted Gene Co-Expression Network
title_full	Genetics Responses to Hypoxia and Reoxygenation Stress in <i>Larimichthys crocea</i> Revealed via Transcriptome Analysis and Weighted Gene Co-Expression Network
title_fullStr	Genetics Responses to Hypoxia and Reoxygenation Stress in <i>Larimichthys crocea</i> Revealed via Transcriptome Analysis and Weighted Gene Co-Expression Network
title_full_unstemmed	Genetics Responses to Hypoxia and Reoxygenation Stress in <i>Larimichthys crocea</i> Revealed via Transcriptome Analysis and Weighted Gene Co-Expression Network
title_sort	genetics responses to hypoxia and reoxygenation stress in <i>larimichthys crocea</i> revealed via transcriptome analysis and weighted gene co-expression network
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/aece23d3634644828301fb268ffaba40
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Genetics Responses to Hypoxia and Reoxygenation Stress in <i>Larimichthys crocea</i> Revealed via Transcriptome Analysis and Weighted Gene Co-Expression Network

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