Transcriptome analysis reveals hub genes in the hepatopancreas of Exopalaemon carinicauda in response to hypoxia and reoxygenation

doi:10.1007/s10499-021-00717-2

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	Transcriptome analysis reveals hub genes in the hepatopancreas of Exopalaemon carinicauda in response to hypoxia and reoxygenation
	Shi, Wenjun 2,3; Wang, Pan 1,3; Hu, Runhao 1,3; Wan, Xihe 3; Shen, Hui 3; Li, Hui 3; Wang, Libao 3; Qiao, Yi 3; Jiang, Ge 3; Cheng, Jie 3
刊名	AQUACULTURE INTERNATIONAL
	2021-05-21
页码	27
关键词	E carinicauda Hypoxia and reoxygenation RNA-seq WGCNA
ISSN号	0967-6120
DOI	10.1007/s10499-021-00717-2
通讯作者	Wan, Xihe(wxh1708@126.com)
英文摘要	Hypoxia is a common stressor in shrimp, but the molecular mechanisms underlying the adaptation of the ridgetail white prawn, Exopalaemon carinicauda, to hypoxia and reoxygenation remain poorly understood. In the present study, ridgetail white prawns were exposed to gradual changes in hypoxia for 6 h via oxygen consumption in a static respiration chamber and then rapidly aerated to allow reoxygenation for 8 h. The dissolved oxygen concentration after 6 h of hypoxia was 1.04 mg/L, and the survival rate of the shrimp was 47%. A transcriptomic analysis of hepatopancreas tissues after 0 (control), 3 (hypoxic starting point), and 6 (hypoxic lethal half point) h of exposure to hypoxia and after 1 and 8 h of reoxygenation was conducted using the Illumina HiSeq(TM) 4000 high-throughput sequencing platform. A total of 93,227 genes were obtained, and 4315 of these genes were identified as differentially expressed genes (DEGs) that respond to hypoxia and reoxygenation. A KEGG pathway enrichment analysis suggested that all identified DEGs were mostly enriched in ribosome biogenesis in eukaryotes, apoptosis, the longevity regulating pathway, the MAPK signaling pathway, and protein processing in the endoplasmic reticulum. In addition, 20,203 genes with RPKM values >= 1 were parsed into 20 modules through a weighted gene coexpression network (WGCNA), and three of these modules were related to hypoxia and reoxygenation. GO and KEGG enrichment analyses of these three modules were then performed, and three hub genes were identified based on their connectivity: RREB1 (Ras-responsive element-binding protein 1-like), UBE1 (ubiquitin-activating enzyme E1), and an unknown gene. This study might help further elucidate the hypoxia tolerance mechanism of E. carinicauda.
资助项目	Jiangsu Provincial Agricultural Major New Varieties Creation Project[PZCZ201747] ; fifth 226 Project cultivation fund support project of Nantong ; Science and Technology Plan Project of Nantong in 2019[JC2019057] ; Jiangsu Provincial Agricultural Science and Technology Independent Innovation Project in 2018[CX18-2010]
WOS关键词	ANTIOXIDANT ENZYME-ACTIVITIES ; SHRIMP LITOPENAEUS-VANNAMEI ; RNA-SEQ DATA ; ENDOPLASMIC-RETICULUM ; ENVIRONMENTAL HYPOXIA ; OXIDATIVE STRESS ; PROTEOMIC ANALYSIS ; DISSOLVED-OXYGEN ; GRASS SHRIMP ; KAPPA-B
WOS研究方向	Fisheries
语种	英语
WOS记录号	WOS:000652957000001
资助机构	Jiangsu Provincial Agricultural Major New Varieties Creation Project ; fifth 226 Project cultivation fund support project of Nantong ; Science and Technology Plan Project of Nantong in 2019 ; Jiangsu Provincial Agricultural Science and Technology Independent Innovation Project in 2018
内容类型	期刊论文
源URL	[http://ir.yic.ac.cn/handle/133337/29309]
专题	烟台海岸带研究所_中科院烟台海岸带研究所知识产出
通讯作者	Wan, Xihe
作者单位	1.Shanghai Ocean Univ, Natl Demonstrat Ctr Expt Fisheries Sci Educ, Shanghai, Peoples R China 2.Chinese Acad Sci, Yantai Inst Coastal Zone Res, Yantai, Peoples R China 3.Inst Oceanol & Marine Fisheries, 31 Jiaoyu Rd, Nantong 226007, Jiangsu, Peoples R China
推荐引用方式 GB/T 7714	Shi, Wenjun,Wang, Pan,Hu, Runhao,et al. Transcriptome analysis reveals hub genes in the hepatopancreas of Exopalaemon carinicauda in response to hypoxia and reoxygenation[J]. AQUACULTURE INTERNATIONAL,2021:27.
APA	Shi, Wenjun.,Wang, Pan.,Hu, Runhao.,Wan, Xihe.,Shen, Hui.,...&Yang, Zeyu.(2021).Transcriptome analysis reveals hub genes in the hepatopancreas of Exopalaemon carinicauda in response to hypoxia and reoxygenation.AQUACULTURE INTERNATIONAL,27.
MLA	Shi, Wenjun,et al."Transcriptome analysis reveals hub genes in the hepatopancreas of Exopalaemon carinicauda in response to hypoxia and reoxygenation".AQUACULTURE INTERNATIONAL (2021):27.