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RNA-seq profiles from grass carp tissues after reovirus (GCRV) infection based on singular and modular enrichment analyses
Shi, Mijuan1,2; Huang, Rong1; Du, Fukuan1; Pei, Yongyan1; Liao, Lanjie1,2; Zhu, Zuoyan1; Wang, Yaping1
2014-09-01
Source PublicationMOLECULAR IMMUNOLOGY
ISSN0161-5890
Volume61Issue:1Pages:44-53
AbstractHemorrhagic disease of the grass carp, Ctenopharyngodon idella, is a fatal disease in fingerlings and yearlings caused by a reovirus, GCRV. RNA-seq data from four diseased grass carp tissues (gill, intestine, liver and spleen) were obtained at 2 h before and six times after (2 h, 24 h, 48 h, 72 h, 96 h and 120 h) GCRV challenge. A total of 7.25 +/- 0.18 million (M) clean reads and 3.53 +/- 0.37 M unique reads were obtained per RNA-seq analysis. Compared with controls, there were 9060 unique differentially expressed genes (DEGs) in the four tissues at the six time points post-GCRV challenge. Hierarchical clustering analysis of the DEGs showed that the data from the six time points fell into three branches: 2 h, 24 h/48 h, and 72 h/96 h/120 h. Singular (SEA) and modular enrichment analyses of DEGs per RNA-seq dataset were performed based on gene ontology. The results showed that immune responses occurred in all four tissues, indicating that GCRV probably does not target any tissue specifically. Moreover, during the course of disease, disturbances were observed in lipid and carbohydrate metabolism in each of the organs. SEA of DEGs based on the Kyoto Encyclopedia of Genes and Genomes database was also performed, and this indicated that the complement system and cellular immunity played an important role during the course of hemorrhagic disease. The qPCR of pooled samples of duplicate challenge experiment were used to confirm our RNA-seq approach. (C) 2014 Elsevier Ltd. All rights reserved.
SubtypeArticle
KeywordCtenophalyngodon Idella Hemorrhagic Disease Innate Immunity Complement Cellular Immunity Metabolic Disturbances
DOI10.1016/j.molimm.2014.05.004
WOS HeadingsScience & Technology ; Life Sciences & Biomedicine
Indexed BySCI
Language英语
WOS Research AreaBiochemistry & Molecular Biology ; Immunology
WOS SubjectBiochemistry & Molecular Biology ; Immunology
WOS IDWOS:000337872700007
WOS KeywordKALLIKREIN-KININ SYSTEM ; T-CELL PROLIFERATION ; TELEOST FISH ; EXPRESSION PROFILES ; COMPLEMENT-SYSTEM ; GENE-EXPRESSION ; CTENOPHARYNGODON-IDELLA ; GOBIOCYPRIS-RARUS ; IMMUNE-RESPONSES ; DENDRITIC CELLS
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Cited Times:40[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.ihb.ac.cn/handle/342005/20343
Collection鱼类生物学及渔业生物技术研究中心_期刊论文
Affiliation1.Chinese Acad Sci, Inst Hydrobiol, State Key Lab Freshwater Ecol & Biotechnol, Wuhan 430072, Peoples R China
2.Univ Chinese Acad Sci, Beijing 100039, Peoples R China
Recommended Citation
GB/T 7714
Shi, Mijuan,Huang, Rong,Du, Fukuan,et al. RNA-seq profiles from grass carp tissues after reovirus (GCRV) infection based on singular and modular enrichment analyses[J]. MOLECULAR IMMUNOLOGY,2014,61(1):44-53.
APA Shi, Mijuan.,Huang, Rong.,Du, Fukuan.,Pei, Yongyan.,Liao, Lanjie.,...&Wang, Yaping.(2014).RNA-seq profiles from grass carp tissues after reovirus (GCRV) infection based on singular and modular enrichment analyses.MOLECULAR IMMUNOLOGY,61(1),44-53.
MLA Shi, Mijuan,et al."RNA-seq profiles from grass carp tissues after reovirus (GCRV) infection based on singular and modular enrichment analyses".MOLECULAR IMMUNOLOGY 61.1(2014):44-53.
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