IHB OpenIR  > 鱼类生物学及渔业生物技术研究中心  > 期刊论文
Transcriptome analysis of head kidney in grass carp and discovery of immune-related genes
Chen, Jin1,2; Li, Cai1,2; Huang, Rong1; Du, Fukuan1,2; Liao, Lanjie1; Zhu, Zuoyan1; Wang, Yaping1; Wang, YP (reprint author), Chinese Acad Sci, Inst Hydrobiol, State Key Lab Freshwater Ecol & Biotechnol, Wuhan 430072, Peoples R China.
2012-07-09
Source PublicationBMC VETERINARY RESEARCH
ISSN1746-6148
Volume8
AbstractBackground: Grass carp (Ctenopharyngodon idella) is one of the most economically important freshwater fish, but its production is often affected by diseases that cause serious economic losses. To date, no good breeding varieties have been obtained using the oriented cultivation technique. The ability to identify disease resistance genes in grass carp is important to cultivate disease-resistant varieties of grass carp. Results: In this study, we constructed a non-normalized cDNA library of head kidney in grass carp, and, after clustering and assembly, we obtained 3,027 high-quality unigenes. Solexa sequencing was used to generate sequence tags from the transcriptomes of the head kidney in grass carp before and after grass carp reovirus (GCRV) infection. After processing, we obtained 22,144 tags that were differentially expressed by more than 2-fold between the uninfected and infected groups. 679 of the differentially expressed tags (3.1%) mapped to 483 of the unigenes (16.0%). The up-regulated and down-regulated unigenes were annotated using gene ontology terms; 16 were annotated as immune-related and 42 were of unknown function having no matches to any of the sequences in the databases that were used in the similarity searches. Semi-quantitative RT-PCR revealed four unknown unigenes that showed significant responses to the viral infection. Based on domain structure predictions, one of these sequences was found to encode a protein that contained two transmembrane domains and, therefore, may be a transmembrane protein. Here, we proposed that this novel unigene may encode a virus receptor or a protein that mediates the immune signalling pathway at the cell surface. Conclusion: This study enriches the molecular basis data of grass carp and further confirms that, based on fish tissue-specific EST databases, transcriptome analysis is an effective route to discover novel functional genes.; Background: Grass carp (Ctenopharyngodon idella) is one of the most economically important freshwater fish, but its production is often affected by diseases that cause serious economic losses. To date, no good breeding varieties have been obtained using the oriented cultivation technique. The ability to identify disease resistance genes in grass carp is important to cultivate disease-resistant varieties of grass carp.
SubtypeArticle
KeywordGrass Carp Head Kidney Cdna Est Immune-related Gene
Department[Chen, Jin ; Li, Cai ; Huang, Rong ; Du, Fukuan ; Liao, Lanjie ; Zhu, Zuoyan ; Wang, Yaping] Chinese Acad Sci, Inst Hydrobiol, State Key Lab Freshwater Ecol & Biotechnol, Wuhan 430072, Peoples R China ; [Chen, Jin ; Li, Cai ; Du, Fukuan] Chinese Acad Sci, Grad Sch, Beijing 100039, Peoples R China
DOI10.1186/1746-6148-8-108
WOS HeadingsScience & Technology ; Life Sciences & Biomedicine
Funding OrganizationInnovation Project of the Chinese Academy of Sciences [KSCX2-EW-N-004-3]; National Key Basic Research Program [2009CB118701]; Autonomous Project of State Key Laboratory of Freshwater Ecology and Biotechnology [2011FBZ18] ; Innovation Project of the Chinese Academy of Sciences [KSCX2-EW-N-004-3]; National Key Basic Research Program [2009CB118701]; Autonomous Project of State Key Laboratory of Freshwater Ecology and Biotechnology [2011FBZ18] ; Innovation Project of the Chinese Academy of Sciences [KSCX2-EW-N-004-3]; National Key Basic Research Program [2009CB118701]; Autonomous Project of State Key Laboratory of Freshwater Ecology and Biotechnology [2011FBZ18] ; Innovation Project of the Chinese Academy of Sciences [KSCX2-EW-N-004-3]; National Key Basic Research Program [2009CB118701]; Autonomous Project of State Key Laboratory of Freshwater Ecology and Biotechnology [2011FBZ18]
Indexed BySCI
Language英语
WOS Research AreaVeterinary Sciences
WOS SubjectVeterinary Sciences
WOS IDWOS:000312219400001
WOS KeywordEXPRESSED SEQUENCE TAGS ; HALIBUT HIPPOGLOSSUS-HIPPOGLOSSUS ; MESSENGER-RNA TRANSCRIPTS ; BASS DICENTRARCHUS-LABRAX ; GENOME ANNOTATION ; CHANNEL CATFISH ; EST ANALYSIS ; PROFILES ; LIVER ; MICROARRAY
Funding OrganizationInnovation Project of the Chinese Academy of Sciences [KSCX2-EW-N-004-3]; National Key Basic Research Program [2009CB118701]; Autonomous Project of State Key Laboratory of Freshwater Ecology and Biotechnology [2011FBZ18] ; Innovation Project of the Chinese Academy of Sciences [KSCX2-EW-N-004-3]; National Key Basic Research Program [2009CB118701]; Autonomous Project of State Key Laboratory of Freshwater Ecology and Biotechnology [2011FBZ18] ; Innovation Project of the Chinese Academy of Sciences [KSCX2-EW-N-004-3]; National Key Basic Research Program [2009CB118701]; Autonomous Project of State Key Laboratory of Freshwater Ecology and Biotechnology [2011FBZ18] ; Innovation Project of the Chinese Academy of Sciences [KSCX2-EW-N-004-3]; National Key Basic Research Program [2009CB118701]; Autonomous Project of State Key Laboratory of Freshwater Ecology and Biotechnology [2011FBZ18]
Citation statistics
Cited Times:41[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.ihb.ac.cn/handle/342005/19317
Collection鱼类生物学及渔业生物技术研究中心_期刊论文
Corresponding AuthorWang, YP (reprint author), Chinese Acad Sci, Inst Hydrobiol, State Key Lab Freshwater Ecol & Biotechnol, Wuhan 430072, Peoples R China.
Affiliation1.Chinese Acad Sci, Inst Hydrobiol, State Key Lab Freshwater Ecol & Biotechnol, Wuhan 430072, Peoples R China
2.Chinese Acad Sci, Grad Sch, Beijing 100039, Peoples R China
Recommended Citation
GB/T 7714
Chen, Jin,Li, Cai,Huang, Rong,et al. Transcriptome analysis of head kidney in grass carp and discovery of immune-related genes[J]. BMC VETERINARY RESEARCH,2012,8.
APA Chen, Jin.,Li, Cai.,Huang, Rong.,Du, Fukuan.,Liao, Lanjie.,...&Wang, YP .(2012).Transcriptome analysis of head kidney in grass carp and discovery of immune-related genes.BMC VETERINARY RESEARCH,8.
MLA Chen, Jin,et al."Transcriptome analysis of head kidney in grass carp and discovery of immune-related genes".BMC VETERINARY RESEARCH 8(2012).
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