title: Transcriptome profiling of developing spleen tissue and discovery of immune-related genes in grass carp (Ctenopharyngodon idella).
abstract: Grass carp Ctenopharyngodon idella is an important freshwater aquaculture species. However, studies regarding transcriptomic profiling of developing spleen tissue in the grass carp are lacking. Here, the transcriptome sequencing from the spleen tissue of one-year-old (cis1) and three-year-old (cis3) grass carp was performed using Illumina paired-end sequencing technology. The de novo assemblies yielded 48,970 unigenes with average lengths of 1264.51 bp from the two libraries. The assembled unigenes were evaluated and functionally annotated by comparing with sequences in major public databases including Nr, COG, Swiss-Prot, KEGG, Pfam and GO. Comparative analysis of expression levels revealed that a total of 38,254 unigenes were expressed in both the cis1 and cis3 libraries, while 4356 unigenes were expressed only in the cis1 library, and 3312 unigenes were expressed only in the cis3 library. Meanwhile, 1782 unigenes (including 903 down-regulated and 879 up-regulated unigenes) were differentially expressed between the two developmental stages of the grass carp spleen. Based on GO and KEGG enrichment analysis, these differentially expressed genes widely participated in the regulation of immunity and response in the grass carp. Moreover, the main components of six immune-related pathways were identified, including complement and coagulation cascades, Toll-like receptor signaling, B-cell receptor signaling, T-cell receptor signaling, antigen processing and presentation, and chemokine signaling. Finally, two identified transcripts including TLR 8 and complement component C8 were validated for reliability by RT-PCR. Collectively, the results obtained in this study will provide a basis for the study of molecular mechanisms in grass carp spleen development.
authors.affiliation: College of Animal Science and Veterinary Medicine, Henan Agricultural University, Zhengzhou, Henan Province 450002, PR China. Electronic address: liguoxi0914@126.com.
authors.forename: Guoxi
authors.initials: G
authors.lastname: Li
authors.affiliation: College of Biological Engineering, Henan University of Technology, Zhengzhou, Henan Province 450001, PR China. Electronic address: zhaoyinli73@aliyun.com.
authors.forename: Yinli
authors.initials: Y
authors.lastname: Zhao
authors.affiliation: College of Animal Science and Veterinary Medicine, Henan Agricultural University, Zhengzhou, Henan Province 450002, PR China. Electronic address: wjsh2016@126.com.
authors.forename: Jie
authors.initials: J
authors.lastname: Wang
authors.affiliation: College of Animal Science and Veterinary Medicine, Henan Agricultural University, Zhengzhou, Henan Province 450002, PR China. Electronic address: Liubianzhi@126.com.
authors.forename: Bianzhi
authors.initials: B
authors.lastname: Liu
authors.affiliation: College of Animal Science and Veterinary Medicine, Henan Agricultural University, Zhengzhou, Henan Province 450002, PR China. Electronic address: ybwang2005@126.com.
authors.forename: Xiangli
authors.initials: X
authors.lastname: Sun
authors.affiliation: College of Animal Science and Veterinary Medicine, Henan Agricultural University, Zhengzhou, Henan Province 450002, PR China. Electronic address: shuangshuang98@126.com.
authors.forename: Shuang
authors.initials: S
authors.lastname: Guo
authors.affiliation: Laboratory of Aquaculture and Genetic Breeding, Henan Academy of Fishery Science, Zhengzhou, Henan Province 450044, PR China. Electronic address: Fnjaxn@163.com.
authors.forename: Jianxin
authors.initials: J
authors.lastname: Feng
mesh_terms: D000818:Animals; D002347:Carps / Q000235:genetics* / Q000254:growth & development / Q000276:immunology* / Q000378:metabolism; D029941:Fish Proteins / Q000235:genetics* / Q000378:metabolism; D020869:Gene Expression Profiling / Q000662:veterinary; D015723:Gene Library; D007113:Immunity, Innate / Q000235:genetics; D060888:Real-Time Polymerase Chain Reaction / Q000662:veterinary; D017422:Sequence Analysis, DNA / Q000662:veterinary; D015398:Signal Transduction; D013154:Spleen / Q000254:growth & development / Q000276:immunology / Q000378:metabolism; D059467:Transcriptome
chemical_list: D029941:Fish Proteins
keywords: Grass carp; Immune-relevant genes; Spleen; Transcriptome