Fish gut metagenome
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1056799 | ENA |
REPOSITORIES: ENA
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Project description:Germinal centers (GCs), specialized microanatomical structures that emerged in endothermic vertebrates, serve as critical hubs for immune surveillance and lymphocyte activation. The constant exposure to foodborne pathogens drives the evolutionary selection for potent gut mucosal immune defenses in vertebrate species. Despite retaining ancestral ectothermic traits including underdeveloped lymph nodes, teleost fish have evolved specialized gut-associated lymphoid tissue capable of generating robust antigen-specific immune responses. How and where ectothermic vertebrates initiate adaptive immunity in the gut remains enigmatic. Through single-cell RNA sequencing (scRNA-seq), we comprehensively mapped the dynamic immune landscape of common carp (Cyprinus carpio) in the gut and head kidney (HK) following Spring Viremia of Carp Virus (SVCV) challenge. Strikingly, lymphocytes within gut exhibited pronounced upregulation of memory-related genes upon secondary viral exposure, oncomitant with robust expression of canonical GC markers in B cells. Furthermore, using FISH, we observed SVCV co-localization with CXCR5⁺ B cells within the lamina propria basement of the gut and perivascular niches of the HK, encircled by a peripheral ring of AICDA⁺/MKI67⁺/CXCR4⁺ B cells. Notably, within these same microanatomical niches, we detected distinct aggregates composed of highly proliferative IgM⁺ B cells undergoing significant apoptosis and antigen (Ag)-specific B cells. Collectively, our findings reveal that teleosts have evolved GC-like structures in the gut, offering novel insights into the evolutionary origins of GCs.
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Project description:Genome-wide analysis of skin color-related lncRNA and mRNA expression in Koi carp, Cyprinus carpio L. LncRNAs information linked to fish skin color regulation is over-limited. In this study, Illumina sequencing and bioinformatics were primarily conducted on black, white and red skin colors of Koi carp. A total of 590,415,050 clean reads, 446,614 putative transcripts, 4,252 known and 72,907 novel lncRNAs were simultaneously obtained, respectively. Out of these genes, 92 significant differentially expressed lncRNAs and 722 mRNAs were excavated. Ccr_lnc5622441, Ccr_lnc765201 were found up-regulated in black and red skins; Ccr_lnc14074601 were up-regulated in white skin; and premelanosome proteins a (Pmela), tyrosinase (Tyr) were up-regulated in black skin, etc. Quantitative real-time PCR (qRT-PCR) further validated 12 differentially expressed genes were consistent with RNA-seq. Moreover, 70 lncRNAs on 107 target mRNAs in cis and 79 lncRNAs on 41,625 target mRNAs in trans were investigated, the networks revealed one lncRNAs can connected with numerous mRNAs, vice versa. These findings broadened the lncRNAs landscape of skin colors and provided new insights into the mechanisms underlying lncRNAs mediated pigmentation and differentiation in Koi carp.
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