biostudies-literatureUnknown4Hu XAs one of the mucosal barriers, fish gills represent the first line of defense against pathogen infection. However, the exact mechanism of gill mucosal immune response to bacterial infection still needs further investigation in fish. Here, to investigate pathological changes and molecular mechanisms of the mucosal immune response in the gills of crucian carp (<i>Carassius auratus</i>) challenged by <i>Aeromonas hydrophila</i>, the transcriptomics and proteomics were performed by using multi-omics analyses of RNA-seq coupled with iTRAQ techniques. The results demonstrated gill immune response were mostly related to the activation of complement and coagulation cascades, antigen processing and presentation, phagosome, NOD-like receptor (NLR) and nuclear factor κB (NFκB) signaling pathway. SelFish and shellfish immunology reports100077https://www.ebi.ac.uk/biostudies/studies/S-EPMC9798182biostudies-literatureComprehensive transcriptomics and proteomics analysis of <i>Carassius auratus</i> gills in response to <i>Aeromonas hydrophila</i>.PMC9798182Hu XLiu RBai JLv AfalseComprehensive transcriptomics and proteomics analysis of <i>Carassius auratus</i> gills in response to <i>Aeromonas hydrophila</i>.As one of the mucosal barriers, fish gills represent the first line of defense against pathogen infection. However, the exact mechanism of gill mucosal immune response to bacterial infection still needs further investigation in fish. Here, to investigate pathological changes and molecular mechanisms of the mucosal immune response in the gills of crucian carp (<i>Carassius auratus</i>) challenged by <i>Aeromonas hydrophila</i>, the transcriptomics and proteomics were performed by using multi-omics analyses of RNA-seq coupled with iTRAQ techniques. The results demonstrated gill immune response were mostly related to the activation of complement and coagulation cascades, antigen processing and presentation, phagosome, NOD-like receptor (NLR) and nuclear factor κB (NFκB) signaling pathway. Sel2023-01-01T00:00:00Z2023 Dec2025-04-18T22:24:50.223Z2024-12-04T11:37:17.658ZS-EPMC97981823658926110.1016/j.fsirep.2022.100077