Bioproject ID: PRJNA288831

bioproject id PRJNA288831      to NCBI
key word Challenge; Aeromonas hydrophila; RNA-SEQ ANALYSIS; GRASS CARP; FUNCTIONAL-CHARACTERIZATION; EXPRESSION ANALYSIS; SIGNALING PATHWAY; MOLECULAR-CLONING; TELEOST FISH; IDENTIFICATION; GENES; ANNOTATION
experiment type challenge
publication Dang Y et al., "Transcriptome Analysis of the Innate Immunity-Related Complement System in Spleen Tissue of Ctenopharyngodon idella Infected with Aeromonas hydrophila", Plos One, 2016; 11(7): e0157413.
description Study aimed at exploring the molecular mechanism of resistance to Aeromonas hydrophila and helping breeding for disease resistance species.
abstract The grass carp (Ctenopharyngodon idella) is an important commercial farmed herbivorous fish species in China, but is susceptible to Aeromonas hydrophila infections. In the present study, we performed de novo RNA-Seq sequencing of spleen tissue from specimens of a disease-resistant family, which were given intra-peritoneal injections containing PBS with or without a dose of A. hydrophila. The fish were sampled from the control group at 0 h, and from the experimental group at 4, 8, 12, 24, 48 and 72 h. 122.18 million clean reads were obtained from the normalized cDNA libraries; these were assembled into 425,260 contigs and then 191,795 transcripts. Of those, 52,668 transcripts were annotated with the NCBI Nr database, and 41,347 of the annotated transcripts were assigned into 90 functional groups. 20,569 unigenes were classified into six main categories, including 38 secondary KEGG pathways. 2,992 unigenes were used in the analysis of differentially expressed genes (DEGs). 89 of the putative DEGs were related to the immune system and 41 of them were involved in the complement and coagulation cascades pathway. This study provides insights into the complement and complement-related pathways involved in innate immunity, through expression profile analysis of the genomic resources in C. idella. We conclude that complement and complement-related genes play important roles during defense against A. hydrophila infection. The immune response is activated at 4 h after the bacterial injections, indicating that the complement pathways are activated at the early stage of bacterial infection. The study has improved our understanding of the immune response mechanisms in C. idella to bacterial pathogens.

Sample Information

sample id sample name tissue strain treatment description
1. SRR2086445 grass_carp_0 spleen Aeromonas hydrophila injected with 1 × PBS Grass carp infected 0 h (Control)
2. SRR2086450 grass_carp_12 spleen Aeromonas hydrophila 100μL intra-peritoneal injections of A. hydrophila Grass carp infected 12 h
3. SRR2086456 grass_carp_24 spleen Aeromonas hydrophila 100μL intra-peritoneal injections of A. hydrophila Grass carp infected 24 h
4. SRR2086460 grass_carp_48 spleen Aeromonas hydrophila 100μL intra-peritoneal injections of A. hydrophila Grass carp infected 48 h
5. SRR2086468 grass_carp_4 spleen Aeromonas hydrophila 100μL intra-peritoneal injections of A. hydrophila Grass carp infected 4 h
6. SRR2086471 grass_carp_72 spleen Aeromonas hydrophila 100μL intra-peritoneal injections of A. hydrophila Grass carp infected 72 h
7. SRR2086474 grass_carp_8 spleen Aeromonas hydrophila 100μL intra-peritoneal injections of A. hydrophila Grass carp infected 8 h