Bioproject ID: PRJNA382308

bioproject id PRJNA382308      to NCBI
key word Chemical; MC-LR; Grass carp; Immune genes and pathways; Liver; Microcystin-LR; RNA-seq; MICROCYSTIN-LR; CTENOPHARYNGODON-IDELLUS; LABORATORY CONDITIONS; ADAPTIVE IMMUNITY; SOCS PROTEINS; ORAL-EXPOSURE; IN-VITRO; EXPRESSION; STRESS; TOOL
experiment type chemical
publication Wei L et al., "Transcriptome analysis of grass carp provides insights into the immune-related genes and pathways in response to MC-LR induction", Aquaculture, 2018; 488(10): 207-216.
description The study shows a systematic overview of the transcriptome analysis in grass carp exposure to MC-LR.
abstract Microcystin-LR (MC-LR), a hepatotoxin, is a potent threat to fish. In this study, we characterized the differential expression of grass carp liver after injected with 25 (T1), 75 (T2) and 100 (T3) μg MC-LR/kg body weight for 96 h. A total of 457 common differentially expressed genes (DEGs) were identified using RNA-Seq between three treated groups (T1, T2 and T3) and control group (C). Of these DEGs, 61, 203 and 129 immune-related genes were regulated in T1 vs. C, T2 vs. C and T3 vs. C, respectively. The significant altered transcript levels, including MHC IIα, IgLC, SOCS3, indicated a disruption of the immune system. Based on GO and KEGG enrichment analysis, among which affected signaling pathways, 24 pathways were immune-related, specifically, “complement and coagulation cascades”, which was highly enriched in three treated groups. The key genes of complement and coagulation cascades, such as Factor III and Factor VIII might be related with the mechanisms of immune toxicology of MC-LR and they could be used as sensitive biomarkers for MC-LR risk assessment. Furthermore, the damages in liver including vacuolar, hemorrhage and loss of nuclei caused by MC-LR have been verified in this study. The present study shows a systematic overview of the transcriptome analysis in grass carp, and the identified important immune-related genes and signaling pathways that will provide useful insights for further analysis of the mechanisms of MC-LR.

Sample Information

sample id sample name tissue strain treatment description
1. SRR5435247 D-96-2 liver not applicable 25 μg MC-LR/kg body weight, replicate 2 25 μg MC-LR/kg body weight, replicate 2
2. SRR5435248 D-96-1 liver not applicable 25 μg MC-LR/kg body weight, replicate 1 25 μg MC-LR/kg body weight, replicate 1
3. SRR5435249 B-96-2 liver not applicable 75 μg MC-LR/kg body weight, replicate 2 75 μg MC-LR/kg body weight, replicate 2
4. SRR5435250 B-96-1 liver not applicable 75 μg MC-LR/kg body weight, replicate 1 75 μg MC-LR/kg body weight, replicate 1
5. SRR5435251 A-96-2 liver not applicable 100 μg MC-LR/kg body weight, replicate 2 100 μg MC-LR/kg body weight, replicate 2
6. SRR5435252 A-96-1 liver not applicable 100 μg MC-LR/kg body weight, replicate 1 100 μg MC-LR/kg body weight, replicate 1
7. SRR5435253 CK-96-2 liver not applicable 0 μg MC-LR/kg body weight (Control), replicate2 0 μg MC-LR/kg body weight (Control), replicate2
8. SRR5435254 CK-96-1 liver not applicable 0 μg MC-LR/kg body weight (Control), replicate2 0 μg MC-LR/kg body weight (Control), replicate2