Abstract
Intestine is a primary site of the white spot syndrome virus (WSSV) infection in most crustaceans. To date, little is known about its role in the anti-viral immune response in the freshwater prawn Macrobrachium rosenbergii. In this study, next-generation sequencing was employed to investigate the M. rosenbergii intestine transcriptomes following WSSV or poly I:C challenges. A total of 41.06 M, 39.58 M and 47.00 M clean reads were generated and assembled into 65,340, 71,241 and 70,614 transcripts from the negative control group (NG), WSSV challenge group (WG) and poly I:C treatment group (PG) respectively. Based on homology searches, functional annotation with 7 databases (NR, NT, GO, COG, KEGG, Swissprot and Interpro) for 88,412 transcripts was performed. After WSSV or poly (I:C) challenge, the numbers of up-regulated differentially expressed genes (DEGs) were greater than the down-regulated DEGs. Gene Ontology (GO) classification of the DEGs also distributed similarly, with the same top 10 annotations and were all assigned to the signaling pathways, including spliceosome, Rap1 signaling pathway, proteoglycans, PI3K-Akt signaling pathway, ECM receptor interaction. Results could contribute to a better understanding of the intestinal immune response to viral pathogens.
Highlights
Viral diseases are thorns that affect the side of the crustacean aquaculture industry
Putative simple sequence repeats (SSRs) and single nucleotide polymorphisms (SNPs) were analyzed. These results provided the first experimental access to M. rosenbergii intestine-specific genes involved in the anti-viral intestine immune response and could serve as the basis for additional in-depth molecular and genomic analyses
They were randomly sampled and tested by polymerase chain reaction (PCR) to ensure they were free from white spot syndrome virus (WSSV) [7]
Summary
Viral diseases are thorns that affect the side of the crustacean aquaculture industry. The white spot syndrome virus (WSSV) stands out as the most devastating, causing high mortality and severe economic losses in the crustacean aquaculture industry throughout the world [1]. Almost all decapod crustaceans, including shrimps, crayfish, crab, spiny lobsters and freshwater prawns, are considered susceptible to this virus [2]. The relevance of the viral pathogen and diverse hosts still remain to be revealed. The freshwater prawn, Macrobrachium rosenbergii, is an economically important crustacean, being cultured on a largescale in different.
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