Transcriptome analysis of Macrobrachium rosenbergii intestines under the white spot syndrome virus and poly (I:C) challenges

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.

Comparative Transcriptome Analysis of Gonads for the Identification of Sex-Related Genes in Giant Freshwater Prawns (Macrobrachium Rosenbergii) Using RNA Sequencing

“…In M. rosenbergii, See et al have developed microsatellite markers to evaluate genetic diversity [72]. Using the high throughput sequencing, it is feasible to detect and discover the large numbers of SSRs [37,73]. Correspondingly, the SSRs identified in the present study could serve as genetic markers for further QTL mapping and marker-assisted selection (MAS) in M. rosenbergii.…”

The Single-molecule long-read sequencing of Scylla paramamosain

“…olivacea 34 , Carcinus maenas 35,36 , Gecarcinus lateralis 37–41 , P . sanguinolentus 42 , Charybdis feriatus 43 , Litopenaeus vannamei 44–48 , Macrobrachium rosenbergii 49–52 , M . nipponense 53,54 , Exopalaemon carinicauda 55–57 , Oratosquilla oratoria 58–60 , Homarus americanus 61 , and so on.…”

Transcriptomic analysis of Macrobrachium rosenbergii (giant fresh water prawn) post-larvae in response to M. rosenbergii nodavirus (MrNV) infection: de novo assembly and functional annotation

“…However, according to Blastx results against Nr-Arthropod database, majority of the top hits were matched to crustacean species, Hyalella Azteca . Previous transcriptomic studies of M.rosenbergii performed de novo assembly separately from each sample and then clustered into a global transcriptome [30–33]. In this study, all read data were merged before the assembly, resulting in an increase in the abundance of low expressed transcripts, therefore increasing coverage of the assembled transcripts [39].…”

“…There are transcriptomic studies for penaeid shrimps such as Peneaus monodon [19–21], Litopeneaus vannamei [22–24], Fenneropeneaus chinensis [25, 26], Fenneropenaeus merguiensis [27, 28], and Marsupeneaus japonicus [29] to investigate tissue-specific expression, the stress response, and viral infection. Moreover, many studies have been performed on whole transcriptome sequencing of the hepatopancreas of M. rosenbergii in response to Vibrio parahaemolyticus infection [30], hepatopancreas and lymphoid organ in response to white spot syndrome virus (WSSV) [31, 32], and intestinal tissue in response to WSSV or the viral PAMP mimic (poly I:C) [33]. Most recently, transcriptomic analysis of hematopoietic tissue of M. rosenbergii adult prawn in response to Mr NV infection has been studied [34].…”