Bioinformatics analysis of gene network and biological pathways related to white spot disease (WSD) of Pacific white shrimp (Litopenaeus vannamei)

Articles in Press

Document Type : Research Paper

Authors

1 Iranian Shrimp Research Center, Iranian Fisheries Science Research Institute, Agricultural Research, Education & Extension Organization (AREEO), Bushehr, Iran

2 Assistant Professor, Department of Animal Science, Faculty of Agriculture, Shahrekord University, Shahrekord, Iran

10.22124/japb.2024.28614.1554

Abstract

White spot syndrome virus (WSSV) is the cause of white spot disease (WSD), which has caused countless economic losses in the global shrimp farming industry in recent decades. The aim of this research was to identify effective biological pathways and hub genes related to WSD of Pacific white shrimp (Litopenaeus vannamei). Microarray data including 6 samples of hepatopancreas tissue of healthy shrimp and 6 samples of hepatopancreas tissue of shrimp infected with WSSV were extracted from GEO database with accession number GSE4955 and analyzed using GEO2R tool. Then, differential genes with significant expression were determined. STRING online software was used to construct a network between differential genes. Then, the hub genes were identified using the CytoHubba plugin of the Cytoscape software and the maximal clique centrality (MCC) method. The predicted functions of hub genes related to prostaglandin biosynthesis, nuclear factor kappa B (NFKB), mitogen-activated protein kinase (MAPK) and peroxisome proliferator-activated receptor gamma (PPARG). It seems that the biological pathways related to these genes, especially NFKB and MAPK genes, can be useful for identification of biomarkers related to WSD, diagnosing or designing inhibitors against WSD.

Keywords

Main Subjects

Aquatic Physiology and Biotechnology

Articles in Press, Accepted Manuscript
Available Online from 02 December 2024

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