NDLI: Exclusive Genomic Pathway Analysis for Groupers Infected by Different Iridovirus

Content Provider	IEEE Xplore Digital Library
Author	Chun-Cheng Liu Chien-Ming Chen Tun-Wen Pai Hsin-Yiu Chou Hui-Huang Hsu
Copyright Year	2015
Description	Author affiliation: Dept. of Aquaculture, Nat. Taiwan Ocean Univ., Keelung, Taiwan (Hsin-Yiu Chou) \|\| Dept. of Comput. Sci. & Eng., Nat. Taiwan Ocean Univ., Keelung, Taiwan (Chun-Cheng Liu; Chien-Ming Chen; Tun-Wen Pai) \|\| Dept. of Comput. Sci. & Inf. Eng., Tamkang Univ., Taiwan (Hui-Huang Hsu)
Abstract	Grouper is one of the most important aquaculture fish in the world. Due to high density of grouper farming, the aquaculture industry is threatened by iridovirus infections in recent years. In this study, we used next-generation sequencing technologies to analyze gene differential expression of groupers infected by two different types of iridoviruses, including Grouper Iridovirus of Taiwan (TGIV) of Megalocytivirus and Grouper Iridovirus (GIV) of Ranavirus. Zebra fish (Danio rerio) was selected as the reference model for gene functional annotations and pathway analyses. According to different fold change levels and identified associated KEGG pathways from defined gene sets, we found exclusive biological characteristics of groupers infected by two different iridoviruses. The results have shown that two specific gene sets, including the first set of PSMB2, CASP3, and U2AF2 for TGIV and the second set of PTGES, PDE3, and THBS1 for GIV were significantly and exclusively expressed. Furthermore, we also found two important pathways, Proteasome and ECM-receptor interaction pathways, were identified by employing gene set/pathway enrichment analysis. These results could facilitate biologists realizing comprehensive gene regulation of groupers infected by different iridoviruses and developing specific vaccines for grouper aquaculture.
Starting Page	508
Ending Page	512
File Size	300685
Page Count	5
File Format	PDF
e-ISBN	9781479988709
DOI	10.1109/CISIS.2015.75
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2015-07-08
Publisher Place	Brazil
Access Restriction	Subscribed
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	Databases Oceans RNA-Seq Genomics pathway groupers Marine animals Bioinformatics Aquaculture iridovirus
Content Type	Text
Resource Type	Article

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