Comparative genomic analysis of the family Iridoviridae : re-annotating and defining the core set of iridovirus genes
TLDR
The re-analysis of genomes within the Iridoviridae family provides a unifying framework to understand the biology of these viruses, and further re-defining the core set of iridovirus genes will continue to lead to a better understanding of the phylogenetic relationships between individual irids.Abstract:
Members of the family Iridoviridae can cause severe diseases resulting in significant economic and environmental losses. Very little is known about how iridoviruses cause disease in their host. In the present study, we describe the re-analysis of the Iridoviridae family of complex DNA viruses using a variety of comparative genomic tools to yield a greater consensus among the annotated sequences of its members. A series of genomic sequence comparisons were made among, and between the Ranavirus and Megalocytivirus genera in order to identify novel conserved ORFs. Of these two genera, the Megalocytivirus genomes required the greatest number of altered annotations. Prior to our re-analysis, the Megalocytivirus species orange-spotted grouper iridovirus and rock bream iridovirus shared 99% sequence identity, but only 82 out of 118 potential ORFs were annotated; in contrast, we predict that these species share an identical complement of genes. These annotation changes allowed the redefinition of the group of core genes shared by all iridoviruses. Seven new core genes were identified, bringing the total number to 26. Our re-analysis of genomes within the Iridoviridae family provides a unifying framework to understand the biology of these viruses. Further re-defining the core set of iridovirus genes will continue to lead us to a better understanding of the phylogenetic relationships between individual iridoviruses as well as giving us a much deeper understanding of iridovirus replication. In addition, this analysis will provide a better framework for characterizing and annotating currently unclassified iridoviruses.read more
Citations
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The Insights of Genomic Synteny and Codon Usage Preference on Genera Demarcation of Iridoviridae Family.
Deng Zhaobin,Jun Wang,Wenjie Zhang,Yi Geng,Mingde Zhao,Congwei Gu,Lu Fu,Manli He,Qihai Xiao,Wudian Xiao,Lvqin He,Qian Yang,Jianhong Han,Xuefeng Yan,Zehui Yu +14 more
TL;DR: In this article, the authors redetermined 23 Iridoviridae core genes by re-annotation, core-pan analysis and local BLASTN search, and the phylogenetic tree based on the 23 re-annotated core genes (Maximum Likelihood, ML-Tree) and amino acid sequences (composition vector, CV-tree) were found consistent with previous reports.
Journal ArticleDOI
Iridovirus isolated from marine giant sea perch causes infection in freshwater ornamental fish
TL;DR: In this article , an iridovirus was isolated from farmed giant sea perch (Lates calcarifer) and identified as a grouper IRV of Taiwan (TGIV) belonging to the genus Megalocytivirus.
Journal ArticleDOI
A mandarinfish Siniperca chuatsi infection and vaccination model for SDDV and efficacy evaluation of the formalin-killed cell vaccine in yellowfin seabream Acanthopagrus latus
Yuting Fu,Yong Li,Jiaming Chen,Fangzhao Yu,Xiangrong Liu,Weixuan Fu,Hongrun Pan,Wangdong Li,Shaoping Weng,Jianguo He,Chuanfu Dong +10 more
TL;DR: In this article , a mandarinfish Siniperca chuatsi infection and vaccination model for scale drop disease virus (SDDV) was established, and the effectiveness of SDDV FKC vaccine was evaluated by immunizing 11,520 and 1038 yellowfin seabream and >90% protective effects were observed in both individual tests at 30 days post vaccination.
Journal ArticleDOI
An examination of the Iridovirus core genes for reconstructing Ranavirus phylogenies
D.R. Ballard,A.J. Davis,Riley B. Fuller,A.R. Garner,Amanda D. Mileham,J.D. Serna,D.E. Brue,Cori M. Harding,C. D. Dodgen,W. Culpepper,Bridget Piatt,S.E. Rosario,Amanda L. J. Duffus +12 more
TL;DR: Six species of ranaviruses are globally emerging infections of poikilothermic vertebrates and belong to the viral family Iridoviridae.
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