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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Journal ArticleDOI
Ecology and pathology of amphibian ranaviruses.
TL;DR: In as much as ranaviral disease is listed as a notifiable disease by the World Organization for Animal Health and is a threat to amphibian survival, biosecurity precautions are implemented by nations to reduce the likelihood of transporting ranavirus virions among populations.
Book ChapterDOI
Family Iridoviridae: Poor Viral Relations No Longer
TL;DR: The molecular and genetic basis of viral replication, pathogenesis, and immunity are described, and viral ecology is discussed with reference to members from each of the invertebrate and vertebrate genera.
Book ChapterDOI
Distribution and Host Range of Ranaviruses
Amanda L. J. Duffus,Thomas B. Waltzek,Anke C. Stöhr,Matthew C. Allender,Michael Gotesman,Richard Whittington,Paul Hick,Megan K. Hines,Rachel E. Marschang +8 more
TL;DR: FV3 is the type species of the genus Ranavirus, and appears to be the most globally distributed species infecting ectothermic taxonomic across three vertebrate classes.
Journal ArticleDOI
Virus genomes and virus-host interactions in aquaculture animals
Qi-Ya Zhang,Jian-Fang Gui +1 more
TL;DR: The wealth of genetic and genomic information from studies on a diverse range of aquatic viruses is reviewed, and some major advances in the understanding of virus-host interactions in animals used in aquaculture are outlined.
Journal ArticleDOI
The DNA virus Invertebrate iridescent virus 6 is a target of the Drosophila RNAi machinery
Alfred W. Bronkhorst,Koen W. R. van Cleef,Nicolas Vodovar,İkbal Agah İnce,Hervé Blanc,Just M. Vlak,Maria-Carla Saleh,Ronald P. van Rij +7 more
TL;DR: The data indicate that RNAi provides antiviral defense against dsDNA viruses in animals that provides protection against all major classes of viruses.
References
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Journal ArticleDOI
The genome of frog virus 3, an animal DNA virus, is circularly permuted and terminally redundant
TL;DR: It is concluded that the FV3 genome is both circularly permuted and terminally redundant--unique features for an animal virus.
Journal ArticleDOI
Sequence analysis of the complete genome of an iridovirus isolated from the tiger frog.
Jian G. He,Ling Lu,Min Deng,Hua H. He,S. P. Weng,Xiao H. Wang,Song Y. Zhou,Qin X. Long,Xun Z. Wang,Siu M. Chan +9 more
TL;DR: The results from this study indicated that TFV may belong to the genus Ranavirus of the family Iridoviridae.
Journal ArticleDOI
Complete genomic DNA sequence of rock bream iridovirus
Jeong Wan Do,Chang Hoon Moon,Hyo Jeong Kim,Myoung Seok Ko,Sung Bum Kim,Ji Hee Son,Jong-Soo Kim,Eun Jeong An,Min Kyoung Kim,Seung Koo Lee,Myung Shin Han,Seung Ju Cha,Mi Seon Park,Myoung Ae Park,Yi Cheong Kim,Jin-Woo Kim,Jeong Woo Park +16 more
TL;DR: The complete genomic sequence of rock bream iridovirus (RBIV) is reported, andylogenetic analysis of major capsid protein (MCP), DNA repair protein RAD2, and DNA polymerase type-B family indicated that RBIV is closely related to red sea breamIridov virus (RSIV), Grouper sleepy disease iridvirus (GSDIV), Dwarf gourami iridavirus (DGIV), and ISKNV
Journal ArticleDOI
Complete Genome Sequence of Lymphocystis Disease Virus Isolated from China
TL;DR: The unexpected levels of divergence between their genomes in size, gene organization, and gene product identity suggest that LCDV-C and LCDv-1 shouldn't belong to a same species and that LCD-C should be considered a species different from LCD-1.