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The Genomic Diversity and Phylogenetic Relationship in the Family Iridoviridae
Trent University, Peterborough, ON, K9J 7B8, Canada
* Author to whom correspondence should be addressed.
Received: 8 June 2010; in revised form: 12 July 2010 / Accepted: 13 July 2010 / Published: 15 July 2010
Abstract: The Iridoviridae family are large viruses (~120-200 nm) that contain a linear double-stranded DNA genome. The genomic size of Iridoviridae family members range from 105,903 bases encoding 97 open reading frames (ORFs) for frog virus 3 to 212,482 bases encoding 211 ORFs for Chilo iridescent virus. The family Iridoviridae is currently subdivided into five genera: Chloriridovirus, Iridovirus, Lymphocystivirus, Megalocytivirus, and Ranavirus. Iridoviruses have been found to infect invertebrates and poikilothermic vertebrates, including amphibians, reptiles, and fish. With such a diverse array of hosts, there is great diversity in gene content between different genera. To understand the origin of iridoviruses, we explored the phylogenetic relationship between individual iridoviruses and defined the core-set of genes shared by all members of the family. In order to further explore the evolutionary relationship between the Iridoviridae family repetitive sequences were identified and compared. Each genome was found to contain a set of unique repetitive sequences that could be used in future virus identification. Repeats common to more than one virus were also identified and changes in copy number between these repeats may provide a simple method to differentiate between very closely related virus strains. The results of this paper will be useful in identifying new iridoviruses and determining their relationship to other members of the family.
Keywords: Iridoviridae; evolution; repetitive sequences
- Supplementary File 1:
Supplementary figure 1: Flanking regions of Ranavirus and Megalovirus repeats are highly conserved
(PDF, 361 KB)
- Supplementary File 2:
Supplementary table 1: Unique repeats found in FV3, STIV, TFV, EHNV, and ATV
(XLS, 102 KB)
- Supplementary File 3:
Supplementary table 2: Conserved and unique repeats found in GIV and SGIV
(XLS, 33 KB)
- Supplementary File 4:
Supplementary table 3: Conserved and unique repeats found in OSGIV, RBIV, and ISKNV
(XLS, 34 KB)
- Supplementary File 5:
Supplementary table 4: Unique repeats found in LCDV-1 and LCDV-C
(XLS, 20 KB)
- Supplementary File 6:
Supplementary table 5: Unique repeats found in IIV-3
(XLS, 56 KB)
- Supplementary File 7:
Supplementary table 6: Unique repeats found in IIV-3
(XLS, 54 KB)
- Supplementary File 8:
Supplementary table 7: Repeats of all sequenced iridoviruses of with less than 95% match identity
(XLS, 258 KB)
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Cite This Article
MDPI and ACS Style
Eaton, H.E.; Ring, B.A.; Brunetti, C.R. The Genomic Diversity and Phylogenetic Relationship in the Family Iridoviridae. Viruses 2010, 2, 1458-1475.
Eaton HE, Ring BA, Brunetti CR. The Genomic Diversity and Phylogenetic Relationship in the Family Iridoviridae. Viruses. 2010; 2(7):1458-1475.
Eaton, Heather E.; Ring, Brooke A.; Brunetti, Craig R. 2010. "The Genomic Diversity and Phylogenetic Relationship in the Family Iridoviridae." Viruses 2, no. 7: 1458-1475.