Complete sequence determination of a novel reptile iridovirus isolated from soft-shelled turtle and evolutionary analysis of Iridoviridae

Huang, Youhua; Huang, Xiaohong; Liu, Hong; Gong, Jie; Ouyang, Zhangxian; Cui, Huachun; Cao, Jianhao; Zhao, Ying-Tao; Wang, Xiu‐Jie; Jiang, Yulin; Qin, Qiwei

doi:10.1186/1471-2164-10-224

Cited by 118 publications

(103 citation statements)

References 58 publications

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“…As was showed by dot plot analysis, RGV is most closely related to STIV and clusters with ranaviruses with high support, confirming that RGV is a member of the genus Ranavirus. It was also observed that ranaviruses of other subgroups clustered together, i.e., FV3-like viruses (RGV, STIV, FV3, TFV), ATV-like viruses (ATV and EHNV), and GIV-like viruses (SGIV and GIV), which is consistent with previous studies [2,11,35].…”

supporting

confidence: 81%

“…There is evidence that the ancestral ranavirus was a fish virus and that several recent host shifts have taken place, with subsequent speciation of viruses in their new hosts [11]. Indeed, there is also evidence that ranaviruses switched hosts from tiger salamanders to freshwater sport fish during bait trade [37].…”

mentioning

confidence: 99%

“…These include lymphocystis disease virus 1 (LCDV-1) and lymphocystis disease virus-China (LCDV-C), belonging to the genus Lymphocystivirus, and infectious spleen and kidney necrosis virus (ISKNV), rock bream iridovirus (RBIV), turbot reddish body iridovirus (TRBIV), and other viruses, belonging to the genus Megalocytivirus that can infect fish species. Iridoviruses of the genus Ranavirus, including frog virus 3 (FV3), soft-shelled turtle iridovirus (STIV), epizootic hematopoietic necrosis virus (EHNV), and other viruses can infect amphibians, fish and reptiles [5][6][7][8][9][10][11][12].…”

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confidence: 99%

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Sequencing and analysis of the complete genome of Rana grylio virus (RGV)

Zhu

et al. 2012

Arch Virol

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Infection with Rana grylio virus (RGV), an iridovirus isolated in China in 1995, resulted in a high mortality rate in frogs. The complete genome sequence of RGV was determined and analyzed. The genomic DNA was 105,791 bp long, with 106 open reading frames (ORFs). Dot plot analysis showed that the gene order of RGV shared colinearity with three completely sequenced ranaviruses. A phylogenetic tree was constructed based on concatenated sequences of iridovirus 26 core-gene-encoded proteins, and the result showed high bootstrap support for RGV being a member of the genus Ranavirus and that iridoviruses of other genera also clustered closely. A microRNA (miRNA) prediction revealed that RGV could encode 18 mature miRNAs, many of which were located near genes associated with virus replication. Thirty-three repeated sequences were found in the RGV genome. These results provide insight into the genetic nature of RGV and are useful for laboratory diagnosis for vertebrate iridoviruses.

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supporting

confidence: 81%

mentioning

confidence: 99%

mentioning

confidence: 99%

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Sequencing and analysis of the complete genome of Rana grylio virus (RGV)

Zhu

et al. 2012

Arch Virol

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“…RNase III was identified in purified virus particles and infected cells by our proteomic experiments (Table 2; see also Tables S1 and S3 in the supplemental material) and was previously identified in particles of SGIV (31), confirming that this protein is produced and, hence, likely to have a role in IV replication. miRNA has also been predicted for soft-shelled turtle iridovirus (STIV) (18), and the presence of miRNAs has recently been confirmed for SGIV (44).…”

Section: Resultsmentioning

confidence: 99%

Genomic and Proteomic Analysis of Invertebrate Iridovirus Type 9

Wong

Young

Kleffmann

et al. 2011

J Virol

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Iridoviruses (IV) are nuclear cytoplasmic large DNA viruses that are receiving increasing attention as sublethal pathogens of a range of insects. Invertebrate iridovirus type 9 (IIV-9; Wiseana iridovirus) is a member of the major phylogenetic group of iridoviruses for which there is very limited genomic and proteomic information. The genome is 205,791 bp, has a G؉C content of 31%, and contains 191 predicted genes, with approximately 20% of its repeat sequences being located predominantly within coding regions. The repeated sequences include 11 proteins with helix-turn-helix motifs and genes encoding related tandem repeat amino acid sequences. Of the 191 proteins encoded by IIV-9, 108 are most closely related to orthologs in IIV-3 (Chloriridovirus genus), and 114 of the 126 IIV-3 genes have orthologs in IIV-9. In contrast, only 97 of 211 IIV-6 genes have orthologs in IIV-9. There is almost no conservation of gene order between IIV-3, IIV-6, and IIV-9. Phylogenetic analysis using a concatenated sequence of 26 core IV genes confirms that IIV-3 is more closely related to IIV-9 than to IIV-6, despite being from a different genus of the Iridoviridae. An interaction between IIV and small RNA regulatory systems is supported by the prediction of seven putative microRNA (miRNA) sequences combined with XRN exonuclease, RNase III, and double-stranded RNA binding activities encoded on the genome. Proteomic analysis of IIV-9 identified 64 proteins in the virus particle and, when combined with infected cell analysis, confirmed the expression of 94 viral proteins. This study provides the first full-genome and consequent proteomic analysis of group II IIV.

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“…As an aquatic virus, iridovirus was increasingly taken into account because it caused heavy economic losses in farmed food and ornamental fish, as well as posed great threat to wildlife conservation. The researches about iridovirus focused on complete sequence determination (Eaton et al, 2007;Huang et al, 2009;Jancovich et al, 2010;Shi et al, 2010;Wong et al, 2011;Zhang et al, 2004), transcriptome and proteome analysis Dang et al, 2007;Ince et al, 2010;Luo et al, 2009;Majji et al, 2009;Song et al, 2006) and individual gene identification (Ao and Chen, 2006;Lin et al, 2008;Wan et al, 2010;Wang et al, 2008;Zhao et al, 2007Zhao et al, , 2008b, such as RGV thymidine kinase (TK) gene and envelope protein 53R. TK gene, an early gene of RGV, exists in many large DNA viruses and encodes a cytoplasmic protein .…”

Section: Introductionmentioning

confidence: 99%