Molecular systematics of sturgeon nucleocytoplasmic large DNA viruses

DNA polymerase B elongation subunit. [Display omitted] •NV is a member of the Mimiviridae family and shares a common ancestor with CroV.•Sturgeon NCLDV form a cohesive monophyletic group comprised of four lineages.•Congruent evolutionary relationships for NV were obtained with 9 orthologous proteins...

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Published in:Molecular phylogenetics and evolution Vol. 128; pp. 26 - 37
Main Authors: Clouthier, Sharon, Anderson, Eric, Kurath, Gael, Breyta, Rachel
Format: Journal Article
Language:English
Published: United States Elsevier Inc 01.11.2018
Subjects:
Acipenser fulvescens
adenosinetriphosphatase
Animals
Bayes Theorem
Bayesian inference
Bayesian theory
coat proteins
data collection
DNA
DNA Viruses - classification
DNA Viruses - genetics
DNA-directed DNA polymerase
DNA-directed RNA polymerase
Fishes - virology
genes
integumentary system
messenger RNA
Mimiviridae
molecular systematics
monophyly
Namao virus
nucleotide sequences
Phylogeny
polyphyly
ribonucleotide reductase
statistical analysis
sturgeon
Sturgeon NCLDV
Systematics
topology
transcription factors
viruses
Systematics
Namao virus
Bayesian inference
Sturgeon NCLDV
Mimiviridae
ISSN:1055-7903, 1095-9513, 1095-9513
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Summary:DNA polymerase B elongation subunit. [Display omitted] •NV is a member of the Mimiviridae family and shares a common ancestor with CroV.•Sturgeon NCLDV form a cohesive monophyletic group comprised of four lineages.•Congruent evolutionary relationships for NV were obtained with 9 orthologous proteins.•Stable tree topologies with datasets differing in sequence, sequence length and taxa.•NV sequence dataset encodes orthologues of Mimivirus-specific proteins. Namao virus (NV) is a sturgeon nucleocytoplasmic large DNA virus (sNCLDV) that can cause a lethal disease of the integumentary system in lake sturgeon Acipenser fulvescens. As a group, the sNCLDV have not been assigned to any currently recognized taxonomic family of viruses. In this study, a data set of NV DNA sequences was generated and assembled as two non-overlapping contigs of 306,448 bp and then used to conduct a comprehensive systematics analysis using Bayesian inference of phylogeny for NV, other sNCLDV and representative members of six families of the NCLDV superfamily. The phylogeny of NV was reconstructed using protein homologues encoded by nine nucleocytoplasmic virus orthologous genes (NCVOGs): NCVOG0022 – mcp, NCVOG0038 – DNA polymerase B elongation subunit, NCVOG0076 – VV A18-type helicase, NCVOG0249 – VV A32-type ATPase, NCVOG0262 – AL2 VLTF3-like transcription factor, NCVOG0271 – RNA polymerase II subunit II, NCVOG0274 – RNA polymerase II subunit I, NCVOG0276 – ribonucleotide reductase small subunit and NCVOG1117 – mRNA capping enzyme. The accuracy of our phylogenetic method was evaluated using a combination of Bayesian statistical analysis and congruence analysis. Stable tree topologies were obtained with data sets differing in target molecule(s), sequence length and taxa. Congruent topologies were obtained in phylogenies constructed using individual protein data sets. The major capsid protein phylogeny inferred that ten representative sNCLDV form a monophyletic group comprised of four lineages within a polyphyletic Mimi-Phycodnaviridae group of taxa. Overall, the analyses revealed that Namao virus is a member of the Mimiviridae family with strong and consistent support for a clade containing NV and CroV as sister taxa.
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ISSN:1055-7903
1095-9513
1095-9513
DOI:10.1016/j.ympev.2018.07.019