Journal
VIROLOGY
Volume 487, Issue -, Pages 129-140Publisher
ACADEMIC PRESS INC ELSEVIER SCIENCE
DOI: 10.1016/j.virol.2015.09.013
Keywords
Codon-constrained Val-Ala (COCO-VA) toggling; Covariation; Intrinsically disordered protein; Middle T antigen; Small T antigen; Alternative T antigen; Phylogeny; Polyomavirus; Polyomavirus adaptation to human population; Positive selection; Short linear motif; SLiM; Trichodysplasia spinulosa-associated polyomavirus; TSPyV
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Funding
- Leiden University Medical Center, The Netherlands
- Leiden University Fund
- Moscow State University (MoBiLe)
- Leiden University Medical Center
- NATIONAL CANCER INSTITUTE [K08CA164047] Funding Source: NIH RePORTER
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We have recently shown that the trichodysplasia spinulosa-associated polyomavirus (TSPyV) belongs to a large monophyletic group of mammalian polyomaviruses that experienced accelerated codon-constrained Val-Ala (COCO-VA) toggling at a protein site common to both Middle and Alternative Tantigens (MT/ALTO). Here we analyzed thirteen, mostly newly sequenced TSPyV genomes, representing similar to 40% of reported TS disease cases world-wide. We found two deletions and 30 variable sites (<= 0.6%) that included only four sites with non-synonymous substitutions (NSS). One NSS site was under positive selection in the exon shared by Small and Middle T antigens, while three others were segregated in MT/ALTO. Two MT/ALTO sites covaried with five sites elsewhere in the genome and determined separation of twelve TSPyVs into two most populous phylogenetic lineages. The other, most distant TSPyV was distinguished by NSS at the COCO-VA site, observed for the first time during intra-species evolution. Our findings reveal a connection between micro- and macro-evolution of polyomaviruses. (C) 2015 Elsevier Inc. All rights reserved.
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