TY - JOUR
T1 - Limited variation during circulation of a polyomavirus in the human population involves the COCO-VA toggling site of Middle and Alternative T-antigen(s)
AU - Kazem, Siamaque
AU - Lauber, Chris
AU - van der Meijden, Els
AU - Kooijman, Sander
AU - Kravchenko, Alexander A.
AU - Feltkamp, Mariet C.W.
AU - Gorbalenya, Alexander E.
AU - Browning, John C.
AU - Busam, Klaus
AU - Bialasiewicz, Seweryn
AU - Benoit, Taylor
AU - Fleckman, Philip
AU - Hughey, Lauren C.
AU - Janssens, René W.A.
AU - Mechinaud, Francoise
AU - Pope, Elena
AU - Rosenberg, Arlene S.
AU - Raćz, Emoke
AU - Sadler, Genevieve
AU - Tabrizi, Sepehr N.
AU - de Vries, Esther
AU - Wang, Richard C.
AU - the TrichSpin Network
PY - 2016/1/1
Y1 - 2016/1/1
N2 - 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 T-antigens (MT/ALTO). Here we analyzed thirteen, mostly newly sequenced TSPyV genomes, representing ~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.
AB - 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 T-antigens (MT/ALTO). Here we analyzed thirteen, mostly newly sequenced TSPyV genomes, representing ~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.
KW - Alternative T antigen
KW - Codon-constrained Val-Ala (COCO-VA) toggling
KW - Covariation
KW - Intrinsically disordered protein
KW - Middle T antigen
KW - Phylogeny
KW - Polyomavirus
KW - Polyomavirus adaptation to human population
KW - Positive selection
KW - Short linear motif
KW - SLiM
KW - Small T antigen
KW - Trichodysplasia spinulosa-associated polyomavirus
KW - TSPyV
UR - http://www.scopus.com/inward/record.url?scp=84958582198&partnerID=8YFLogxK
U2 - 10.1016/j.virol.2015.09.013
DO - 10.1016/j.virol.2015.09.013
M3 - Article
C2 - 26519899
AN - SCOPUS:84958582198
VL - 487
SP - 129
EP - 140
JO - Virology
JF - Virology
SN - 0042-6822
ER -