ArticleJournal of molecular evolution2006
Evolution of BK virus based on complete genome data.
Article in Journal of molecular evolution, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed, 55 citations in OpenAlex.
- Neutralization serotyping of BK polyomavirus infection in kidney transplant recipients.PLoS pathogens · 2012Trial
- Genetic Diversity of BK Polyomavirus Among Renal Transplant Recipients in Yunnan, China.Biochemical genetics · 2026Article
- Molecular characterization of BK virus detected in renal transplant patients in Sri Lanka: a preliminary study.The Indian journal of medical research · 2022Article
- BK Polyomavirus bkv-miR-B1-5p: A Stable Micro-RNA to Monitor Active Viral Replication after Kidney Transplantation.International journal of molecular sciences · 2022Article
- The prevalence and isolated subtypes of BK polyomavirus reactivation among patients infected with human immunodeficiency virus-1 in southeastern China.Archives of virology · 2018Article
- Detection of Human Polyomavirus DNA Using the Genome Profiling Method.The open virology journal · 2015Article
- BK polyomavirus genotypes represent distinct serotypes with distinct entry tropism.Journal of virology · 2013Article
- Human polyomavirus reactivation: disease pathogenesis and treatment approaches.Clinical & developmental immunology · 2013Review
- Efficient propagation of archetype BK and JC polyomaviruses.Virology · 2012Article
- Using time-structured data to estimate evolutionary rates of double-stranded DNA viruses.Molecular biology and evolution · 2010Article
- Multiplex real-time PCR assay for simultaneous quantification of BK polyomavirus, JC polyomavirus, and adenovirus DNA.Journal of clinical microbiology · 2010Article
- Mutations in the external loops of BK virus VP1 and urine viral load in renal transplant recipients.Journal of cellular physiology · 2010Article
- Biologic diversity of polyomavirus BK genomic sequences: Implications for molecular diagnostic laboratories.Journal of medical virology · 2008Article
- Marked variability of BK virus load measurement using quantitative real-time PCR among commonly used assays.Journal of clinical microbiology · 2008Article
- Occurrence of the European subgroup of subtype I BK polyomavirus in Japanese-Americans suggests transmission outside the family.Journal of virology · 2007Article
- An Asian origin for subtype IV BK virus based on phylogenetic analysis.Journal of molecular evolution · 2007Article
- Age-related urinary excretion of BK polyomavirus by nonimmunocompromised individuals.Journal of clinical microbiology · 2007Article
Corrections and comments
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Authors and funding
8 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The human polyomavirus BK virus (BKV) is ubiquitous in humans, infecting children asymptomatically. BKV is the only primate polyomavirus that has subtypes (I-IV) distinguishable by immunological reactivity. Nucleotide (nt) variations in a major capsid protein (VP1) gene region (designated the epitope region), probably responsible for antigenic diversity, have been used to classify BKV isolates into subtypes. Here, with all the protein-encoding gene sequences, we attempted to elucidate the evolutionary relationships among 28 BKV isolates belonging to subtypes I, III, and IV (no isolate belonging to subtype II, a minor one, was included). First, using the GTR + Gamma + I model, maximum likelihood trees were reconstructed for individual viral genes as well as for concatenated viral genes. On the resultant trees, the 28 BKV isolates were consistently divided into three clades corresponding to subtypes I, III, and IV, although bootstrap probabilities are not always high. Then we used more sophisticated likelihood models, one of which takes account of codon structure, to elucidate the phylogenetic relationships among BKV subtypes, but the phylogeny of the deep branchings remained ambiguous. Furthermore, the possibility of positive selection in the evolution of BKV was examined using the nonsynonymous/synonymous rate ratio as a measure of selection. An analysis based on entire genes could not detect any strong evidence for positive selection, but that based on the epitope region identified a few sites potentially under positive selection (these sites were among those showing subtype linked polymorphisms).
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.