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Study of Complete Genome Sequences of Rotavirus A Epidemics and Evolution in Japan in 2012–2014
A comprehensive molecular epidemiological study using next-generation sequencing technology was conducted on 333 rotavirus A (RVA)-positive specimens collected from six sentinel hospitals across Japan over three consecutive seasons (2012–2014). The majority of the RVA isolates were grouped into five...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Media S.A.
2019
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6365416/ https://www.ncbi.nlm.nih.gov/pubmed/30766516 http://dx.doi.org/10.3389/fmicb.2019.00038 |
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author | Fujii, Yoshiki Doan, Yen Hai Suzuki, Yoshiyuki Nakagomi, Toyoko Nakagomi, Osamu Katayama, Kazuhiko |
author_facet | Fujii, Yoshiki Doan, Yen Hai Suzuki, Yoshiyuki Nakagomi, Toyoko Nakagomi, Osamu Katayama, Kazuhiko |
author_sort | Fujii, Yoshiki |
collection | PubMed |
description | A comprehensive molecular epidemiological study using next-generation sequencing technology was conducted on 333 rotavirus A (RVA)-positive specimens collected from six sentinel hospitals across Japan over three consecutive seasons (2012–2014). The majority of the RVA isolates were grouped into five genotype constellations: Wa-like G1P[8], DS-1-like G1P[8], G2P[4], G3P[8] and G9P[8]. Phylogenetic analysis showed that the distribution of strains varied by geographical locations and epidemic seasons. The VP7 genes of different G types were estimated to evolve at 7.26 × 10(-4)–1.04 × 10(-3) nucleotide substitutions per site per year. The Bayesian time-scaled tree of VP7 showed that the time to the most recent common ancestor of epidemic strains within a region was 1–3 years, whereas that of the epidemic strains across the country was 2–6 years. This study provided, for the first time, the timeframe during which an epidemic strain spread locally and within the country and baseline information needed to predict how rapidly RVAs spread. |
format | Online Article Text |
id | pubmed-6365416 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-63654162019-02-14 Study of Complete Genome Sequences of Rotavirus A Epidemics and Evolution in Japan in 2012–2014 Fujii, Yoshiki Doan, Yen Hai Suzuki, Yoshiyuki Nakagomi, Toyoko Nakagomi, Osamu Katayama, Kazuhiko Front Microbiol Microbiology A comprehensive molecular epidemiological study using next-generation sequencing technology was conducted on 333 rotavirus A (RVA)-positive specimens collected from six sentinel hospitals across Japan over three consecutive seasons (2012–2014). The majority of the RVA isolates were grouped into five genotype constellations: Wa-like G1P[8], DS-1-like G1P[8], G2P[4], G3P[8] and G9P[8]. Phylogenetic analysis showed that the distribution of strains varied by geographical locations and epidemic seasons. The VP7 genes of different G types were estimated to evolve at 7.26 × 10(-4)–1.04 × 10(-3) nucleotide substitutions per site per year. The Bayesian time-scaled tree of VP7 showed that the time to the most recent common ancestor of epidemic strains within a region was 1–3 years, whereas that of the epidemic strains across the country was 2–6 years. This study provided, for the first time, the timeframe during which an epidemic strain spread locally and within the country and baseline information needed to predict how rapidly RVAs spread. Frontiers Media S.A. 2019-01-31 /pmc/articles/PMC6365416/ /pubmed/30766516 http://dx.doi.org/10.3389/fmicb.2019.00038 Text en Copyright © 2019 Fujii, Doan, Suzuki, Nakagomi, Nakagomi and Katayama. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
spellingShingle | Microbiology Fujii, Yoshiki Doan, Yen Hai Suzuki, Yoshiyuki Nakagomi, Toyoko Nakagomi, Osamu Katayama, Kazuhiko Study of Complete Genome Sequences of Rotavirus A Epidemics and Evolution in Japan in 2012–2014 |
title | Study of Complete Genome Sequences of Rotavirus A Epidemics and Evolution in Japan in 2012–2014 |
title_full | Study of Complete Genome Sequences of Rotavirus A Epidemics and Evolution in Japan in 2012–2014 |
title_fullStr | Study of Complete Genome Sequences of Rotavirus A Epidemics and Evolution in Japan in 2012–2014 |
title_full_unstemmed | Study of Complete Genome Sequences of Rotavirus A Epidemics and Evolution in Japan in 2012–2014 |
title_short | Study of Complete Genome Sequences of Rotavirus A Epidemics and Evolution in Japan in 2012–2014 |
title_sort | study of complete genome sequences of rotavirus a epidemics and evolution in japan in 2012–2014 |
topic | Microbiology |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6365416/ https://www.ncbi.nlm.nih.gov/pubmed/30766516 http://dx.doi.org/10.3389/fmicb.2019.00038 |
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