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Norovirus GII.2[P16] strain in Shenzhen, China: a retrospective study

BACKGROUND: Norovirus (NoV) is the main cause of non-bacterial acute gastroenteritis (AGE) outbreaks worldwide. From September 2015 through August 2018, 203 NoV outbreaks involving 2500 cases were reported to the Shenzhen Center for Disease Control and Prevention. METHODS: Faecal specimens for 203 o...

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Autores principales: Wang, Jing, Jin, Miao, Zhang, Hailong, Zhu, Yanan, Yang, Hong, Yao, Xiangjie, Chen, Long, Meng, Jun, Hu, Guifang, He, Yaqing, Duan, Zhaojun
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8556823/
https://www.ncbi.nlm.nih.gov/pubmed/34717565
http://dx.doi.org/10.1186/s12879-021-06746-9
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author Wang, Jing
Jin, Miao
Zhang, Hailong
Zhu, Yanan
Yang, Hong
Yao, Xiangjie
Chen, Long
Meng, Jun
Hu, Guifang
He, Yaqing
Duan, Zhaojun
author_facet Wang, Jing
Jin, Miao
Zhang, Hailong
Zhu, Yanan
Yang, Hong
Yao, Xiangjie
Chen, Long
Meng, Jun
Hu, Guifang
He, Yaqing
Duan, Zhaojun
author_sort Wang, Jing
collection PubMed
description BACKGROUND: Norovirus (NoV) is the main cause of non-bacterial acute gastroenteritis (AGE) outbreaks worldwide. From September 2015 through August 2018, 203 NoV outbreaks involving 2500 cases were reported to the Shenzhen Center for Disease Control and Prevention. METHODS: Faecal specimens for 203 outbreaks were collected and epidemiological data were obtained through the AGE outbreak surveillance system in Shenzhen. Genotypes were determined by sequencing analysis. To gain a better understanding of the evolutionary characteristics of NoV in Shenzhen, molecular evolution and mutations were evaluated based on time-scale evolutionary phylogeny and amino acid mutations. RESULTS: A total of nine districts reported NoV outbreaks and the reported NoV outbreaks peaked from November to March. Among the 203 NoV outbreaks, 150 were sequenced successfully. Most of these outbreaks were associated with the NoV GII.2[P16] strain (45.3%, 92/203) and occurred in school settings (91.6%, 186/203). The evolutionary rates of the RdRp region and the VP1 sequence were 2.1 × 10(–3) (95% HPD interval, 1.7 × 10(–3)–2.5 × 10(–3)) substitutions/site/year and 2.7 × 10(–3) (95% HPD interval, 2.4 × 10(–3)–3.1 × 10(–3)) substitutions/site/year, respectively. The common ancestors of the GII.2[P16] strain from Shenzhen and GII.4 Sydney 2012[P16] diverged from 2011 to 2012. The common ancestors of the GII.2[P16] strain from Shenzhen and previous GII.2[P16] (2010–2012) diverged from 2003 to 2004. The results of amino acid mutations showed 6 amino acid substitutions (*77E, R750K, P845Q, H1310Y, K1546Q, T1549A) were found only in GII.4 Sydney 2012[P16] and the GII.2[P16] recombinant strain. CONCLUSIONS: This study illustrates the molecular epidemiological patterns in Shenzhen, China, from September 2015 to August 2018 and provides evidence that the epidemic trend of GII.2[P16] recombinant strain had weakened and the non-structural proteins of the recombinant strain might have played a more significant role than VP1. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12879-021-06746-9.
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spelling pubmed-85568232021-11-01 Norovirus GII.2[P16] strain in Shenzhen, China: a retrospective study Wang, Jing Jin, Miao Zhang, Hailong Zhu, Yanan Yang, Hong Yao, Xiangjie Chen, Long Meng, Jun Hu, Guifang He, Yaqing Duan, Zhaojun BMC Infect Dis Research Article BACKGROUND: Norovirus (NoV) is the main cause of non-bacterial acute gastroenteritis (AGE) outbreaks worldwide. From September 2015 through August 2018, 203 NoV outbreaks involving 2500 cases were reported to the Shenzhen Center for Disease Control and Prevention. METHODS: Faecal specimens for 203 outbreaks were collected and epidemiological data were obtained through the AGE outbreak surveillance system in Shenzhen. Genotypes were determined by sequencing analysis. To gain a better understanding of the evolutionary characteristics of NoV in Shenzhen, molecular evolution and mutations were evaluated based on time-scale evolutionary phylogeny and amino acid mutations. RESULTS: A total of nine districts reported NoV outbreaks and the reported NoV outbreaks peaked from November to March. Among the 203 NoV outbreaks, 150 were sequenced successfully. Most of these outbreaks were associated with the NoV GII.2[P16] strain (45.3%, 92/203) and occurred in school settings (91.6%, 186/203). The evolutionary rates of the RdRp region and the VP1 sequence were 2.1 × 10(–3) (95% HPD interval, 1.7 × 10(–3)–2.5 × 10(–3)) substitutions/site/year and 2.7 × 10(–3) (95% HPD interval, 2.4 × 10(–3)–3.1 × 10(–3)) substitutions/site/year, respectively. The common ancestors of the GII.2[P16] strain from Shenzhen and GII.4 Sydney 2012[P16] diverged from 2011 to 2012. The common ancestors of the GII.2[P16] strain from Shenzhen and previous GII.2[P16] (2010–2012) diverged from 2003 to 2004. The results of amino acid mutations showed 6 amino acid substitutions (*77E, R750K, P845Q, H1310Y, K1546Q, T1549A) were found only in GII.4 Sydney 2012[P16] and the GII.2[P16] recombinant strain. CONCLUSIONS: This study illustrates the molecular epidemiological patterns in Shenzhen, China, from September 2015 to August 2018 and provides evidence that the epidemic trend of GII.2[P16] recombinant strain had weakened and the non-structural proteins of the recombinant strain might have played a more significant role than VP1. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12879-021-06746-9. BioMed Central 2021-10-30 /pmc/articles/PMC8556823/ /pubmed/34717565 http://dx.doi.org/10.1186/s12879-021-06746-9 Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
spellingShingle Research Article
Wang, Jing
Jin, Miao
Zhang, Hailong
Zhu, Yanan
Yang, Hong
Yao, Xiangjie
Chen, Long
Meng, Jun
Hu, Guifang
He, Yaqing
Duan, Zhaojun
Norovirus GII.2[P16] strain in Shenzhen, China: a retrospective study
title Norovirus GII.2[P16] strain in Shenzhen, China: a retrospective study
title_full Norovirus GII.2[P16] strain in Shenzhen, China: a retrospective study
title_fullStr Norovirus GII.2[P16] strain in Shenzhen, China: a retrospective study
title_full_unstemmed Norovirus GII.2[P16] strain in Shenzhen, China: a retrospective study
title_short Norovirus GII.2[P16] strain in Shenzhen, China: a retrospective study
title_sort norovirus gii.2[p16] strain in shenzhen, china: a retrospective study
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8556823/
https://www.ncbi.nlm.nih.gov/pubmed/34717565
http://dx.doi.org/10.1186/s12879-021-06746-9
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