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Characterizing the Core Internal Gene Pool of H9N2 Responsible for Continuous Reassortment With Other Influenza A Viruses

Reassortment among avian influenza viruses is the main source of novel avian influenza virus subtypes. Studies have shown that the H9N2 virus often donates internal segments to generate novel reassortant avian influenza viruses, acting as a reassortment template. However, the characteristics of the...

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Autores principales: Yang, Haoyi, Hu, Mingda, Wang, Boqian, Jin, Yuan, Gong, Xingfei, Liang, Long, Yue, Junjie, Chen, Wei, Ren, Hongguang
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8717948/
https://www.ncbi.nlm.nih.gov/pubmed/34975784
http://dx.doi.org/10.3389/fmicb.2021.751142
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author Yang, Haoyi
Hu, Mingda
Wang, Boqian
Jin, Yuan
Gong, Xingfei
Liang, Long
Yue, Junjie
Chen, Wei
Ren, Hongguang
author_facet Yang, Haoyi
Hu, Mingda
Wang, Boqian
Jin, Yuan
Gong, Xingfei
Liang, Long
Yue, Junjie
Chen, Wei
Ren, Hongguang
author_sort Yang, Haoyi
collection PubMed
description Reassortment among avian influenza viruses is the main source of novel avian influenza virus subtypes. Studies have shown that the H9N2 virus often donates internal segments to generate novel reassortant avian influenza viruses, acting as a reassortment template. However, the characteristics of the internal pattern of reassortment remain unclear. In this article, we first defined the core gene pool of the internal segments of the H9N2 virus that provide templates for reassortment. We used genetic distance and sequence similarity to define typical clusters in the core gene pool. Then, we analyzed the phylogenetic relationships, feature vector distances, geographic distributions and mutation sites of strains related to the core gene pool. Strains in the same typical clusters have close phylogenetic relationships and feature vector distances. We also found that these typical clusters can be divided into three categories according to their main geographic distribution area. Furthermore, typical clusters in the same geographic area contain some common mutation patterns. Our results suggest that typical clusters in the core gene pool affect the reassortment events of the H9N2 virus in many respects, such as geographic distribution and amino acid mutation sites.
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spelling pubmed-87179482021-12-31 Characterizing the Core Internal Gene Pool of H9N2 Responsible for Continuous Reassortment With Other Influenza A Viruses Yang, Haoyi Hu, Mingda Wang, Boqian Jin, Yuan Gong, Xingfei Liang, Long Yue, Junjie Chen, Wei Ren, Hongguang Front Microbiol Microbiology Reassortment among avian influenza viruses is the main source of novel avian influenza virus subtypes. Studies have shown that the H9N2 virus often donates internal segments to generate novel reassortant avian influenza viruses, acting as a reassortment template. However, the characteristics of the internal pattern of reassortment remain unclear. In this article, we first defined the core gene pool of the internal segments of the H9N2 virus that provide templates for reassortment. We used genetic distance and sequence similarity to define typical clusters in the core gene pool. Then, we analyzed the phylogenetic relationships, feature vector distances, geographic distributions and mutation sites of strains related to the core gene pool. Strains in the same typical clusters have close phylogenetic relationships and feature vector distances. We also found that these typical clusters can be divided into three categories according to their main geographic distribution area. Furthermore, typical clusters in the same geographic area contain some common mutation patterns. Our results suggest that typical clusters in the core gene pool affect the reassortment events of the H9N2 virus in many respects, such as geographic distribution and amino acid mutation sites. Frontiers Media S.A. 2021-12-16 /pmc/articles/PMC8717948/ /pubmed/34975784 http://dx.doi.org/10.3389/fmicb.2021.751142 Text en Copyright © 2021 Yang, Hu, Wang, Jin, Gong, Liang, Yue, Chen and Ren. https://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
Yang, Haoyi
Hu, Mingda
Wang, Boqian
Jin, Yuan
Gong, Xingfei
Liang, Long
Yue, Junjie
Chen, Wei
Ren, Hongguang
Characterizing the Core Internal Gene Pool of H9N2 Responsible for Continuous Reassortment With Other Influenza A Viruses
title Characterizing the Core Internal Gene Pool of H9N2 Responsible for Continuous Reassortment With Other Influenza A Viruses
title_full Characterizing the Core Internal Gene Pool of H9N2 Responsible for Continuous Reassortment With Other Influenza A Viruses
title_fullStr Characterizing the Core Internal Gene Pool of H9N2 Responsible for Continuous Reassortment With Other Influenza A Viruses
title_full_unstemmed Characterizing the Core Internal Gene Pool of H9N2 Responsible for Continuous Reassortment With Other Influenza A Viruses
title_short Characterizing the Core Internal Gene Pool of H9N2 Responsible for Continuous Reassortment With Other Influenza A Viruses
title_sort characterizing the core internal gene pool of h9n2 responsible for continuous reassortment with other influenza a viruses
topic Microbiology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8717948/
https://www.ncbi.nlm.nih.gov/pubmed/34975784
http://dx.doi.org/10.3389/fmicb.2021.751142
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