Molecular epidemiology and phylodynamics of the human respiratory syncytial virus fusion protein in northern Taiwan.
BACKGROUND AND AIMS: The glycoprotein (G protein) and fusion protein (F protein) of respiratory syncytial virus (RSV) both show genetic variability, but few studies have examined the F protein gene. This study aimed to characterize the molecular epidemiology and phylodynamics of the F protein gene i...
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| Format: | Article |
| Language: | English |
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Public Library of Science (PLoS)
2013-01-01
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| Series: | PLoS ONE |
| Online Access: | http://europepmc.org/articles/PMC3667090?pdf=render |
| _version_ | 1828377582588919808 |
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| author | Hsin Chi Hsin-Fu Liu Li-Chuan Weng Nai-Yu Wang Nan-Chang Chiu Mei-Ju Lai Yung-Cheng Lin Yu-Ying Chiu Wen-Shyang Hsieh Li-Min Huang |
| author_facet | Hsin Chi Hsin-Fu Liu Li-Chuan Weng Nai-Yu Wang Nan-Chang Chiu Mei-Ju Lai Yung-Cheng Lin Yu-Ying Chiu Wen-Shyang Hsieh Li-Min Huang |
| author_sort | Hsin Chi |
| collection | DOAJ |
| description | BACKGROUND AND AIMS: The glycoprotein (G protein) and fusion protein (F protein) of respiratory syncytial virus (RSV) both show genetic variability, but few studies have examined the F protein gene. This study aimed to characterize the molecular epidemiology and phylodynamics of the F protein gene in clinical RSV strains isolated in northern Taiwan from 2000-2011. METHODS: RSV isolates from children presenting with acute respiratory symptoms between July 2000 and June 2011 were typed based on F protein gene sequences. Phylogeny construction and evaluation were performed using the neighbor-joining (NJ) and maximum likelihood (ML) methods. Phylodynamic patterns in RSV F protein genes were analyzed using the Bayesian Markov Chain Monte Carlo framework. Selection pressure on the F protein gene was detected using the Datamonkey website interface. RESULTS: From a total of 325 clinical RSV strains studied, phylogenetic analysis showed that 83 subgroup A strains (RSV-A) could be further divided into three clusters, whereas 58 subgroup B strains (RSV-B) had no significant clustering. Three amino acids were observed to differ between RSV-A and -B (positions 111, 113, and 114) in CTL HLA-B*57- and HLA-A*01-restricted epitopes. One positive selection site was observed in RSV-B, while none was observed in RSV-A. The evolution rate of the virus had very little change before 2000, then slowed down between 2000 and 2005, and evolved significantly faster after 2005. The dominant subtypes of RSV-A in each epidemic were replaced by different subtypes in the subsequent epidemic. CONCLUSIONS: Before 2004, RSV-A infections were involved in several small epidemics and only very limited numbers of strains evolved and re-emerged in subsequent years. After 2005, the circulating RSV-A strains were different from those of the previous years and continued evolving through 2010. Phylodynamic pattern showed the evolutionary divergence of RSV increased significantly in the recent 5 years in northern Taiwan. |
| first_indexed | 2024-04-14T08:14:51Z |
| format | Article |
| id | doaj.art-31629899ec6645ca9ea6f31b18a5329a |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2024-04-14T08:14:51Z |
| publishDate | 2013-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj.art-31629899ec6645ca9ea6f31b18a5329a2022-12-22T02:04:26ZengPublic Library of Science (PLoS)PLoS ONE1932-62032013-01-0185e6401210.1371/journal.pone.0064012Molecular epidemiology and phylodynamics of the human respiratory syncytial virus fusion protein in northern Taiwan.Hsin ChiHsin-Fu LiuLi-Chuan WengNai-Yu WangNan-Chang ChiuMei-Ju LaiYung-Cheng LinYu-Ying ChiuWen-Shyang HsiehLi-Min HuangBACKGROUND AND AIMS: The glycoprotein (G protein) and fusion protein (F protein) of respiratory syncytial virus (RSV) both show genetic variability, but few studies have examined the F protein gene. This study aimed to characterize the molecular epidemiology and phylodynamics of the F protein gene in clinical RSV strains isolated in northern Taiwan from 2000-2011. METHODS: RSV isolates from children presenting with acute respiratory symptoms between July 2000 and June 2011 were typed based on F protein gene sequences. Phylogeny construction and evaluation were performed using the neighbor-joining (NJ) and maximum likelihood (ML) methods. Phylodynamic patterns in RSV F protein genes were analyzed using the Bayesian Markov Chain Monte Carlo framework. Selection pressure on the F protein gene was detected using the Datamonkey website interface. RESULTS: From a total of 325 clinical RSV strains studied, phylogenetic analysis showed that 83 subgroup A strains (RSV-A) could be further divided into three clusters, whereas 58 subgroup B strains (RSV-B) had no significant clustering. Three amino acids were observed to differ between RSV-A and -B (positions 111, 113, and 114) in CTL HLA-B*57- and HLA-A*01-restricted epitopes. One positive selection site was observed in RSV-B, while none was observed in RSV-A. The evolution rate of the virus had very little change before 2000, then slowed down between 2000 and 2005, and evolved significantly faster after 2005. The dominant subtypes of RSV-A in each epidemic were replaced by different subtypes in the subsequent epidemic. CONCLUSIONS: Before 2004, RSV-A infections were involved in several small epidemics and only very limited numbers of strains evolved and re-emerged in subsequent years. After 2005, the circulating RSV-A strains were different from those of the previous years and continued evolving through 2010. Phylodynamic pattern showed the evolutionary divergence of RSV increased significantly in the recent 5 years in northern Taiwan.http://europepmc.org/articles/PMC3667090?pdf=render |
| spellingShingle | Hsin Chi Hsin-Fu Liu Li-Chuan Weng Nai-Yu Wang Nan-Chang Chiu Mei-Ju Lai Yung-Cheng Lin Yu-Ying Chiu Wen-Shyang Hsieh Li-Min Huang Molecular epidemiology and phylodynamics of the human respiratory syncytial virus fusion protein in northern Taiwan. PLoS ONE |
| title | Molecular epidemiology and phylodynamics of the human respiratory syncytial virus fusion protein in northern Taiwan. |
| title_full | Molecular epidemiology and phylodynamics of the human respiratory syncytial virus fusion protein in northern Taiwan. |
| title_fullStr | Molecular epidemiology and phylodynamics of the human respiratory syncytial virus fusion protein in northern Taiwan. |
| title_full_unstemmed | Molecular epidemiology and phylodynamics of the human respiratory syncytial virus fusion protein in northern Taiwan. |
| title_short | Molecular epidemiology and phylodynamics of the human respiratory syncytial virus fusion protein in northern Taiwan. |
| title_sort | molecular epidemiology and phylodynamics of the human respiratory syncytial virus fusion protein in northern taiwan |
| url | http://europepmc.org/articles/PMC3667090?pdf=render |
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