Whole-genome analysis of coxsackievirus B3 reflects its genetic diversity in China and worldwide
Abstract Background Coxsackievirus B3 (CVB3) has emerged as an active pathogen in myocarditis, aseptic meningitis, hand, foot, and mouth disease (HFMD), and pancreatitis, and is a heavy burden on public health. However, CVB3 has not been systematically analyzed with regard to whole-genome diversity...
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| Format: | Article |
| Language: | English |
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BMC
2022-04-01
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| Series: | Virology Journal |
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| Online Access: | https://doi.org/10.1186/s12985-022-01796-0 |
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| author | Qian Yang Dongmei Yan Yang Song Shuangli Zhu Yun He Zhenzhi Han Dongyan Wang Tianjiao Ji Yong Zhang Wenbo Xu |
| author_facet | Qian Yang Dongmei Yan Yang Song Shuangli Zhu Yun He Zhenzhi Han Dongyan Wang Tianjiao Ji Yong Zhang Wenbo Xu |
| author_sort | Qian Yang |
| collection | DOAJ |
| description | Abstract Background Coxsackievirus B3 (CVB3) has emerged as an active pathogen in myocarditis, aseptic meningitis, hand, foot, and mouth disease (HFMD), and pancreatitis, and is a heavy burden on public health. However, CVB3 has not been systematically analyzed with regard to whole-genome diversity and recombination. Therefore, this study was undertaken to systematically examine the genetic characteristics of CVB3 based on its whole genome. Methods We combined CVB3 isolates from our national HFMD surveillance and global sequences retrieved from GenBank. Phylogenetic analysis was performed to examine the whole genome variety and recombination forms of CVB3 in China and worldwide. Results Phylogenetic analysis showed that CVB3 strains isolated worldwide could be classified into clusters A–E based on the sequence of the entire VP1 region. The predominant CVB3 strains in China belonged to cluster D, whereas cluster E CVB3 might be circulated globally compared to other clusters. The average nucleotide substitution rate in the P1 region of CVB3 was 4.82 × 10–3 substitutions/site/year. Myocarditis was more common with cluster A. Clusters C and D presented more cases of acute flaccid paralysis, and cluster D may be more likely to cause HFMD. Multiple recombination events were detected among CVB3 variants, and there were twenty-three recombinant lineages of CVB3 circulating worldwide. Conclusions Overall, this study provides full-length genomic sequences of CVB3 isolates with a wide geographic distribution over a long-term time scale in China, which will be helpful for understanding the evolution of this pathogen. Simultaneously, continuous surveillance of CVB3 is indispensable to determine its genetic diversity in China as well as worldwide. |
| first_indexed | 2024-12-11T12:35:05Z |
| format | Article |
| id | doaj.art-a0a2ed3431da4465befe07bcf4b0593e |
| institution | Directory Open Access Journal |
| issn | 1743-422X |
| language | English |
| last_indexed | 2024-12-11T12:35:05Z |
| publishDate | 2022-04-01 |
| publisher | BMC |
| record_format | Article |
| series | Virology Journal |
| spelling | doaj.art-a0a2ed3431da4465befe07bcf4b0593e2022-12-22T01:07:09ZengBMCVirology Journal1743-422X2022-04-0119111210.1186/s12985-022-01796-0Whole-genome analysis of coxsackievirus B3 reflects its genetic diversity in China and worldwideQian Yang0Dongmei Yan1Yang Song2Shuangli Zhu3Yun He4Zhenzhi Han5Dongyan Wang6Tianjiao Ji7Yong Zhang8Wenbo Xu9WHO WPRO Regional Polio Reference Laboratory, National Health Commission Key Laboratory for Medical Virology, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and PreventionWHO WPRO Regional Polio Reference Laboratory, National Health Commission Key Laboratory for Medical Virology, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and PreventionWHO WPRO Regional Polio Reference Laboratory, National Health Commission Key Laboratory for Medical Virology, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and PreventionWHO WPRO Regional Polio Reference Laboratory, National Health Commission Key Laboratory for Medical Virology, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and PreventionWHO WPRO Regional Polio Reference Laboratory, National Health Commission Key Laboratory for Medical Virology, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and PreventionWHO WPRO Regional Polio Reference Laboratory, National Health Commission Key Laboratory for Medical Virology, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and PreventionWHO WPRO Regional Polio Reference Laboratory, National Health Commission Key Laboratory for Medical Virology, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and PreventionWHO WPRO Regional Polio Reference Laboratory, National Health Commission Key Laboratory for Medical Virology, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and PreventionWHO WPRO Regional Polio Reference Laboratory, National Health Commission Key Laboratory for Medical Virology, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and PreventionWHO WPRO Regional Polio Reference Laboratory, National Health Commission Key Laboratory for Medical Virology, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and PreventionAbstract Background Coxsackievirus B3 (CVB3) has emerged as an active pathogen in myocarditis, aseptic meningitis, hand, foot, and mouth disease (HFMD), and pancreatitis, and is a heavy burden on public health. However, CVB3 has not been systematically analyzed with regard to whole-genome diversity and recombination. Therefore, this study was undertaken to systematically examine the genetic characteristics of CVB3 based on its whole genome. Methods We combined CVB3 isolates from our national HFMD surveillance and global sequences retrieved from GenBank. Phylogenetic analysis was performed to examine the whole genome variety and recombination forms of CVB3 in China and worldwide. Results Phylogenetic analysis showed that CVB3 strains isolated worldwide could be classified into clusters A–E based on the sequence of the entire VP1 region. The predominant CVB3 strains in China belonged to cluster D, whereas cluster E CVB3 might be circulated globally compared to other clusters. The average nucleotide substitution rate in the P1 region of CVB3 was 4.82 × 10–3 substitutions/site/year. Myocarditis was more common with cluster A. Clusters C and D presented more cases of acute flaccid paralysis, and cluster D may be more likely to cause HFMD. Multiple recombination events were detected among CVB3 variants, and there were twenty-three recombinant lineages of CVB3 circulating worldwide. Conclusions Overall, this study provides full-length genomic sequences of CVB3 isolates with a wide geographic distribution over a long-term time scale in China, which will be helpful for understanding the evolution of this pathogen. Simultaneously, continuous surveillance of CVB3 is indispensable to determine its genetic diversity in China as well as worldwide.https://doi.org/10.1186/s12985-022-01796-0Coxsackievirus B3 (CVB3)GenomeRecombination lineagesGenetic diversity |
| spellingShingle | Qian Yang Dongmei Yan Yang Song Shuangli Zhu Yun He Zhenzhi Han Dongyan Wang Tianjiao Ji Yong Zhang Wenbo Xu Whole-genome analysis of coxsackievirus B3 reflects its genetic diversity in China and worldwide Virology Journal Coxsackievirus B3 (CVB3) Genome Recombination lineages Genetic diversity |
| title | Whole-genome analysis of coxsackievirus B3 reflects its genetic diversity in China and worldwide |
| title_full | Whole-genome analysis of coxsackievirus B3 reflects its genetic diversity in China and worldwide |
| title_fullStr | Whole-genome analysis of coxsackievirus B3 reflects its genetic diversity in China and worldwide |
| title_full_unstemmed | Whole-genome analysis of coxsackievirus B3 reflects its genetic diversity in China and worldwide |
| title_short | Whole-genome analysis of coxsackievirus B3 reflects its genetic diversity in China and worldwide |
| title_sort | whole genome analysis of coxsackievirus b3 reflects its genetic diversity in china and worldwide |
| topic | Coxsackievirus B3 (CVB3) Genome Recombination lineages Genetic diversity |
| url | https://doi.org/10.1186/s12985-022-01796-0 |
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