Adaptive evolution of proteins in hepatitis B virus during divergence of genotypes
Abstract Hepatitis B virus (HBV) is classified into several genotypes, correlated with different geographic distributions, clinical outcomes and susceptible human populations. It is crucial to investigate the evolutionary significance behind the diversification of HBV genotypes, because it improves...
| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2017-05-01
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| Series: | Scientific Reports |
| Online Access: | https://doi.org/10.1038/s41598-017-02012-8 |
| _version_ | 1818428160557973504 |
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| author | Shengdi Li Zhen Wang Yixue Li Guohui Ding |
| author_facet | Shengdi Li Zhen Wang Yixue Li Guohui Ding |
| author_sort | Shengdi Li |
| collection | DOAJ |
| description | Abstract Hepatitis B virus (HBV) is classified into several genotypes, correlated with different geographic distributions, clinical outcomes and susceptible human populations. It is crucial to investigate the evolutionary significance behind the diversification of HBV genotypes, because it improves our understanding of their pathological differences and pathogen-host interactions. Here, we performed comprehensive analysis of HBV genome sequences collected from public database. With a stringent criteria, we generated a dataset of 2992 HBV genomes from eight major genotypes. In particular, we applied a specified classification of non-synonymous and synonymous variants in overlapping regions, to distinguish joint and independent gene evolutions. We confirmed the presence of selective constraints over non-synonymous variants in consideration of overlapping regions. We then performed the McDonald-Kreitman test and revealed adaptive evolutions of non-synonymous variants during genotypic differentiation. Remarkably, we identified strong positive selection that drove the differentiation of PreS1 domain, which is an essential regulator involved in viral transmission. Our study presents novel evidences for the adaptive evolution of HBV genotypes, which suggests that these viruses evolve directionally for maintenance or improvement of successful infections. |
| first_indexed | 2024-12-14T14:57:12Z |
| format | Article |
| id | doaj.art-10cb987564c647f0bbe5cad10cdc9a6a |
| institution | Directory Open Access Journal |
| issn | 2045-2322 |
| language | English |
| last_indexed | 2024-12-14T14:57:12Z |
| publishDate | 2017-05-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Reports |
| spelling | doaj.art-10cb987564c647f0bbe5cad10cdc9a6a2022-12-21T22:56:57ZengNature PortfolioScientific Reports2045-23222017-05-017111110.1038/s41598-017-02012-8Adaptive evolution of proteins in hepatitis B virus during divergence of genotypesShengdi Li0Zhen Wang1Yixue Li2Guohui Ding3Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of SciencesKey Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of SciencesKey Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of SciencesKey Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of SciencesAbstract Hepatitis B virus (HBV) is classified into several genotypes, correlated with different geographic distributions, clinical outcomes and susceptible human populations. It is crucial to investigate the evolutionary significance behind the diversification of HBV genotypes, because it improves our understanding of their pathological differences and pathogen-host interactions. Here, we performed comprehensive analysis of HBV genome sequences collected from public database. With a stringent criteria, we generated a dataset of 2992 HBV genomes from eight major genotypes. In particular, we applied a specified classification of non-synonymous and synonymous variants in overlapping regions, to distinguish joint and independent gene evolutions. We confirmed the presence of selective constraints over non-synonymous variants in consideration of overlapping regions. We then performed the McDonald-Kreitman test and revealed adaptive evolutions of non-synonymous variants during genotypic differentiation. Remarkably, we identified strong positive selection that drove the differentiation of PreS1 domain, which is an essential regulator involved in viral transmission. Our study presents novel evidences for the adaptive evolution of HBV genotypes, which suggests that these viruses evolve directionally for maintenance or improvement of successful infections.https://doi.org/10.1038/s41598-017-02012-8 |
| spellingShingle | Shengdi Li Zhen Wang Yixue Li Guohui Ding Adaptive evolution of proteins in hepatitis B virus during divergence of genotypes Scientific Reports |
| title | Adaptive evolution of proteins in hepatitis B virus during divergence of genotypes |
| title_full | Adaptive evolution of proteins in hepatitis B virus during divergence of genotypes |
| title_fullStr | Adaptive evolution of proteins in hepatitis B virus during divergence of genotypes |
| title_full_unstemmed | Adaptive evolution of proteins in hepatitis B virus during divergence of genotypes |
| title_short | Adaptive evolution of proteins in hepatitis B virus during divergence of genotypes |
| title_sort | adaptive evolution of proteins in hepatitis b virus during divergence of genotypes |
| url | https://doi.org/10.1038/s41598-017-02012-8 |
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