Phylogenetic molecular evolution and recombination analysis of complete genome of human parechovirus in Thailand

Abstract Human parechovirus (HPeV), which is a member of the Picornavirus group of viruses, is a pathogen that is reported to be associated with manifestations that include respiratory tract involvement, gastroenteritis, sepsis-like symptom, and central nervous system complication. Until now, ninete...

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Autores principales:	Thaweesak Chieochansin, Jiratchaya Puenpa, Yong Poovorawan
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/7597450a86184a548831a79d53665065
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spelling	oai:doaj.org-article:7597450a86184a548831a79d536650652021-12-02T13:39:29ZPhylogenetic molecular evolution and recombination analysis of complete genome of human parechovirus in Thailand10.1038/s41598-021-88124-82045-2322https://doaj.org/article/7597450a86184a548831a79d536650652021-04-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-88124-8https://doaj.org/toc/2045-2322Abstract Human parechovirus (HPeV), which is a member of the Picornavirus group of viruses, is a pathogen that is reported to be associated with manifestations that include respiratory tract involvement, gastroenteritis, sepsis-like symptom, and central nervous system complication. Until now, nineteen genotypes have been identified. The lack of proofreading property of viral RNA-dependent RNA polymerase (RdRp) together with recombination among the intra- and inter-genotypes of the virus results in high diversity. However, data specific to the molecular evolutionary perspective of the complete genome of HPeV remains limited. This study aimed to analyze the phylogenetic, molecular evolution, and recombination characteristics of the complete genome of HPeV strains isolated in Thailand during 2009–2012. Fifty-eight samples that were previously confirmed to be HPeV positive and then evaluated for genotyping were subjected to complete genome amplification to generate ten overlapping PCR fragments using a set of in-house designed primers. The same position of the viral genome was read in triplicate using direct Sanger sequencing. All samples were classified into the same previously defined genotypes in both whole-genome and VP1 phylogenic tree. However, sample B1091/HPeV14/2011 exhibited discordant grouping between whole-genome and VP1 on the phylogenetic tree. Bootscan analysis revealed that B1091/HPeV14/2011 inherited from two genotypic viruses, including VP1 from HPeV14, and the rest of the genome from HPeV1B. The results of this study provide important insights into the molecular evolution of and recombination in the viral genome of HPeV that will improve and accelerate our ability to develop treatment and prophylactic strategies in the future.Thaweesak ChieochansinJiratchaya PuenpaYong PoovorawanNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-13 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Thaweesak Chieochansin Jiratchaya Puenpa Yong Poovorawan Phylogenetic molecular evolution and recombination analysis of complete genome of human parechovirus in Thailand
description	Abstract Human parechovirus (HPeV), which is a member of the Picornavirus group of viruses, is a pathogen that is reported to be associated with manifestations that include respiratory tract involvement, gastroenteritis, sepsis-like symptom, and central nervous system complication. Until now, nineteen genotypes have been identified. The lack of proofreading property of viral RNA-dependent RNA polymerase (RdRp) together with recombination among the intra- and inter-genotypes of the virus results in high diversity. However, data specific to the molecular evolutionary perspective of the complete genome of HPeV remains limited. This study aimed to analyze the phylogenetic, molecular evolution, and recombination characteristics of the complete genome of HPeV strains isolated in Thailand during 2009–2012. Fifty-eight samples that were previously confirmed to be HPeV positive and then evaluated for genotyping were subjected to complete genome amplification to generate ten overlapping PCR fragments using a set of in-house designed primers. The same position of the viral genome was read in triplicate using direct Sanger sequencing. All samples were classified into the same previously defined genotypes in both whole-genome and VP1 phylogenic tree. However, sample B1091/HPeV14/2011 exhibited discordant grouping between whole-genome and VP1 on the phylogenetic tree. Bootscan analysis revealed that B1091/HPeV14/2011 inherited from two genotypic viruses, including VP1 from HPeV14, and the rest of the genome from HPeV1B. The results of this study provide important insights into the molecular evolution of and recombination in the viral genome of HPeV that will improve and accelerate our ability to develop treatment and prophylactic strategies in the future.
format	article
author	Thaweesak Chieochansin Jiratchaya Puenpa Yong Poovorawan
author_facet	Thaweesak Chieochansin Jiratchaya Puenpa Yong Poovorawan
author_sort	Thaweesak Chieochansin
title	Phylogenetic molecular evolution and recombination analysis of complete genome of human parechovirus in Thailand
title_short	Phylogenetic molecular evolution and recombination analysis of complete genome of human parechovirus in Thailand
title_full	Phylogenetic molecular evolution and recombination analysis of complete genome of human parechovirus in Thailand
title_fullStr	Phylogenetic molecular evolution and recombination analysis of complete genome of human parechovirus in Thailand
title_full_unstemmed	Phylogenetic molecular evolution and recombination analysis of complete genome of human parechovirus in Thailand
title_sort	phylogenetic molecular evolution and recombination analysis of complete genome of human parechovirus in thailand
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/7597450a86184a548831a79d53665065
work_keys_str_mv	AT thaweesakchieochansin phylogeneticmolecularevolutionandrecombinationanalysisofcompletegenomeofhumanparechovirusinthailand AT jiratchayapuenpa phylogeneticmolecularevolutionandrecombinationanalysisofcompletegenomeofhumanparechovirusinthailand AT yongpoovorawan phylogeneticmolecularevolutionandrecombinationanalysisofcompletegenomeofhumanparechovirusinthailand
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Phylogenetic molecular evolution and recombination analysis of complete genome of human parechovirus in Thailand

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