Whole genome diversity of inherited chromosomally integrated HHV-6 derived from healthy individuals of diverse geographic origin

Abstract Human herpesviruses 6-A and -B (HHV-6A, HHV-6B) are ubiquitous in human populations worldwide. These viruses have been associated with several diseases such as multiple sclerosis, Hodgkin’s lymphoma or encephalitis. Despite of the need to understand the genetic diversity and geographic stra...

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Autores principales:	Marco Telford, Arcadi Navarro, Gabriel Santpere
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2018
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/278a6ea8d26841c68298981c0e1ce751
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spelling	oai:doaj.org-article:278a6ea8d26841c68298981c0e1ce7512021-12-02T15:08:39ZWhole genome diversity of inherited chromosomally integrated HHV-6 derived from healthy individuals of diverse geographic origin10.1038/s41598-018-21645-x2045-2322https://doaj.org/article/278a6ea8d26841c68298981c0e1ce7512018-02-01T00:00:00Zhttps://doi.org/10.1038/s41598-018-21645-xhttps://doaj.org/toc/2045-2322Abstract Human herpesviruses 6-A and -B (HHV-6A, HHV-6B) are ubiquitous in human populations worldwide. These viruses have been associated with several diseases such as multiple sclerosis, Hodgkin’s lymphoma or encephalitis. Despite of the need to understand the genetic diversity and geographic stratification of these viruses, the availability of complete viral sequences from different populations is still limited. Here, we present nine new inherited chromosomally integrated HHV-6 sequences from diverse geographical origin which were generated through target DNA enrichment on lymphoblastoid cell lines derived from healthy individuals. Integration with available HHV-6 sequences allowed the assessment of HHV-6A and -6B phylogeny, patterns of recombination and signatures of natural selection. Analysis of the intra-species variability showed differences between A and B diversity levels and revealed that the HHV-6B reference (Z29) is an uncommon sequence, suggesting the need for an alternative reference sequence. Signs of geographical variation are present and more defined in HHV-6A, while they appear partly masked by recombination in HHV-6B. Finally, we conducted a scan for signatures of selection in protein coding genes that yielded at least 6 genes (4 and 2 respectively for the A and B species) showing significant evidence for accelerated evolution, and 1 gene showing evidence of positive selection in HHV-6A.Marco TelfordArcadi NavarroGabriel SantpereNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 8, Iss 1, Pp 1-13 (2018)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Marco Telford Arcadi Navarro Gabriel Santpere Whole genome diversity of inherited chromosomally integrated HHV-6 derived from healthy individuals of diverse geographic origin
description	Abstract Human herpesviruses 6-A and -B (HHV-6A, HHV-6B) are ubiquitous in human populations worldwide. These viruses have been associated with several diseases such as multiple sclerosis, Hodgkin’s lymphoma or encephalitis. Despite of the need to understand the genetic diversity and geographic stratification of these viruses, the availability of complete viral sequences from different populations is still limited. Here, we present nine new inherited chromosomally integrated HHV-6 sequences from diverse geographical origin which were generated through target DNA enrichment on lymphoblastoid cell lines derived from healthy individuals. Integration with available HHV-6 sequences allowed the assessment of HHV-6A and -6B phylogeny, patterns of recombination and signatures of natural selection. Analysis of the intra-species variability showed differences between A and B diversity levels and revealed that the HHV-6B reference (Z29) is an uncommon sequence, suggesting the need for an alternative reference sequence. Signs of geographical variation are present and more defined in HHV-6A, while they appear partly masked by recombination in HHV-6B. Finally, we conducted a scan for signatures of selection in protein coding genes that yielded at least 6 genes (4 and 2 respectively for the A and B species) showing significant evidence for accelerated evolution, and 1 gene showing evidence of positive selection in HHV-6A.
format	article
author	Marco Telford Arcadi Navarro Gabriel Santpere
author_facet	Marco Telford Arcadi Navarro Gabriel Santpere
author_sort	Marco Telford
title	Whole genome diversity of inherited chromosomally integrated HHV-6 derived from healthy individuals of diverse geographic origin
title_short	Whole genome diversity of inherited chromosomally integrated HHV-6 derived from healthy individuals of diverse geographic origin
title_full	Whole genome diversity of inherited chromosomally integrated HHV-6 derived from healthy individuals of diverse geographic origin
title_fullStr	Whole genome diversity of inherited chromosomally integrated HHV-6 derived from healthy individuals of diverse geographic origin
title_full_unstemmed	Whole genome diversity of inherited chromosomally integrated HHV-6 derived from healthy individuals of diverse geographic origin
title_sort	whole genome diversity of inherited chromosomally integrated hhv-6 derived from healthy individuals of diverse geographic origin
publisher	Nature Portfolio
publishDate	2018
url	https://doaj.org/article/278a6ea8d26841c68298981c0e1ce751
work_keys_str_mv	AT marcotelford wholegenomediversityofinheritedchromosomallyintegratedhhv6derivedfromhealthyindividualsofdiversegeographicorigin AT arcadinavarro wholegenomediversityofinheritedchromosomallyintegratedhhv6derivedfromhealthyindividualsofdiversegeographicorigin AT gabrielsantpere wholegenomediversityofinheritedchromosomallyintegratedhhv6derivedfromhealthyindividualsofdiversegeographicorigin
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Whole genome diversity of inherited chromosomally integrated HHV-6 derived from healthy individuals of diverse geographic origin

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