Screening great ape museum specimens for DNA viruses

Hämmerle, Michelle; Guellil, Meriam; Trgovec-Greif, Lovro; Cheronet, Olivia; Sawyer, Susanna; Ruiz-Gartzia, Irune; Lizano, Esther; Rymbekova, Aigerim; Gelabert, Pere; Bernardi, Paolo; Han, Sojung; Rattei, Thomas; Schuenemann, Verena J.; Marqués-Bonet, Tomàs; Guschanski, Katerina; Calvignac-Spencer, Sebastien; Pinhasi, Ron; Kuhlwilm, Martin

Screening great ape museum specimens for DNA viruses

Natural history museum collections harbour a record of wild species from the past centuries, providing a unique opportunity to study animals as well as their infectious agents. Thousands of great ape specimens are kept in these collections, and could become an important resource for studying the evo...

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Detalles Bibliográficos
Autores:	Hämmerle, Michelle, Guellil, Meriam, Trgovec-Greif, Lovro, Cheronet, Olivia, Sawyer, Susanna, Ruiz-Gartzia, Irune, Lizano, Esther, Rymbekova, Aigerim, Gelabert, Pere, Bernardi, Paolo, Han, Sojung, Rattei, Thomas, Schuenemann, Verena J., Marqués-Bonet, Tomàs, Guschanski, Katerina, Calvignac-Spencer, Sebastien, Pinhasi, Ron, Kuhlwilm, Martin
Tipo de recurso:	artículo
Estado:	Versión publicada
Fecha de publicación:	2024
País:	España
Institución:	Consejo Superior de Investigaciones Científicas (CSIC)
Repositorio:	DIGITAL.CSIC. Repositorio Institucional del CSIC
OAI Identifier:	oai:digital.csic.es:10261/383319
Acceso en línea:	http://hdl.handle.net/10261/383319 https://api.elsevier.com/content/abstract/scopus_id/85211119483
Access Level:	acceso abierto
Palabra clave:	Viruses Great apes Hepatitis B virus Museomics Target-enrichment capture

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spelling	Screening great ape museum specimens for DNA virusesHämmerle, MichelleGuellil, MeriamTrgovec-Greif, LovroCheronet, OliviaSawyer, SusannaRuiz-Gartzia, IruneLizano, EstherRymbekova, AigerimGelabert, PereBernardi, PaoloHan, SojungRattei, ThomasSchuenemann, Verena J.Marqués-Bonet, TomàsGuschanski, KaterinaCalvignac-Spencer, SebastienPinhasi, RonKuhlwilm, MartinVirusesGreat apesHepatitis B virusMuseomicsTarget-enrichment captureNatural history museum collections harbour a record of wild species from the past centuries, providing a unique opportunity to study animals as well as their infectious agents. Thousands of great ape specimens are kept in these collections, and could become an important resource for studying the evolution of DNA viruses. Their genetic material is likely to be preserved in dry museum specimens, as reported previously for monkeypox virus genomes from historical orangutan specimens. Here, we screened 209 great ape museum specimens for 99 different DNA viruses, using hybridization capture coupled with short-read high-throughput sequencing. We determined the presence of multiple viruses within this dataset from historical specimens and obtained several near-complete viral genomes. In particular, we report high-coverage (> 18-fold) hepatitis B virus genomes from one gorilla and two chimpanzee individuals, which are phylogenetically placed within clades infecting the respective host species.This project has been funded by the Vienna Science and Technology Fund (WWTF) [https://doi.org/10.47379/VRG20001] and by the Austrian Science Fund (FWF) [https://doi.org/10.55776/TAI729] to M.K. K.G. received support from the Swedish Research Council (VR) through Grant 2020-03398. L. T.-G. was supported by the European Union’s Horizon 2020 research and innovation program, under the Marie Skłodowska-Curie Actions Innovative Training Networks grant agreement no. 955974 (VIROINF). T.M.-B. is supported by funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement No. 864203), Grant PID2021-126004NB-100 funded by MICIU/AEI/ https://doi.org/10.13039/501100011033 and ERDF/EU(MICIIN/FEDER, UE) and Secretaria d’Universitats i Recerca and CERCA Programme del Departament d’Economia i Coneixement de la Generalitat de Catalunya (GRC 2021 SGR 00177). M.G. was supported by the Austrian Science Fund (FWF) [https://doi.org/10.55776/ESP162]. S.H. was supported by the Austrian Science Fund (FWF) [https://doi.org/10.55776/ESP546].Peer reviewedNature Publishing GroupMinisterio de Ciencia, Innovación y Universidades (España)Agencia Estatal de Investigación (España)Vienna Science and Technology FundEuropean CommissionGeneralitat de CatalunyaAustrian Science FundSwedish Research CouncilEuropean Research CouncilConsejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]202520252024info:eu-repo/semantics/articlehttp://purl.org/coar/resource_type/c_6501Publisher's versioninfo:eu-repo/semantics/publishedVersionapplication/pdfhttp://hdl.handle.net/10261/383319https://api.elsevier.com/content/abstract/scopus_id/85211119483reponame:DIGITAL.CSIC. Repositorio Institucional del CSICinstname:Consejo Superior de Investigaciones Científicas (CSIC)Inglés#PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE#info:eu-repo/grantAgreement/AEI//PID2021-126004NB-100info:eu-repo/grantAgreement/EC/H2020/864203info:eu-repo/grantAgreement/EC/H2020/955974The underlying dataset has been published as supplementary material of the article in the publisher platform at DOI https://doi.org/10.1038/s41598-024-80780-whttps://doi.org/10.1038/s41598-024-80780-wSíinfo:eu-repo/semantics/openAccessoai:digital.csic.es:10261/3833192026-05-22T06:33:51Z
dc.title.none.fl_str_mv	Screening great ape museum specimens for DNA viruses
title	Screening great ape museum specimens for DNA viruses
spellingShingle	Screening great ape museum specimens for DNA viruses Hämmerle, Michelle Viruses Great apes Hepatitis B virus Museomics Target-enrichment capture
title_short	Screening great ape museum specimens for DNA viruses
title_full	Screening great ape museum specimens for DNA viruses
title_fullStr	Screening great ape museum specimens for DNA viruses
title_full_unstemmed	Screening great ape museum specimens for DNA viruses
title_sort	Screening great ape museum specimens for DNA viruses
dc.creator.none.fl_str_mv	Hämmerle, Michelle Guellil, Meriam Trgovec-Greif, Lovro Cheronet, Olivia Sawyer, Susanna Ruiz-Gartzia, Irune Lizano, Esther Rymbekova, Aigerim Gelabert, Pere Bernardi, Paolo Han, Sojung Rattei, Thomas Schuenemann, Verena J. Marqués-Bonet, Tomàs Guschanski, Katerina Calvignac-Spencer, Sebastien Pinhasi, Ron Kuhlwilm, Martin
author	Hämmerle, Michelle
author_facet	Hämmerle, Michelle Guellil, Meriam Trgovec-Greif, Lovro Cheronet, Olivia Sawyer, Susanna Ruiz-Gartzia, Irune Lizano, Esther Rymbekova, Aigerim Gelabert, Pere Bernardi, Paolo Han, Sojung Rattei, Thomas Schuenemann, Verena J. Marqués-Bonet, Tomàs Guschanski, Katerina Calvignac-Spencer, Sebastien Pinhasi, Ron Kuhlwilm, Martin
author_role	author
author2	Guellil, Meriam Trgovec-Greif, Lovro Cheronet, Olivia Sawyer, Susanna Ruiz-Gartzia, Irune Lizano, Esther Rymbekova, Aigerim Gelabert, Pere Bernardi, Paolo Han, Sojung Rattei, Thomas Schuenemann, Verena J. Marqués-Bonet, Tomàs Guschanski, Katerina Calvignac-Spencer, Sebastien Pinhasi, Ron Kuhlwilm, Martin
author2_role	author author author author author author author author author author author author author author author author author
dc.contributor.none.fl_str_mv	Ministerio de Ciencia, Innovación y Universidades (España) Agencia Estatal de Investigación (España) Vienna Science and Technology Fund European Commission Generalitat de Catalunya Austrian Science Fund Swedish Research Council European Research Council Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]
dc.subject.none.fl_str_mv	Viruses Great apes Hepatitis B virus Museomics Target-enrichment capture
topic	Viruses Great apes Hepatitis B virus Museomics Target-enrichment capture
description	Natural history museum collections harbour a record of wild species from the past centuries, providing a unique opportunity to study animals as well as their infectious agents. Thousands of great ape specimens are kept in these collections, and could become an important resource for studying the evolution of DNA viruses. Their genetic material is likely to be preserved in dry museum specimens, as reported previously for monkeypox virus genomes from historical orangutan specimens. Here, we screened 209 great ape museum specimens for 99 different DNA viruses, using hybridization capture coupled with short-read high-throughput sequencing. We determined the presence of multiple viruses within this dataset from historical specimens and obtained several near-complete viral genomes. In particular, we report high-coverage (> 18-fold) hepatitis B virus genomes from one gorilla and two chimpanzee individuals, which are phylogenetically placed within clades infecting the respective host species.
publishDate	2024
dc.date.none.fl_str_mv	2024 2025 2025
dc.type.none.fl_str_mv	info:eu-repo/semantics/article http://purl.org/coar/resource_type/c_6501 Publisher's version info:eu-repo/semantics/publishedVersion
format	article
status_str	publishedVersion
dc.identifier.none.fl_str_mv	http://hdl.handle.net/10261/383319 https://api.elsevier.com/content/abstract/scopus_id/85211119483
url	http://hdl.handle.net/10261/383319 https://api.elsevier.com/content/abstract/scopus_id/85211119483
dc.language.none.fl_str_mv	Inglés
language_invalid_str_mv	Inglés
dc.relation.none.fl_str_mv	#PLACEHOLDER_PARENT_METADATA_VALUE# #PLACEHOLDER_PARENT_METADATA_VALUE# #PLACEHOLDER_PARENT_METADATA_VALUE# info:eu-repo/grantAgreement/AEI//PID2021-126004NB-100 info:eu-repo/grantAgreement/EC/H2020/864203 info:eu-repo/grantAgreement/EC/H2020/955974 The underlying dataset has been published as supplementary material of the article in the publisher platform at DOI https://doi.org/10.1038/s41598-024-80780-w https://doi.org/10.1038/s41598-024-80780-w Sí
dc.rights.none.fl_str_mv	info:eu-repo/semantics/openAccess
eu_rights_str_mv	openAccess
dc.format.none.fl_str_mv	application/pdf
dc.publisher.none.fl_str_mv	Nature Publishing Group
publisher.none.fl_str_mv	Nature Publishing Group
dc.source.none.fl_str_mv	reponame:DIGITAL.CSIC. Repositorio Institucional del CSIC instname:Consejo Superior de Investigaciones Científicas (CSIC)
instname_str	Consejo Superior de Investigaciones Científicas (CSIC)
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Screening great ape museum specimens for DNA viruses

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