HuConTest: testing human contamination in great ape samples
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- dc.contributor.author Kuhlwilm, Martin
- dc.contributor.author Fontseré Alemany, Clàudia, 1992-
- dc.contributor.author Han, Sojung
- dc.contributor.author Alvarez-Estape, Marina
- dc.contributor.author Marquès i Bonet, Tomàs, 1975-
- dc.date.accessioned 2021-10-14T06:21:31Z
- dc.date.available 2021-10-14T06:21:31Z
- dc.date.issued 2021
- dc.description.abstract Modern human contamination is a common problem in ancient DNA studies. We provide evidence that this issue is also present in studies in great apes, which are our closest living relatives, for example in noninvasive samples. Here, we present a simple method to detect human contamination in short-read sequencing data from different species: HuConTest. We demonstrate its feasibility using blood and tissue samples from these species. This test is particularly useful for more complex samples (such as museum and noninvasive samples) which have smaller amounts of endogenous DNA, as we show here.
- dc.description.sponsorship We thank Marc de Manuel for help with data preparation. M.K. is supported by “la Caixa” Foundation (ID 100010434), fellowship code LCF/BQ/PR19/11700002. M.A.E. is supported by an FPI (Formación de Personal Investigador) PRE2018-083966 from Ministerio de Ciencia, Universidades e Investigación. 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), BFU2017-86471-P (MINECO/FEDER, UE), “Unidad de Excelencia María de Maeztu”, funded by the AEI (CEX2018-000792-M), Howard Hughes International Early Career, Obra Social “La Caixa” and Secretaria d’Universitats i Recerca and CERCA Programme del Departament d’Economia i Coneixement de la Generalitat de Catalunya (GRC 2017 SGR 880).
- dc.format.mimetype application/pdf
- dc.identifier.citation Kuhlwilm M, Fontsere C, Han S, Alvarez-Estape M, Marques-Bonet T. HuConTest: testing human contamination in great ape samples. Genome Biol Evol. 2021;13(6):evab117. DOI: 10.1093/gbe/evab117
- dc.identifier.doi http://dx.doi.org/10.1093/gbe/evab117
- dc.identifier.issn 1759-6653
- dc.identifier.uri http://hdl.handle.net/10230/48646
- dc.language.iso eng
- dc.publisher Oxford University Press
- dc.relation.ispartof Genome Biol Evol. 2021;13(6):evab117
- dc.relation.projectID info:eu-repo/grantAgreement/EC/H2020/864203
- dc.relation.projectID info:eu-repo/grantAgreement/ES/2PE/BFU2017-86471-P
- dc.rights © The Author(s) 2021. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
- dc.rights.accessRights info:eu-repo/semantics/openAccess
- dc.rights.uri http://creativecommons.org/licenses/by/4.0/
- dc.subject.keyword Ancient DNA
- dc.subject.keyword Contamination
- dc.subject.keyword Fecal DNA
- dc.subject.keyword Next-generation sequencing
- dc.subject.keyword Nonhuman primates
- dc.title HuConTest: testing human contamination in great ape samples
- dc.type info:eu-repo/semantics/article
- dc.type.version info:eu-repo/semantics/publishedVersion