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Ancient herpes simplex 1 genomes reveal recent viral structure in Eurasia.pdf (3.57 MB)

Ancient herpes simplex 1 genomes reveal recent viral structure in Eurasia

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posted on 2023-01-12, 16:30 authored by M Guellil, L van Dorp, SA Inskip, JM Dittmar, L Saag, K Tambets, R Hui, A Rose, E D’Atanasio, A Kriiska, L Varul, AMHC Koekkelkoren, RD Goldina, C Cessford, A Solnik, M Metspalu, J Krause, A Herbig, JE Robb, CJ Houldcroft, CL Scheib
Human herpes simplex virus 1 (HSV-1), a life-long infection spread by oral contact, infects a majority of adults globally. Phylogeographic clustering of sampled diversity into European, pan-Eurasian, and African groups has suggested the virus codiverged with human migrations out of Africa, although a much younger origin has also been proposed. We present three full ancient European HSV-1 genomes and one partial genome, dating from the 3rd to 17th century CE, sequenced to up to 9.5× with paired human genomes up to 10.16×. Considering a dataset of modern and ancient genomes, we apply phylogenetic methods to estimate the age of sampled modern Eurasian HSV-1 diversity to 4.68 (3.87 to 5.65) ka. Extrapolation of estimated rates to a global dataset points to the age of extant sampled HSV-1 as 5.29 (4.60 to 6.12) ka, suggesting HSV-1 lineage replacement coinciding with the late Neolithic period and following Bronze Age migrations.

Funding

Wellcome Trust (award no. 2000368/Z/15/Z) and St. John’s College, Cambridge (J.E.R., S.A.I., C.C., A.R., and C.L.S.); The Max Planck Society (J.K. and A.H.); the Estonian Research Council grant PUT (PRG243) (L.S., A.S., M.M., and C.L.S) and PUT (PRG1027) (K.T., L.S., M.G., and A.K.); the European Union through the European Regional Development Fund (project no. 2014-2020.4.01.16-0030) (C.L.S., M.G., and M.M.); the European Regional Development Fund (project no. 2014-2020.4.01.15-0012) (M.M.); and the ERC Synergy Grant HistoGenes (no. 856453) (A.H.). L.v.D is supported by a UCL Excellence Fellowship. C.J.H. acknowledges support from the NIHR Cambridge Biomedical Research Centre Antimicrobial Resistance theme. A.R. acknowledges support from the British Archaeological Association.

History

Citation

Guellil, M., van Dorp, L., Inskip, S. A., Dittmar, J. M., Saag, L., Tambets, K., ... & Scheib, C. L. (2022). Ancient herpes simplex 1 genomes reveal recent viral structure in Eurasia. Science Advances, 8(30), eabo4435.

Author affiliation

School of Archaeology and Ancient History

Version

  • VoR (Version of Record)

Published in

Science Advances

Volume

8

Issue

30

Pagination

eabo4435

Publisher

AMER ASSOC ADVANCEMENT SCIENCE

issn

2375-2548

eissn

2375-2548

Acceptance date

2022-06-10

Copyright date

2022

Available date

2023-01-12

Language

English

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