Screening great ape museum specimens for DNA viruses

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

doi:10.1038/s41598-024-80780-w

Screening great ape museum specimens for DNA viruses

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

Publications: Contribution to journal › Article › Peer Reviewed

Abstract

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.

Original language	English
Article number	29806
Journal	Scientific Reports
Volume	14
Issue number	1
DOIs	https://doi.org/10.1038/s41598-024-80780-w
Publication status	Published - 30 Nov 2024

Austrian Fields of Science 2012

106012 Evolutionary research
303034 Virology
106014 Genomics

Keywords

Museomics
Viruses
Hepatitis B virus
Great apes
Target-enrichment capture

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10.1038/s41598-024-80780-wLicence: CC BY 4.0

https://phaidra.univie.ac.at/o:2111159Licence: CC BY 4.0

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Hämmerle, M., Guellil, M., Trgovec-Greif, L., Cheronet, O., Sawyer, S., Ruiz-Gartzia, I., Lizano, E., Rymbekova, A., Gelabert, P., Bernardi, P., Han, S., Rattei, T., Schuenemann, V. J., Marques-Bonet, T., Guschanski, K., Calvignac-Spencer, S., Pinhasi, R., & Kuhlwilm, M. (2024). Screening great ape museum specimens for DNA viruses. Scientific Reports, 14(1), Article 29806. https://doi.org/10.1038/s41598-024-80780-w

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Hämmerle, M , Guellil, M, Trgovec-Greif, L, Cheronet, O , Sawyer, S, Ruiz-Gartzia, I, Lizano, E, Rymbekova, A , Gelabert, P, Bernardi, P, Han, S , Rattei, T, Schuenemann, VJ, Marques-Bonet, T, Guschanski, K, Calvignac-Spencer, S, Pinhasi, R & Kuhlwilm, M 2024, 'Screening great ape museum specimens for DNA viruses', Scientific Reports, vol. 14, no. 1, 29806. https://doi.org/10.1038/s41598-024-80780-w

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AU - Bernardi, Paolo

AU - Han, Sojung

AU - Rattei, Thomas

AU - Schuenemann, Verena J.

AU - Marques-Bonet, Tomas

AU - Guschanski, Katerina

AU - Calvignac-Spencer, Sebastien

AU - Pinhasi, Ron

AU - Kuhlwilm, Martin

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AB - 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.

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Screening great ape museum specimens for DNA viruses

Abstract

Austrian Fields of Science 2012

Keywords

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