Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history

Yu, He, Jamieson, Alexandra, Hulme-Beaman, Ardern et al. (56 more authors) (2022) Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history. Nature Communications. 2399. ISSN 2041-1723

Abstract

Metadata

Authors/Creators:
  • Yu, He
  • Jamieson, Alexandra
  • Hulme-Beaman, Ardern
  • Conroy, Chris J.
  • Knight, Becky
  • Speller, Camilla ORCID logo https://orcid.org/0000-0001-7128-9903
  • Al-Jarah, Hiba
  • Eager, Heidi
  • Trinks, Alexandra
  • Adikari, Gamini
  • Baron, Henriette
  • Böhlendorf-Arslan, Beate
  • Bohingamuwa, Wijerathne
  • Crowther, Alison
  • Cucchi, Thomas
  • Esser, Kinie
  • Fleisher, Jeffrey
  • Gidney, Louisa
  • Gladilina, Elena
  • Gol’din, Pavel
  • Goodman, Steven M.
  • Hamilton-Dyer, Sheila
  • Helm, Richard
  • Hillman, Jesse C.
  • Kallala, Nabil
  • Kivikero, Hanna
  • Kovács, Zsófia E.
  • Kunst, Günther Karl
  • Kyselý, René
  • Linderholm, Anna
  • Maraoui-Telmini, Bouthéina
  • Marković, Nemanja
  • Morales-Muñiz, Arturo
  • Nabais, Mariana
  • O’Connor, Terry
  • Oueslati, Tarek
  • Quintana Morales, Eréndira M.
  • Pasda, Kerstin
  • Perera, Jude
  • Perera, Nimal
  • Radbauer, Silvia
  • Ramon, Joan
  • Rannamäe, Eve
  • Sanmartí Grego, Joan
  • Treasure, Edward
  • Valenzuela-Lamas, Silvia
  • van der Jagt, Inge
  • Van Neer, Wim
  • Vigne, Jean Denis
  • Walker, Thomas
  • Wynne-Jones, Stephanie ORCID logo https://orcid.org/0000-0002-3005-8647
  • Zeiler, Jørn
  • Dobney, Keith
  • Boivin, Nicole
  • Searle, Jeremy B. (jbs3@york.ac.uk)
  • Krause-Kyora, Ben
  • Krause, Johannes
  • Larson, Greger
  • Orton, David ORCID logo https://orcid.org/0000-0003-4069-8004
Copyright, Publisher and Additional Information: Funding Information: We thank the wet laboratory teams at MPI-SHH, the PalaeoBARN at the University of Oxford and BioArch at the?University of York. We thank David K. James and Lucia Hui of the Alameda County Vector Control Services District for procuring the rat used for the de novo genome. We are grateful to Sarah Nagel at Max Planck Institute for Evolutionary Anthropology for the single-stranded library preparation, and Dovetail Genomics for the de novo genome assembly service. We thank Maria Spyrou for her suggestions and comments. We acknowledge Ewan Chipping and Helena England (University of York), Carl Phillips, Veronica Lindholm (?lands Museum), Christine McDonnell and Nienke van Doorn (York Archaeological Trust), Emile Mittendorf (Gemeente Deventer), Inge Riemersma (Archaeological depot, Provincie Zuid-Holland), the Turkish Ministry of Culture & Tourism and the ?anakkale Museum, Jan Frol?k and Iva Herichov? (Institute of Archaeology of the Czech Academy of Sciences, Prague), Franz Humer and Eduard Pollhammer (Archaeological Park Carnuntum), Dorottya B. Ny?khelyi and L?szl? Dar?czi-Szab? (Budapest History Museum), Institut National du Patrimoine (Tunisia), University of Barcelona, Spanish Ministry of Science and Innovation (Project HUM2006-03432/HIST), Spanish Ministry of Culture (programme of archaeological excavations abroad 2009); Spanish Agency of International Cooperation for the Development (2009), Catalan Institute of Classical Archaeology (ICAC), Vila Franca Municipal Museum and N?Zinga Oliveira (University of the Azores), Vujadin Ivanisevi? and Ivan Bugarski (Institute of Archaeology, Belgrade), Martin Nadler, M.A. and Dr. Silvia Codreanu-Windauer (N?rnberg and Regensburg respectively, Bavarian State Office for the Preservation of Monuments), the Field Museum of Natural History Chicago, The Natural History Museum London, and the American Museum of Natural History for providing materials and support. Funding was provided by the European Research Council (ERC-StG-337574-UNDEAD to G.L.; ERC-StG-206148 to N.B.; ERC-StG-716298 to S.V.-L.), the Natural Environment Research Council Doctoral Training Programme (A.J.), Wellcome (Small Grant in Humanities and Social Science 209817/Z to D.O.), the British Academy/Leverhulme Trust (SG170938 to D.O.), Estonian Research Council (PRG29 to E.R.), Czech Academy of Sciences (RVO:67985912 to R.K.), and Leverhulme Trust (ECF-2017-315 to A.H.B.), National Science Foundation (BCS 1123091 to J.F./S.W.-J.), Arts and Humanities Research Council (AH/J502716/1 to S.W.-J./J.F.). The de novo genome assembly, population genomics study, and radiocarbon dating were funded by the Max Planck Society. Funding Information: We thank the wet laboratory teams at MPI-SHH, the PalaeoBARN at the University of Oxford and BioArch at the University of York. We thank David K. James and Lucia Hui of the Alameda County Vector Control Services District for procuring the rat used for the de novo genome. We are grateful to Sarah Nagel at Max Planck Institute for Evolutionary Anthropology for the single-stranded library preparation, and Dovetail Genomics for the de novo genome assembly service. We thank Maria Spyrou for her suggestions and comments. We acknowledge Ewan Chipping and Helena England (University of York), Carl Phillips, Veronica Lindholm (Ålands Museum), Christine McDonnell and Nienke van Doorn (York Archaeological Trust), Emile Mittendorf (Gemeente Deventer), Inge Riemersma (Archaeological depot, Provincie Zuid-Holland), the Turkish Ministry of Culture & Tourism and the Çanakkale Museum, Jan Frolík and Iva Herichová (Institute of Archaeology of the Czech Academy of Sciences, Prague), Franz Humer and Eduard Pollhammer (Archaeological Park Carnuntum), Dorottya B. Nyékhelyi and László Daróczi-Szabó (Budapest History Museum), Institut National du Patrimoine (Tunisia), University of Barcelona, Spanish Ministry of Science and Innovation (Project HUM2006-03432/HIST), Spanish Ministry of Culture (programme of archaeological excavations abroad 2009); Spanish Agency of International Cooperation for the Development (2009), Catalan Institute of Classical Archaeology (ICAC), Vila Franca Municipal Museum and N’Zinga Oliveira (University of the Azores), Vujadin Ivanisević and Ivan Bugarski (Institute of Archaeology, Belgrade), Martin Nadler, M.A. and Dr. Silvia Codreanu-Windauer (Nürnberg and Regensburg respectively, Bavarian State Office for the Preservation of Monuments), the Field Museum of Natural History Chicago, The Natural History Museum London, and the American Museum of Natural History for providing materials and support. Funding was provided by the European Research Council (ERC-StG-337574-UNDEAD to G.L.; ERC-StG-206148 to N.B.; ERC-StG-716298 to S.V.-L.), the Natural Environment Research Council Doctoral Training Programme (A.J.), Wellcome (Small Grant in Humanities and Social Science 209817/Z to D.O.), the British Academy/Leverhulme Trust (SG170938 to D.O.), Estonian Research Council (PRG29 to E.R.), Czech Academy of Sciences (RVO:67985912 to R.K.), and Leverhulme Trust (ECF-2017-315 to A.H.B.), National Science Foundation (BCS 1123091 to J.F./S.W.-J.), Arts and Humanities Research Council (AH/J502716/1 to S.W.-J./J.F.). The de novo genome assembly, population genomics study, and radiocarbon dating were funded by the Max Planck Society. Publisher Copyright: © 2022, The Author(s).
Keywords: Chemistry,Biochemistry, Genetics and Molecular Biology,Physics and Astronomy,Archaeology
Dates:
  • Published: 3 May 2022
Institution: The University of York
Academic Units: The University of York > Faculty of Arts and Humanities (York) > Archaeology (York)
The University of York > Faculty of Sciences (York) > Computer Science (York)
The University of York > Faculty of Sciences (York) > Biology (York)
Depositing User: Pure (York)
Date Deposited: 09 Jun 2022 10:50
Last Modified: 07 Sep 2022 15:12
Published Version: https://doi.org/10.1038/s41467-022-30009-z
Status: Published
Refereed: Yes
Identification Number: https://doi.org/10.1038/s41467-022-30009-z
Related URLs:

Download

Filename: s41467_022_30009_z.pdf

Description: Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history

Licence: CC-BY 2.5

Share / Export

Statistics