Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history
The distribution of the black rat (Rattus rattus) has been heavily influenced by its association with humans. The dispersal history of this non-native commensal rodent across Europe, however, remains poorly understood, and different introductions may have occurred during the Roman and medieval perio...
Published in: | Nature Communications |
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2022
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Online Access: | https://eprints.whiterose.ac.uk/187824/ https://eprints.whiterose.ac.uk/187824/1/s41467_022_30009_z.pdf https://doi.org/10.1038/s41467-022-30009-z |
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ftleedsuniv:oai:eprints.whiterose.ac.uk:187824 2023-05-15T18:04:59+02:00 Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history Yu, He Jamieson, Alexandra Hulme-Beaman, Ardern Conroy, Chris J. Knight, Becky Speller, Camilla 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 2022-05-03 text https://eprints.whiterose.ac.uk/187824/ https://eprints.whiterose.ac.uk/187824/1/s41467_022_30009_z.pdf https://doi.org/10.1038/s41467-022-30009-z en eng https://eprints.whiterose.ac.uk/187824/1/s41467_022_30009_z.pdf 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 cc_by Article PeerReviewed 2022 ftleedsuniv https://doi.org/10.1038/s41467-022-30009-z 2023-03-16T23:17:21Z The distribution of the black rat (Rattus rattus) has been heavily influenced by its association with humans. The dispersal history of this non-native commensal rodent across Europe, however, remains poorly understood, and different introductions may have occurred during the Roman and medieval periods. Here, in order to reconstruct the population history of European black rats, we first generate a de novo genome assembly of the black rat. We then sequence 67 ancient and three modern black rat mitogenomes, and 36 ancient and three modern nuclear genomes from archaeological sites spanning the 1st-17th centuries CE in Europe and North Africa. Analyses of our newly reported sequences, together with published mitochondrial DNA sequences, confirm that black rats were introduced into the Mediterranean and Europe from Southwest Asia. Genomic analyses of the ancient rats reveal a population turnover in temperate Europe between the 6th and 10th centuries CE, coincident with an archaeologically attested decline in the black rat population. The near disappearance and re-emergence of black rats in Europe may have been the result of the breakdown of the Roman Empire, the First Plague Pandemic, and/or post-Roman climatic cooling. Article in Journal/Newspaper Rattus rattus White Rose Research Online (Universities of Leeds, Sheffield & York) Nature Communications 13 1 |
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White Rose Research Online (Universities of Leeds, Sheffield & York) |
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English |
description |
The distribution of the black rat (Rattus rattus) has been heavily influenced by its association with humans. The dispersal history of this non-native commensal rodent across Europe, however, remains poorly understood, and different introductions may have occurred during the Roman and medieval periods. Here, in order to reconstruct the population history of European black rats, we first generate a de novo genome assembly of the black rat. We then sequence 67 ancient and three modern black rat mitogenomes, and 36 ancient and three modern nuclear genomes from archaeological sites spanning the 1st-17th centuries CE in Europe and North Africa. Analyses of our newly reported sequences, together with published mitochondrial DNA sequences, confirm that black rats were introduced into the Mediterranean and Europe from Southwest Asia. Genomic analyses of the ancient rats reveal a population turnover in temperate Europe between the 6th and 10th centuries CE, coincident with an archaeologically attested decline in the black rat population. The near disappearance and re-emergence of black rats in Europe may have been the result of the breakdown of the Roman Empire, the First Plague Pandemic, and/or post-Roman climatic cooling. |
format |
Article in Journal/Newspaper |
author |
Yu, He Jamieson, Alexandra Hulme-Beaman, Ardern Conroy, Chris J. Knight, Becky Speller, Camilla 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 |
spellingShingle |
Yu, He Jamieson, Alexandra Hulme-Beaman, Ardern Conroy, Chris J. Knight, Becky Speller, Camilla 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 Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history |
author_facet |
Yu, He Jamieson, Alexandra Hulme-Beaman, Ardern Conroy, Chris J. Knight, Becky Speller, Camilla 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 |
author_sort |
Yu, He |
title |
Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history |
title_short |
Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history |
title_full |
Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history |
title_fullStr |
Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history |
title_full_unstemmed |
Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history |
title_sort |
palaeogenomic analysis of black rat (rattus rattus) reveals multiple european introductions associated with human economic history |
publishDate |
2022 |
url |
https://eprints.whiterose.ac.uk/187824/ https://eprints.whiterose.ac.uk/187824/1/s41467_022_30009_z.pdf https://doi.org/10.1038/s41467-022-30009-z |
genre |
Rattus rattus |
genre_facet |
Rattus rattus |
op_relation |
https://eprints.whiterose.ac.uk/187824/1/s41467_022_30009_z.pdf 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 |
op_rights |
cc_by |
op_doi |
https://doi.org/10.1038/s41467-022-30009-z |
container_title |
Nature Communications |
container_volume |
13 |
container_issue |
1 |
_version_ |
1766176400919756800 |