Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history
Authors
Yu, HeJamieson, 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
Wynne-Jones, Stephanie
Zeiler, Jørn
Dobney, Keith
Boivin, Nicole
Searle, Jeremy B.
Krause-Kyora, Ben
Krause, Johannes
Larson, Greger
Orton, David
Article (Published version)
Metadata
Show full item recordAbstract
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 a...ttested 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.
Keywords:
Archaeology / Population geneticsSource:
Nature Communications, 2022, 13, 1, 2399-Collections
Institution/Community
Археолошки институт / Institute of ArchaeologyTY - JOUR AU - Yu, He AU - Jamieson, Alexandra AU - Hulme-Beaman, Ardern AU - Conroy, Chris J. AU - Knight, Becky AU - Speller, Camilla AU - Al-Jarah, Hiba AU - Eager, Heidi AU - Trinks, Alexandra AU - Adikari, Gamini AU - Baron, Henriette AU - Böhlendorf-Arslan, Beate AU - Bohingamuwa, Wijerathne AU - Crowther, Alison AU - Cucchi, Thomas AU - Esser, Kinie AU - Fleisher, Jeffrey AU - Gidney, Louisa AU - Gladilina, Elena AU - Gol’din, Pavel AU - Goodman, Steven M. AU - Hamilton-Dyer, Sheila AU - Helm, Richard AU - Hillman, Jesse C. AU - Kallala, Nabil AU - Kivikero, Hanna AU - Kovács, Zsófia E. AU - Kunst, Günther Karl AU - Kyselý, René AU - Linderholm, Anna AU - Maraoui-Telmini, Bouthéina AU - Marković, Nemanja AU - Morales-Muñiz, Arturo AU - Nabais, Mariana AU - O’Connor, Terry AU - Oueslati, Tarek AU - Quintana Morales, Eréndira M. AU - Pasda, Kerstin AU - Perera, Jude AU - Perera, Nimal AU - Radbauer, Silvia AU - Ramon, Joan AU - Rannamäe, Eve AU - Sanmartí Grego, Joan AU - Treasure, Edward AU - Valenzuela-Lamas, Silvia AU - van der Jagt, Inge AU - Van Neer, Wim AU - Vigne, Jean-Denis AU - Walker, Thomas AU - Wynne-Jones, Stephanie AU - Zeiler, Jørn AU - Dobney, Keith AU - Boivin, Nicole AU - Searle, Jeremy B. AU - Krause-Kyora, Ben AU - Krause, Johannes AU - Larson, Greger AU - Orton, David PY - 2022 UR - https://www.nature.com/articles/s41467-022-30009-z UR - http://rai.ai.ac.rs/handle/123456789/414 AB - 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. T2 - Nature Communications T1 - Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history IS - 1 SP - 2399 VL - 13 DO - 10.1038/s41467-022-30009-z ER -
@article{ author = "Yu, He and Jamieson, Alexandra and Hulme-Beaman, Ardern and Conroy, Chris J. and Knight, Becky and Speller, Camilla and Al-Jarah, Hiba and Eager, Heidi and Trinks, Alexandra and Adikari, Gamini and Baron, Henriette and Böhlendorf-Arslan, Beate and Bohingamuwa, Wijerathne and Crowther, Alison and Cucchi, Thomas and Esser, Kinie and Fleisher, Jeffrey and Gidney, Louisa and Gladilina, Elena and Gol’din, Pavel and Goodman, Steven M. and Hamilton-Dyer, Sheila and Helm, Richard and Hillman, Jesse C. and Kallala, Nabil and Kivikero, Hanna and Kovács, Zsófia E. and Kunst, Günther Karl and Kyselý, René and Linderholm, Anna and Maraoui-Telmini, Bouthéina and Marković, Nemanja and Morales-Muñiz, Arturo and Nabais, Mariana and O’Connor, Terry and Oueslati, Tarek and Quintana Morales, Eréndira M. and Pasda, Kerstin and Perera, Jude and Perera, Nimal and Radbauer, Silvia and Ramon, Joan and Rannamäe, Eve and Sanmartí Grego, Joan and Treasure, Edward and Valenzuela-Lamas, Silvia and van der Jagt, Inge and Van Neer, Wim and Vigne, Jean-Denis and Walker, Thomas and Wynne-Jones, Stephanie and Zeiler, Jørn and Dobney, Keith and Boivin, Nicole and Searle, Jeremy B. and Krause-Kyora, Ben and Krause, Johannes and Larson, Greger and Orton, David", year = "2022", abstract = "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.", journal = "Nature Communications", title = "Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history", number = "1", pages = "2399", volume = "13", doi = "10.1038/s41467-022-30009-z" }
Yu, H., Jamieson, A., Hulme-Beaman, A., Conroy, C. J., Knight, B., Speller, C., Al-Jarah, H., Eager, H., Trinks, A., Adikari, G., Baron, H., Böhlendorf-Arslan, B., Bohingamuwa, W., Crowther, A., Cucchi, T., Esser, K., Fleisher, J., Gidney, L., Gladilina, E., Gol’din, P., Goodman, S. M., Hamilton-Dyer, S., Helm, R., Hillman, J. C., Kallala, N., Kivikero, H., Kovács, Z. E., Kunst, G. K., Kyselý, R., Linderholm, A., Maraoui-Telmini, B., Marković, N., Morales-Muñiz, A., Nabais, M., O’Connor, T., Oueslati, T., Quintana Morales, E. M., Pasda, K., Perera, J., Perera, N., Radbauer, S., Ramon, J., Rannamäe, E., Sanmartí Grego, J., Treasure, E., Valenzuela-Lamas, S., van der Jagt, I., Van Neer, W., Vigne, J., Walker, T., Wynne-Jones, S., Zeiler, J., Dobney, K., Boivin, N., Searle, J. B., Krause-Kyora, B., Krause, J., Larson, G.,& Orton, D.. (2022). Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history. in Nature Communications, 13(1), 2399. https://doi.org/10.1038/s41467-022-30009-z
Yu H, Jamieson A, Hulme-Beaman A, Conroy CJ, Knight B, Speller C, Al-Jarah H, Eager H, Trinks A, Adikari G, Baron H, Böhlendorf-Arslan B, Bohingamuwa W, Crowther A, Cucchi T, Esser K, Fleisher J, Gidney L, Gladilina E, Gol’din P, Goodman SM, Hamilton-Dyer S, Helm R, Hillman JC, Kallala N, Kivikero H, Kovács ZE, Kunst GK, Kyselý R, Linderholm A, Maraoui-Telmini B, Marković N, Morales-Muñiz A, Nabais M, O’Connor T, Oueslati T, Quintana Morales EM, Pasda K, Perera J, Perera N, Radbauer S, Ramon J, Rannamäe E, Sanmartí Grego J, Treasure E, Valenzuela-Lamas S, van der Jagt I, Van Neer W, Vigne J, Walker T, Wynne-Jones S, Zeiler J, Dobney K, Boivin N, Searle JB, Krause-Kyora B, Krause J, Larson G, Orton D. Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history. in Nature Communications. 2022;13(1):2399. doi:10.1038/s41467-022-30009-z .
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, Wynne-Jones, Stephanie, Zeiler, Jørn, Dobney, Keith, Boivin, Nicole, Searle, Jeremy B., Krause-Kyora, Ben, Krause, Johannes, Larson, Greger, Orton, David, "Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history" in Nature Communications, 13, no. 1 (2022):2399, https://doi.org/10.1038/s41467-022-30009-z . .