Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history - Archive ouverte HAL Access content directly
Journal Articles Nature Communications Year : 2022

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

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Chris Conroy
Becky Knight
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Camilla Speller
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Hiba Al-Jarah
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Heidi Eager
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Alexandra Trinks
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Gamini Adikari
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Henriette Baron
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Beate Böhlendorf-Arslan
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Wijerathne Bohingamuwa
Kinie Esser
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Jeffrey Fleisher
Louisa Gidney
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Elena Gladilina
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Pavel Gol’din
Sheila Hamilton-Dyer
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Richard Helm
Jesse Hillman
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Nabil Kallala
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Hanna Kivikero
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Zsófia Kovács
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Günther Karl Kunst
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René Kyselý
Anna Linderholm
Bouthéina Maraoui-Telmini
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Nemanja Marković
Arturo Morales-Muñiz
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Mariana Nabais
Terry O’connor
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Eréndira Quintana Morales
Kerstin Pasda
Jude Perera
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Nimal Perera
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Silvia Radbauer
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Joan Ramon
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Eve Rannamäe
Joan Sanmartí Grego
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Edward Treasure
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Silvia Valenzuela-Lamas
Inge van der Jagt
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Wim van Neer
Thomas Walker
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Stephanie Wynne-Jones
Jørn Zeiler
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Keith Dobney
Nicole Boivin
Jeremy Searle
Ben Krause-Kyora
Johannes Krause
Greger Larson
David Orton

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.
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Dates and versions

hal-03659617 , version 1 (24-11-2022)

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He Yu, Alexandra Jamieson, Ardern Hulme-Beaman, Chris Conroy, Becky Knight, et al.. Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history. Nature Communications, 2022, 13 (1), pp.2399. ⟨10.1038/s41467-022-30009-z⟩. ⟨hal-03659617⟩
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