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  A phylogeography of the second plague pandemic revealed through the analysis of historical Y. pestis genomes

Spyrou, M. A., Keller, M., Tukhbatova, R. I., Nelson, E. A., Andrades Valtueña, A., Walker, D., et al. (2018). A phylogeography of the second plague pandemic revealed through the analysis of historical Y. pestis genomes. bioRxiv. doi:10.1101/481242.

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Item Permalink: http://hdl.handle.net/21.11116/0000-0004-5F8C-5 Version Permalink: http://hdl.handle.net/21.11116/0000-0004-5F8D-4
Genre: Journal Article

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 Creators:
Spyrou, Maria A.1, Author              
Keller, Marcel1, Author              
Tukhbatova, Rezeda I.1, Author              
Nelson, Elizabeth A.1, Author              
Andrades Valtueña, Aida1, Author              
Walker, Don, Author
Alterauge, Amelie, Author
Carty, Niamh, Author
Fetz, Hermann, Author
Gourvennec, Michaël, Author
Hartle, Robert, Author
Henderson, Michael, Author
von Heyking, Kristin, Author
Kacki, Sacha, Author
Knox, Elizabeth L., Author
Later, Christian, Author
Peters, Joris, Author
Schreiber, Jürgen, Author
Castex, Dominique, Author
Lösch, Sandra, Author
Harbeck, Michaela, AuthorHerbig, Alexander1, Author              Bos, Kirsten I.1, 2, Author              Krause, Johannes1, 3, Author               more..
Affiliations:
1Archaeogenetics, Max Planck Institute for the Science of Human History, Max Planck Society, ou_2074310              
2CoDisEASe, Max Planck Institute for the Science of Human History, Max Planck Society, ou_3033585              
3MHAAM, Max Planck Institute for the Science of Human History, Max Planck Society, ou_2541699              

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 Abstract: The second plague pandemic (14th - 18th century AD), caused by the bacterium Yersinia pestis, is infamous for its initial wave, the Black Death (1346-1353 AD), and its repeated scourges in Europe and the vicinity until the Early Modern Era. Here, we report 32 ancient Y. pestis genomes spanning the 14th to 17th century AD through the analysis of human remains from nine European archaeological sites. Our data support an initial entry of the bacterium from Eastern Europe and the absence of genetic diversity during the Black Death as well as low diversity during local outbreaks thereafter. Moreover, analysis of post-Black Death genomes shows the diversification of a Y. pestis lineage into multiple genetically distinct clades that may have given rise to more than one disease reservoir in, or close to, Europe. Finally, we show the loss of a genomic region that includes virulence-associated genes in strains associated with late stages of the second plague pandemic (17th - 18th century AD). This deletion could not be detected in extant strains within our modern dataset, though it was identified in a today-extinct lineage associated with the first plague pandemic (6th - 8th century AD), suggesting convergent evolution during both pandemic events.

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 Dates: 2018-11-30
 Publication Status: Published online
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 Identifiers: DOI: 10.1101/481242
Other: shh2335
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Title: bioRxiv
Source Genre: Journal
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Publ. Info: Cold Spring Harbor Laboratory
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