Temporal phylogeography of Yersinia pestis in Madagascar: Insights into the long-term maintenance of plague.
Yersinia pestis appears to be maintained in multiple, geographically separate, and phylogenetically distinct subpopulations within the highlands of Madagascar. However, the dynamics of these locally differentiated subpopulations through time are mostly unknown. To address that gap and further inform...
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ftdoajarticles:oai:doaj.org/article:186a17beb1514134b6597038cc59b38c 2023-05-15T15:15:59+02:00 Temporal phylogeography of Yersinia pestis in Madagascar: Insights into the long-term maintenance of plague. Amy J Vogler Voahangy Andrianaivoarimanana Sandra Telfer Carina M Hall Jason W Sahl Crystal M Hepp Heather Centner Genevieve Andersen Dawn N Birdsell Lila Rahalison Roxanne Nottingham Paul Keim David M Wagner Minoarisoa Rajerison 2017-09-01T00:00:00Z https://doi.org/10.1371/journal.pntd.0005887 https://doaj.org/article/186a17beb1514134b6597038cc59b38c EN eng Public Library of Science (PLoS) http://europepmc.org/articles/PMC5600411?pdf=render https://doaj.org/toc/1935-2727 https://doaj.org/toc/1935-2735 1935-2727 1935-2735 doi:10.1371/journal.pntd.0005887 https://doaj.org/article/186a17beb1514134b6597038cc59b38c PLoS Neglected Tropical Diseases, Vol 11, Iss 9, p e0005887 (2017) Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 article 2017 ftdoajarticles https://doi.org/10.1371/journal.pntd.0005887 2022-12-31T01:43:19Z Yersinia pestis appears to be maintained in multiple, geographically separate, and phylogenetically distinct subpopulations within the highlands of Madagascar. However, the dynamics of these locally differentiated subpopulations through time are mostly unknown. To address that gap and further inform our understanding of plague epidemiology, we investigated the phylogeography of Y. pestis in Madagascar over an 18 year period.We generated whole genome sequences for 31 strains and discovered new SNPs that we used in conjunction with previously identified SNPs and variable-number tandem repeats (VNTRs) to genotype 773 Malagasy Y. pestis samples from 1995 to 2012. We mapped the locations where samples were obtained on a fine geographic scale to examine phylogeographic patterns through time. We identified 18 geographically separate and phylogenetically distinct subpopulations that display spatial and temporal stability, persisting in the same locations over a period of almost two decades. We found that geographic areas with higher levels of topographical relief are associated with greater levels of phylogenetic diversity and that sampling frequency can vary considerably among subpopulations and from year to year. We also found evidence of various Y. pestis dispersal events, including over long distances, but no evidence that any dispersal events resulted in successful establishment of a transferred genotype in a new location during the examined time period.Our analysis suggests that persistent endemic cycles of Y. pestis transmission within local areas are responsible for the long term maintenance of plague in Madagascar, rather than repeated episodes of wide scale epidemic spread. Landscape likely plays a role in maintaining Y. pestis subpopulations in Madagascar, with increased topographical relief associated with increased levels of localized differentiation. Local ecological factors likely affect the dynamics of individual subpopulations and the associated likelihood of observing human plague cases in a given year ... Article in Journal/Newspaper Arctic Directory of Open Access Journals: DOAJ Articles Arctic PLOS Neglected Tropical Diseases 11 9 e0005887 |
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Directory of Open Access Journals: DOAJ Articles |
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English |
topic |
Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 |
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Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 Amy J Vogler Voahangy Andrianaivoarimanana Sandra Telfer Carina M Hall Jason W Sahl Crystal M Hepp Heather Centner Genevieve Andersen Dawn N Birdsell Lila Rahalison Roxanne Nottingham Paul Keim David M Wagner Minoarisoa Rajerison Temporal phylogeography of Yersinia pestis in Madagascar: Insights into the long-term maintenance of plague. |
topic_facet |
Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 |
description |
Yersinia pestis appears to be maintained in multiple, geographically separate, and phylogenetically distinct subpopulations within the highlands of Madagascar. However, the dynamics of these locally differentiated subpopulations through time are mostly unknown. To address that gap and further inform our understanding of plague epidemiology, we investigated the phylogeography of Y. pestis in Madagascar over an 18 year period.We generated whole genome sequences for 31 strains and discovered new SNPs that we used in conjunction with previously identified SNPs and variable-number tandem repeats (VNTRs) to genotype 773 Malagasy Y. pestis samples from 1995 to 2012. We mapped the locations where samples were obtained on a fine geographic scale to examine phylogeographic patterns through time. We identified 18 geographically separate and phylogenetically distinct subpopulations that display spatial and temporal stability, persisting in the same locations over a period of almost two decades. We found that geographic areas with higher levels of topographical relief are associated with greater levels of phylogenetic diversity and that sampling frequency can vary considerably among subpopulations and from year to year. We also found evidence of various Y. pestis dispersal events, including over long distances, but no evidence that any dispersal events resulted in successful establishment of a transferred genotype in a new location during the examined time period.Our analysis suggests that persistent endemic cycles of Y. pestis transmission within local areas are responsible for the long term maintenance of plague in Madagascar, rather than repeated episodes of wide scale epidemic spread. Landscape likely plays a role in maintaining Y. pestis subpopulations in Madagascar, with increased topographical relief associated with increased levels of localized differentiation. Local ecological factors likely affect the dynamics of individual subpopulations and the associated likelihood of observing human plague cases in a given year ... |
format |
Article in Journal/Newspaper |
author |
Amy J Vogler Voahangy Andrianaivoarimanana Sandra Telfer Carina M Hall Jason W Sahl Crystal M Hepp Heather Centner Genevieve Andersen Dawn N Birdsell Lila Rahalison Roxanne Nottingham Paul Keim David M Wagner Minoarisoa Rajerison |
author_facet |
Amy J Vogler Voahangy Andrianaivoarimanana Sandra Telfer Carina M Hall Jason W Sahl Crystal M Hepp Heather Centner Genevieve Andersen Dawn N Birdsell Lila Rahalison Roxanne Nottingham Paul Keim David M Wagner Minoarisoa Rajerison |
author_sort |
Amy J Vogler |
title |
Temporal phylogeography of Yersinia pestis in Madagascar: Insights into the long-term maintenance of plague. |
title_short |
Temporal phylogeography of Yersinia pestis in Madagascar: Insights into the long-term maintenance of plague. |
title_full |
Temporal phylogeography of Yersinia pestis in Madagascar: Insights into the long-term maintenance of plague. |
title_fullStr |
Temporal phylogeography of Yersinia pestis in Madagascar: Insights into the long-term maintenance of plague. |
title_full_unstemmed |
Temporal phylogeography of Yersinia pestis in Madagascar: Insights into the long-term maintenance of plague. |
title_sort |
temporal phylogeography of yersinia pestis in madagascar: insights into the long-term maintenance of plague. |
publisher |
Public Library of Science (PLoS) |
publishDate |
2017 |
url |
https://doi.org/10.1371/journal.pntd.0005887 https://doaj.org/article/186a17beb1514134b6597038cc59b38c |
geographic |
Arctic |
geographic_facet |
Arctic |
genre |
Arctic |
genre_facet |
Arctic |
op_source |
PLoS Neglected Tropical Diseases, Vol 11, Iss 9, p e0005887 (2017) |
op_relation |
http://europepmc.org/articles/PMC5600411?pdf=render https://doaj.org/toc/1935-2727 https://doaj.org/toc/1935-2735 1935-2727 1935-2735 doi:10.1371/journal.pntd.0005887 https://doaj.org/article/186a17beb1514134b6597038cc59b38c |
op_doi |
https://doi.org/10.1371/journal.pntd.0005887 |
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PLOS Neglected Tropical Diseases |
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11 |
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9 |
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e0005887 |
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