Data from: AFLP genome scan in the black rat (Rattus rattus) from Madagascar: detecting genetic markers undergoing plague-mediated selection
The black rat (Rattus rattus) is the main reservoir of plague (Yersinia pestis infection) in Madagascar's rural zones. Black rats are highly resistant to plague within the plague focus (central highland), whereas they are susceptible where the disease is absent (low altitude zone). To better un...
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ftdans:oai:easy.dans.knaw.nl:easy-dataset:80496 2023-07-02T03:33:35+02:00 Data from: AFLP genome scan in the black rat (Rattus rattus) from Madagascar: detecting genetic markers undergoing plague-mediated selection Tollenaere, Charlotte Duplantier, Jean-Marc Rahalison, Lila Ranjalahy, Michel Brouat, Carine 2010-03-12T08:37:02.000+01:00 http://nbn-resolving.org/urn:nbn:nl:ui:13-4x-hdyp https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:80496 unknown doi:10.5061/dryad.1346/1 doi:10.5061/dryad.1346/2 doi:10.1111/j.1365-294X.2010.04633.x PMID:20444082 http://nbn-resolving.org/urn:nbn:nl:ui:13-4x-hdyp doi:10.5061/dryad.1346 https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:80496 OPEN_ACCESS: The data are archived in Easy, they are accessible elsewhere through the DOI https://dans.knaw.nl/en/about/organisation-and-policy/legal-information/DANSLicence.pdf Life sciences medicine and health care 2010 ftdans https://doi.org/10.5061/dryad.1346/110.5061/dryad.1346/210.1111/j.1365-294X.2010.04633.x10.5061/dryad.1346 2023-06-13T12:56:20Z The black rat (Rattus rattus) is the main reservoir of plague (Yersinia pestis infection) in Madagascar's rural zones. Black rats are highly resistant to plague within the plague focus (central highland), whereas they are susceptible where the disease is absent (low altitude zone). To better understand plague wildlife circulation and host evolution in response to a highly virulent pathogen, we attempted to determine genetic markers associated with plague resistance in this species. To this purpose, we combined a population genomics approach and an association study, both performed on 249 AFLP markers, in Malagasy R. rattus. Simulated distributions of genetic differentiation were compared to observed data in four independent pairs, each consisting of one population from the plague focus and one from the plague-free zone. We found 22 loci (9% of 249) with higher differentiation in at least two independent population pairs or with combining p-values over the four pairs significant. Among the 22 outlier loci, 16 presented significant association with plague zone (plague focus vs. plague-free zone). Population genetic structure inferred from outlier loci was structured by plague zone, whereas the neutral loci dataset revealed structure by geography (eastern vs. western populations). A phenotype association study revealed that two of the 22 loci were significantly associated with differentiation between dying and surviving rats following experimental plague challenge. The 22 outlier loci identified in this study may undergo plague selective pressure either directly or more probably indirectly due to hitchhiking with selected loci. Other/Unknown Material Rattus rattus Data Archiving and Networked Services (DANS): EASY (KNAW - Koninklijke Nederlandse Akademie van Wetenschappen) |
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Data Archiving and Networked Services (DANS): EASY (KNAW - Koninklijke Nederlandse Akademie van Wetenschappen) |
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Life sciences medicine and health care |
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Life sciences medicine and health care Tollenaere, Charlotte Duplantier, Jean-Marc Rahalison, Lila Ranjalahy, Michel Brouat, Carine Data from: AFLP genome scan in the black rat (Rattus rattus) from Madagascar: detecting genetic markers undergoing plague-mediated selection |
topic_facet |
Life sciences medicine and health care |
description |
The black rat (Rattus rattus) is the main reservoir of plague (Yersinia pestis infection) in Madagascar's rural zones. Black rats are highly resistant to plague within the plague focus (central highland), whereas they are susceptible where the disease is absent (low altitude zone). To better understand plague wildlife circulation and host evolution in response to a highly virulent pathogen, we attempted to determine genetic markers associated with plague resistance in this species. To this purpose, we combined a population genomics approach and an association study, both performed on 249 AFLP markers, in Malagasy R. rattus. Simulated distributions of genetic differentiation were compared to observed data in four independent pairs, each consisting of one population from the plague focus and one from the plague-free zone. We found 22 loci (9% of 249) with higher differentiation in at least two independent population pairs or with combining p-values over the four pairs significant. Among the 22 outlier loci, 16 presented significant association with plague zone (plague focus vs. plague-free zone). Population genetic structure inferred from outlier loci was structured by plague zone, whereas the neutral loci dataset revealed structure by geography (eastern vs. western populations). A phenotype association study revealed that two of the 22 loci were significantly associated with differentiation between dying and surviving rats following experimental plague challenge. The 22 outlier loci identified in this study may undergo plague selective pressure either directly or more probably indirectly due to hitchhiking with selected loci. |
author |
Tollenaere, Charlotte Duplantier, Jean-Marc Rahalison, Lila Ranjalahy, Michel Brouat, Carine |
author_facet |
Tollenaere, Charlotte Duplantier, Jean-Marc Rahalison, Lila Ranjalahy, Michel Brouat, Carine |
author_sort |
Tollenaere, Charlotte |
title |
Data from: AFLP genome scan in the black rat (Rattus rattus) from Madagascar: detecting genetic markers undergoing plague-mediated selection |
title_short |
Data from: AFLP genome scan in the black rat (Rattus rattus) from Madagascar: detecting genetic markers undergoing plague-mediated selection |
title_full |
Data from: AFLP genome scan in the black rat (Rattus rattus) from Madagascar: detecting genetic markers undergoing plague-mediated selection |
title_fullStr |
Data from: AFLP genome scan in the black rat (Rattus rattus) from Madagascar: detecting genetic markers undergoing plague-mediated selection |
title_full_unstemmed |
Data from: AFLP genome scan in the black rat (Rattus rattus) from Madagascar: detecting genetic markers undergoing plague-mediated selection |
title_sort |
data from: aflp genome scan in the black rat (rattus rattus) from madagascar: detecting genetic markers undergoing plague-mediated selection |
publishDate |
2010 |
url |
http://nbn-resolving.org/urn:nbn:nl:ui:13-4x-hdyp https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:80496 |
genre |
Rattus rattus |
genre_facet |
Rattus rattus |
op_relation |
doi:10.5061/dryad.1346/1 doi:10.5061/dryad.1346/2 doi:10.1111/j.1365-294X.2010.04633.x PMID:20444082 http://nbn-resolving.org/urn:nbn:nl:ui:13-4x-hdyp doi:10.5061/dryad.1346 https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:80496 |
op_rights |
OPEN_ACCESS: The data are archived in Easy, they are accessible elsewhere through the DOI https://dans.knaw.nl/en/about/organisation-and-policy/legal-information/DANSLicence.pdf |
op_doi |
https://doi.org/10.5061/dryad.1346/110.5061/dryad.1346/210.1111/j.1365-294X.2010.04633.x10.5061/dryad.1346 |
_version_ |
1770273601663008768 |