Private selective sweeps identified from next-generation pool-sequencing reveal convergent pathways under selection in two inbred Schistosoma mansoni strains.
BACKGROUND: The trematode flatworms of the genus Schistosoma, the causative agents of schistosomiasis, are among the most prevalent parasites in humans, affecting more than 200 million people worldwide. In this study, we focused on two well-characterized strains of S. mansoni, to explore signatures...
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ftdoajarticles:oai:doaj.org/article:de8c8f40f7e24c15978d12fe2e7c0ce4 2023-05-15T15:12:11+02:00 Private selective sweeps identified from next-generation pool-sequencing reveal convergent pathways under selection in two inbred Schistosoma mansoni strains. Julie A J Clément Eve Toulza Mathieu Gautier Hugues Parrinello David Roquis Jérôme Boissier Anne Rognon Hélène Moné Gabriel Mouahid Jérôme Buard Guillaume Mitta Christoph Grunau 2013-01-01T00:00:00Z https://doi.org/10.1371/journal.pntd.0002591 https://doaj.org/article/de8c8f40f7e24c15978d12fe2e7c0ce4 EN eng Public Library of Science (PLoS) http://europepmc.org/articles/PMC3861164?pdf=render https://doaj.org/toc/1935-2727 https://doaj.org/toc/1935-2735 1935-2727 1935-2735 doi:10.1371/journal.pntd.0002591 https://doaj.org/article/de8c8f40f7e24c15978d12fe2e7c0ce4 PLoS Neglected Tropical Diseases, Vol 7, Iss 12, p e2591 (2013) Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 article 2013 ftdoajarticles https://doi.org/10.1371/journal.pntd.0002591 2022-12-31T14:13:26Z BACKGROUND: The trematode flatworms of the genus Schistosoma, the causative agents of schistosomiasis, are among the most prevalent parasites in humans, affecting more than 200 million people worldwide. In this study, we focused on two well-characterized strains of S. mansoni, to explore signatures of selection. Both strains are highly inbred and exhibit differences in life history traits, in particular in their compatibility with the intermediate host Biomphalaria glabrata. METHODOLOGY/PRINCIPAL FINDINGS: We performed high throughput sequencing of DNA from pools of individuals of each strain using Illumina technology and identified single nucleotide polymorphisms (SNP) and copy number variations (CNV). In total, 708,898 SNPs were identified and roughly 2,000 CNVs. The SNPs revealed low nucleotide diversity (π = 2 × 10(-4)) within each strain and a high differentiation level (Fst = 0.73) between them. Based on a recently developed in-silico approach, we further detected 12 and 19 private (i.e. specific non-overlapping) selective sweeps among the 121 and 151 sweeps found in total for each strain. CONCLUSIONS/SIGNIFICANCE: Functional annotation of transcripts lying in the private selective sweeps revealed specific selection for functions related to parasitic interaction (e.g. cell-cell adhesion or redox reactions). Despite high differentiation between strains, we identified evolutionary convergence of genes related to proteolysis, known as a key virulence factor and a potential target of drug and vaccine development. Our data show that pool-sequencing can be used for the detection of selective sweeps in parasite populations and enables one to identify biological functions under selection. Article in Journal/Newspaper Arctic Directory of Open Access Journals: DOAJ Articles Arctic PLoS Neglected Tropical Diseases 7 12 e2591 |
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Open Polar |
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Directory of Open Access Journals: DOAJ Articles |
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ftdoajarticles |
language |
English |
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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 Julie A J Clément Eve Toulza Mathieu Gautier Hugues Parrinello David Roquis Jérôme Boissier Anne Rognon Hélène Moné Gabriel Mouahid Jérôme Buard Guillaume Mitta Christoph Grunau Private selective sweeps identified from next-generation pool-sequencing reveal convergent pathways under selection in two inbred Schistosoma mansoni strains. |
topic_facet |
Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 |
description |
BACKGROUND: The trematode flatworms of the genus Schistosoma, the causative agents of schistosomiasis, are among the most prevalent parasites in humans, affecting more than 200 million people worldwide. In this study, we focused on two well-characterized strains of S. mansoni, to explore signatures of selection. Both strains are highly inbred and exhibit differences in life history traits, in particular in their compatibility with the intermediate host Biomphalaria glabrata. METHODOLOGY/PRINCIPAL FINDINGS: We performed high throughput sequencing of DNA from pools of individuals of each strain using Illumina technology and identified single nucleotide polymorphisms (SNP) and copy number variations (CNV). In total, 708,898 SNPs were identified and roughly 2,000 CNVs. The SNPs revealed low nucleotide diversity (π = 2 × 10(-4)) within each strain and a high differentiation level (Fst = 0.73) between them. Based on a recently developed in-silico approach, we further detected 12 and 19 private (i.e. specific non-overlapping) selective sweeps among the 121 and 151 sweeps found in total for each strain. CONCLUSIONS/SIGNIFICANCE: Functional annotation of transcripts lying in the private selective sweeps revealed specific selection for functions related to parasitic interaction (e.g. cell-cell adhesion or redox reactions). Despite high differentiation between strains, we identified evolutionary convergence of genes related to proteolysis, known as a key virulence factor and a potential target of drug and vaccine development. Our data show that pool-sequencing can be used for the detection of selective sweeps in parasite populations and enables one to identify biological functions under selection. |
format |
Article in Journal/Newspaper |
author |
Julie A J Clément Eve Toulza Mathieu Gautier Hugues Parrinello David Roquis Jérôme Boissier Anne Rognon Hélène Moné Gabriel Mouahid Jérôme Buard Guillaume Mitta Christoph Grunau |
author_facet |
Julie A J Clément Eve Toulza Mathieu Gautier Hugues Parrinello David Roquis Jérôme Boissier Anne Rognon Hélène Moné Gabriel Mouahid Jérôme Buard Guillaume Mitta Christoph Grunau |
author_sort |
Julie A J Clément |
title |
Private selective sweeps identified from next-generation pool-sequencing reveal convergent pathways under selection in two inbred Schistosoma mansoni strains. |
title_short |
Private selective sweeps identified from next-generation pool-sequencing reveal convergent pathways under selection in two inbred Schistosoma mansoni strains. |
title_full |
Private selective sweeps identified from next-generation pool-sequencing reveal convergent pathways under selection in two inbred Schistosoma mansoni strains. |
title_fullStr |
Private selective sweeps identified from next-generation pool-sequencing reveal convergent pathways under selection in two inbred Schistosoma mansoni strains. |
title_full_unstemmed |
Private selective sweeps identified from next-generation pool-sequencing reveal convergent pathways under selection in two inbred Schistosoma mansoni strains. |
title_sort |
private selective sweeps identified from next-generation pool-sequencing reveal convergent pathways under selection in two inbred schistosoma mansoni strains. |
publisher |
Public Library of Science (PLoS) |
publishDate |
2013 |
url |
https://doi.org/10.1371/journal.pntd.0002591 https://doaj.org/article/de8c8f40f7e24c15978d12fe2e7c0ce4 |
geographic |
Arctic |
geographic_facet |
Arctic |
genre |
Arctic |
genre_facet |
Arctic |
op_source |
PLoS Neglected Tropical Diseases, Vol 7, Iss 12, p e2591 (2013) |
op_relation |
http://europepmc.org/articles/PMC3861164?pdf=render https://doaj.org/toc/1935-2727 https://doaj.org/toc/1935-2735 1935-2727 1935-2735 doi:10.1371/journal.pntd.0002591 https://doaj.org/article/de8c8f40f7e24c15978d12fe2e7c0ce4 |
op_doi |
https://doi.org/10.1371/journal.pntd.0002591 |
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PLoS Neglected Tropical Diseases |
container_volume |
7 |
container_issue |
12 |
container_start_page |
e2591 |
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1766342910385586176 |