Significant variance in genetic diversity among populations of Schistosoma haematobium detected using microsatellite DNA loci from a genome-wide database

Detalhes bibliográficos
Autor(a) principal: Glenn, Travis C.
Data de Publicação: 2013
Outros Autores: Lance, Stacey L, McKee, Anna M, Webster, Bonnie L, Emery, Aidan M, Zerlotini Neto, Adhemar, Oliveira, Guilherme Correa de, Rollinson, David, Faircloth, Brant C
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Institucional da FIOCRUZ (ARCA)
DOI: 10.1186/1756-3305-6-300
Texto Completo: https://www.arca.fiocruz.br/handle/icict/59267
Resumo: Department of Environmental Health Science. University of Georgia. Athens, GA, USA.
id CRUZ_fd1e69a11d5410c5b9cb20a5c36da880
oai_identifier_str oai:www.arca.fiocruz.br:icict/59267
network_acronym_str CRUZ
network_name_str Repositório Institucional da FIOCRUZ (ARCA)
repository_id_str 2135
spelling Glenn, Travis C.Lance, Stacey LMcKee, Anna MWebster, Bonnie LEmery, Aidan MZerlotini Neto, AdhemarOliveira, Guilherme Correa deRollinson, DavidFaircloth, Brant C2023-06-29T18:27:01Z2023-06-29T18:27:01Z2013GLENN, Travis C et al. Significant variance in genetic diversity among populations of Schistosoma haematobium detected using microsatellite DNA loci from a genome-wide database. Parasites Vectors, v. 6, 300, 2013. https://doi.org/10.1186/1756-3305-6-3001756-3305https://www.arca.fiocruz.br/handle/icict/5926710.1186/1756-3305-6-300engBioMed CentralAfricaF-STSchistosoma haematobiumdiferenciaçãogenomicamicrossatelitesAfricaDifferentiationGenomicMicrosatellitesPrimer databaseSchistosoma haematobiumSchistosoma haematobiumSignificant variance in genetic diversity among populations of Schistosoma haematobium detected using microsatellite DNA loci from a genome-wide databaseinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleDepartment of Environmental Health Science. University of Georgia. Athens, GA, USA.Savannah River Ecology Laboratory. University of Georgia. Aiken, USA.Department of Environmental Health Science. University of Georgia. Athens, GA, USA/Warnell School of Forestry and Natural Resources. University of Georgia. Athens, GA, USA.Department of Life Sciences. Natural History Museum. Wolfson Wellcome Biomedical Laboratories. London, UK/Department of Infectious Disease Epidemiology. Imperial College Faculty of Medicine. London, UK.Department of Life Sciences. Natural History Museum. Wolfson Wellcome Biomedical Laboratories. London, UK.Rene Rachou Research Center. National Institute of Science and Technology in Tropical Diseases. Oswaldo Cruz Foundation. Belo Horizonte, MG, Brazil/Embrapa Agricultural Informatics. Campinas, SP, Brazil.Rene Rachou Research Center. National Institute of Science and Technology in Tropical Diseases. Oswaldo Cruz Foundation. Belo Horizonte, MG, Brazil.Department of Life Sciences. Natural History Museum. Wolfson Wellcome Biomedical Laboratories. London, UK.Department of Ecology and Evolutionary Biology. University of California. Los Angeles, CA, USA.Background: Urogenital schistosomiasis caused by Schistosoma haematobium is widely distributed across Africa and is increasingly being targeted for control. Genome sequences and population genetic parameters can give insight into the potential for population-or species-level drug resistance. Microsatellite DNA loci are genetic markers in wide use by Schistosoma researchers, but there are few primers available for S. haematobium. Methods: We sequenced 1,058,114 random DNA fragments from clonal cercariae collected from a snail infected with a single Schistosoma haematobium miracidium. We assembled and aligned the S. haematobium sequences to the genomes of S. mansoni and S. japonicum, identifying microsatellite DNA loci across all three species and designing primers to amplify the loci in S. haematobium. To validate our primers, we screened 32 randomly selected primer pairs with population samples of S. haematobium. Results: We designed > 13,790 primer pairs to amplify unique microsatellite loci in S. haematobium, (available at http://www.cebio.org/projetos/schistosoma-haematobium-genome). The three Schistosoma genomes contained similar overall frequencies of microsatellites, but the frequency and length distributions of specific motifs differed among species. We identified 15 primer pairs that amplified consistently and were easily scored. We genotyped these 15 loci in S. haematobium individuals from six locations: Zanzibar had the highest levels of diversity; Malawi, Mauritius, Nigeria, and Senegal were nearly as diverse; but the sample from South Africa was much less diverse. Conclusions: About half of the primers in the database of Schistosoma haematobium microsatellite DNA loci should yield amplifiable and easily scored polymorphic markers, thus providing thousands of potential markers. Sequence conservation among S. haematobium, S. japonicum, and S. mansoni is relatively high, thus it should now be possible to identify markers that are universal among Schistosoma species (i.e., using DNA sequences conserved among species), as well as other markers that are specific to species or species-groups (i.e., using DNA sequences that differ among species). Full genome-sequencing of additional species and specimens of S. haematobium, S. japonicum, and S. mansoni is desirable to better characterize differences within and among these species, to develop additional genetic markers, and to examine genes as well as conserved non-coding elements associated with drug resistanceinfo:eu-repo/semantics/openAccessreponame:Repositório Institucional da FIOCRUZ (ARCA)instname:Fundação Oswaldo Cruz (FIOCRUZ)instacron:FIOCRUZORIGINAL1756-3305-6-300.pdf1756-3305-6-300.pdfapplication/pdf514988https://www.arca.fiocruz.br/bitstream/icict/59267/2/1756-3305-6-300.pdfdc300fd3650d0344e5024aa8ed4a238bMD52LICENSElicense.txttext/plain1748https://www.arca.fiocruz.br/bitstream/icict/59267/1/license.txt8a4605be74aa9ea9d79846c1fba20a33MD51icict/592672023-06-29 15:27:03.135oai:www.arca.fiocruz.br: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Repositório InstitucionalPUBhttps://www.arca.fiocruz.br/oai/requestrepositorio.arca@fiocruz.bropendoar:21352023-06-29T18:27:03Repositório Institucional da FIOCRUZ (ARCA) - Fundação Oswaldo Cruz (FIOCRUZ)false
dc.title.en_US.fl_str_mv Significant variance in genetic diversity among populations of Schistosoma haematobium detected using microsatellite DNA loci from a genome-wide database
title Significant variance in genetic diversity among populations of Schistosoma haematobium detected using microsatellite DNA loci from a genome-wide database
spellingShingle Significant variance in genetic diversity among populations of Schistosoma haematobium detected using microsatellite DNA loci from a genome-wide database
Glenn, Travis C.
Africa
F-ST
Schistosoma haematobium
diferenciação
genomica
microssatelites
Africa
Differentiation
Genomic
Microsatellites
Primer database
Schistosoma haematobium
Schistosoma haematobium
title_short Significant variance in genetic diversity among populations of Schistosoma haematobium detected using microsatellite DNA loci from a genome-wide database
title_full Significant variance in genetic diversity among populations of Schistosoma haematobium detected using microsatellite DNA loci from a genome-wide database
title_fullStr Significant variance in genetic diversity among populations of Schistosoma haematobium detected using microsatellite DNA loci from a genome-wide database
title_full_unstemmed Significant variance in genetic diversity among populations of Schistosoma haematobium detected using microsatellite DNA loci from a genome-wide database
title_sort Significant variance in genetic diversity among populations of Schistosoma haematobium detected using microsatellite DNA loci from a genome-wide database
author Glenn, Travis C.
author_facet Glenn, Travis C.
Lance, Stacey L
McKee, Anna M
Webster, Bonnie L
Emery, Aidan M
Zerlotini Neto, Adhemar
Oliveira, Guilherme Correa de
Rollinson, David
Faircloth, Brant C
author_role author
author2 Lance, Stacey L
McKee, Anna M
Webster, Bonnie L
Emery, Aidan M
Zerlotini Neto, Adhemar
Oliveira, Guilherme Correa de
Rollinson, David
Faircloth, Brant C
author2_role author
author
author
author
author
author
author
author
dc.contributor.author.fl_str_mv Glenn, Travis C.
Lance, Stacey L
McKee, Anna M
Webster, Bonnie L
Emery, Aidan M
Zerlotini Neto, Adhemar
Oliveira, Guilherme Correa de
Rollinson, David
Faircloth, Brant C
dc.subject.other.en_US.fl_str_mv Africa
F-ST
Schistosoma haematobium
diferenciação
genomica
microssatelites
topic Africa
F-ST
Schistosoma haematobium
diferenciação
genomica
microssatelites
Africa
Differentiation
Genomic
Microsatellites
Primer database
Schistosoma haematobium
Schistosoma haematobium
dc.subject.en.en_US.fl_str_mv Africa
Differentiation
Genomic
Microsatellites
Primer database
Schistosoma haematobium
Schistosoma haematobium
description Department of Environmental Health Science. University of Georgia. Athens, GA, USA.
publishDate 2013
dc.date.issued.fl_str_mv 2013
dc.date.accessioned.fl_str_mv 2023-06-29T18:27:01Z
dc.date.available.fl_str_mv 2023-06-29T18:27:01Z
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.citation.fl_str_mv GLENN, Travis C et al. Significant variance in genetic diversity among populations of Schistosoma haematobium detected using microsatellite DNA loci from a genome-wide database. Parasites Vectors, v. 6, 300, 2013. https://doi.org/10.1186/1756-3305-6-300
dc.identifier.uri.fl_str_mv https://www.arca.fiocruz.br/handle/icict/59267
dc.identifier.issn.en_US.fl_str_mv 1756-3305
dc.identifier.doi.none.fl_str_mv 10.1186/1756-3305-6-300
identifier_str_mv GLENN, Travis C et al. Significant variance in genetic diversity among populations of Schistosoma haematobium detected using microsatellite DNA loci from a genome-wide database. Parasites Vectors, v. 6, 300, 2013. https://doi.org/10.1186/1756-3305-6-300
1756-3305
10.1186/1756-3305-6-300
url https://www.arca.fiocruz.br/handle/icict/59267
dc.language.iso.fl_str_mv eng
language eng
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.publisher.none.fl_str_mv BioMed Central
publisher.none.fl_str_mv BioMed Central
dc.source.none.fl_str_mv reponame:Repositório Institucional da FIOCRUZ (ARCA)
instname:Fundação Oswaldo Cruz (FIOCRUZ)
instacron:FIOCRUZ
instname_str Fundação Oswaldo Cruz (FIOCRUZ)
instacron_str FIOCRUZ
institution FIOCRUZ
reponame_str Repositório Institucional da FIOCRUZ (ARCA)
collection Repositório Institucional da FIOCRUZ (ARCA)
bitstream.url.fl_str_mv https://www.arca.fiocruz.br/bitstream/icict/59267/2/1756-3305-6-300.pdf
https://www.arca.fiocruz.br/bitstream/icict/59267/1/license.txt
bitstream.checksum.fl_str_mv dc300fd3650d0344e5024aa8ed4a238b
8a4605be74aa9ea9d79846c1fba20a33
bitstream.checksumAlgorithm.fl_str_mv MD5
MD5
repository.name.fl_str_mv Repositório Institucional da FIOCRUZ (ARCA) - Fundação Oswaldo Cruz (FIOCRUZ)
repository.mail.fl_str_mv repositorio.arca@fiocruz.br
_version_ 1822791951594815488

Registros relacionados