The effect of sample size on estimates of genetic differentiation and effective population size for Schistosoma mansoni populations
| Autor(a) principal: | |
|---|---|
| Data de Publicação: | 2018 |
| Outros Autores: | , , , , |
| Tipo de documento: | Artigo |
| Idioma: | por |
| Título da fonte: | Repositório Institucional da FIOCRUZ (ARCA) |
| Texto Completo: | https://www.arca.fiocruz.br/handle/icict/30287 |
Resumo: | National Institutes of Health, USA, grants R01 AI069195 and R01 AI121330. |
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Barbosa, Lúcio MacedoBarros, Bruna CRodrigues, Moreno Magalhães de SouzaSilva, Luciano KalabricReis, Mitermayer Galvão dosBlanton, Ronald Edward2018-11-28T17:25:31Z2018-11-28T17:25:31Z2018BARBOSA, L. M. et al. The effect of sample size on estimates of genetic differentiation and effective population size for Schistosoma mansoni populations. International Journal for Parasitology, 2018.0020-7519https://www.arca.fiocruz.br/handle/icict/3028710.1016/j.ijpara.2018.10.001National Institutes of Health, USA, grants R01 AI069195 and R01 AI121330.Fundação Oswaldo Cruz. Instituto Gonçalo Moniz. Salvador, BA, Brasil / Escola Bahiana de Medicina e Saúde Pública. Salvador, BA, Brasil.Escola Bahiana de Medicina e Saúde Pública. Salvador, BA, Brasil.Fundação Oswaldo Cruz. Instituto Gonçalo Moniz. Salvador, BA, Brasil.Fundação Oswaldo Cruz. Instituto Gonçalo Moniz. Salvador, BA, Brasil.Fundação Oswaldo Cruz. Instituto Gonçalo Moniz. Salvador, BA, Brasil / Escola Bahiana de Medicina e Saúde Pública. Salvador, BA, Brasil.Case Western Reserve University. Center for Global Health and Diseases. Biomedical Research Building. Cleveland, OH, USA.Eradication or local extinction of the human parasite Schistosoma mansoni is a goal for many control programs. Population genetic analyses are helping to evaluate and guide these efforts, yet what to sample, how to sample and how densely to sample is not well established. We determined the S. mansoni allele frequency profile of nearly all infected inhabitants in two small Brazilian communities and created sub-samples representing 5-50% of all detected human infections (infrapopulations). Samples were selected at random with replacement, and each size class was replicated 100 times. Mean pairwise differentiation for all infrapopulations (Di) and the variance effective population size (Ne) were calculated for each sample. Prior to community-wide treatment, the true mean Di was moderate (0.095-0.123) and Ne large (>30,000). Most samples of <50% of those infected produced estimates outside of 5% of the true value. For estimates within 10%, sample sizes of >15% of all infrapopulations were required. At the 3 year follow-up after treatment, the Di increased and Ne was reduced by >15 fold. At this time sampling of >30-45% was needed to achieve the same accuracy. Following a second treatment and 4 years from baseline, the Di further increased and Ne decreased with little change in the sampling effort required. Extensive sampling is required for accurate estimates of these important population parameters. Characteristics such as population census size, infection prevalence, the community's treatment history and the degree of infrapopulation differentiation should be taken into account. The intensity of infection was weakly correlated with the ability of a single infrapopulation to represent the component population (Dic), indicating a tendency toward random acquisition of parasite genotypes. This also suggests that targeted sampling from those most heavily infected will better represent the genetic diversity of the whole community than a random sample of infrapopulations.porElsevierGenética de populaçõesOvos de fezesTamanho efetivo da populaçãoJost's DInfrapopulaçãoBrasilPopulation geneticsStool eggsEffective population sizeJost’s DInfrapopulationBrazilThe effect of sample size on estimates of genetic differentiation and effective population size for Schistosoma mansoni populationsinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleinfo:eu-repo/semantics/openAccessreponame:Repositório Institucional da FIOCRUZ (ARCA)instname:Fundação Oswaldo Cruz (FIOCRUZ)instacron:FIOCRUZLICENSElicense.txtlicense.txttext/plain; charset=utf-82991https://www.arca.fiocruz.br/bitstream/icict/30287/1/license.txt5a560609d32a3863062d77ff32785d58MD51ORIGINALBarbosa LM. The effect of sample... 2018.pdfBarbosa LM. 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| dc.title.pt_BR.fl_str_mv |
The effect of sample size on estimates of genetic differentiation and effective population size for Schistosoma mansoni populations |
| title |
The effect of sample size on estimates of genetic differentiation and effective population size for Schistosoma mansoni populations |
| spellingShingle |
The effect of sample size on estimates of genetic differentiation and effective population size for Schistosoma mansoni populations Barbosa, Lúcio Macedo Genética de populações Ovos de fezes Tamanho efetivo da população Jost's D Infrapopulação Brasil Population genetics Stool eggs Effective population size Jost’s D Infrapopulation Brazil |
| title_short |
The effect of sample size on estimates of genetic differentiation and effective population size for Schistosoma mansoni populations |
| title_full |
The effect of sample size on estimates of genetic differentiation and effective population size for Schistosoma mansoni populations |
| title_fullStr |
The effect of sample size on estimates of genetic differentiation and effective population size for Schistosoma mansoni populations |
| title_full_unstemmed |
The effect of sample size on estimates of genetic differentiation and effective population size for Schistosoma mansoni populations |
| title_sort |
The effect of sample size on estimates of genetic differentiation and effective population size for Schistosoma mansoni populations |
| author |
Barbosa, Lúcio Macedo |
| author_facet |
Barbosa, Lúcio Macedo Barros, Bruna C Rodrigues, Moreno Magalhães de Souza Silva, Luciano Kalabric Reis, Mitermayer Galvão dos Blanton, Ronald Edward |
| author_role |
author |
| author2 |
Barros, Bruna C Rodrigues, Moreno Magalhães de Souza Silva, Luciano Kalabric Reis, Mitermayer Galvão dos Blanton, Ronald Edward |
| author2_role |
author author author author author |
| dc.contributor.author.fl_str_mv |
Barbosa, Lúcio Macedo Barros, Bruna C Rodrigues, Moreno Magalhães de Souza Silva, Luciano Kalabric Reis, Mitermayer Galvão dos Blanton, Ronald Edward |
| dc.subject.other.pt_BR.fl_str_mv |
Genética de populações Ovos de fezes Tamanho efetivo da população Jost's D Infrapopulação Brasil |
| topic |
Genética de populações Ovos de fezes Tamanho efetivo da população Jost's D Infrapopulação Brasil Population genetics Stool eggs Effective population size Jost’s D Infrapopulation Brazil |
| dc.subject.en.pt_BR.fl_str_mv |
Population genetics Stool eggs Effective population size Jost’s D Infrapopulation Brazil |
| description |
National Institutes of Health, USA, grants R01 AI069195 and R01 AI121330. |
| publishDate |
2018 |
| dc.date.accessioned.fl_str_mv |
2018-11-28T17:25:31Z |
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2018-11-28T17:25:31Z |
| dc.date.issued.fl_str_mv |
2018 |
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info:eu-repo/semantics/publishedVersion |
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info:eu-repo/semantics/article |
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article |
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publishedVersion |
| dc.identifier.citation.fl_str_mv |
BARBOSA, L. M. et al. The effect of sample size on estimates of genetic differentiation and effective population size for Schistosoma mansoni populations. International Journal for Parasitology, 2018. |
| dc.identifier.uri.fl_str_mv |
https://www.arca.fiocruz.br/handle/icict/30287 |
| dc.identifier.issn.pt_BR.fl_str_mv |
0020-7519 |
| dc.identifier.doi.none.fl_str_mv |
10.1016/j.ijpara.2018.10.001 |
| identifier_str_mv |
BARBOSA, L. M. et al. The effect of sample size on estimates of genetic differentiation and effective population size for Schistosoma mansoni populations. International Journal for Parasitology, 2018. 0020-7519 10.1016/j.ijpara.2018.10.001 |
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https://www.arca.fiocruz.br/handle/icict/30287 |
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por |
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por |
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info:eu-repo/semantics/openAccess |
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openAccess |
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Elsevier |
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Elsevier |
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