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Inferred relatedness and heritability in malaria parasites
Malaria parasites vary in phenotypic traits of biomedical or biological interest such as growth rate, virulence, sex ratio and drug resistance, and there is considerable interest in identifying the genes that underlie this variation. An important first step is to determine trait heritability (H(2))....
Autores principales: | , , , , , , , |
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Formato: | Texto |
Lenguaje: | English |
Publicado: |
The Royal Society
2010
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2894920/ https://www.ncbi.nlm.nih.gov/pubmed/20392725 http://dx.doi.org/10.1098/rspb.2010.0196 |
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author | Anderson, Tim J. C. Williams, Jeff T. Nair, Shalini Sudimack, Daniel Barends, Marion Jaidee, Anchalee Price, Ric N. Nosten, François |
author_facet | Anderson, Tim J. C. Williams, Jeff T. Nair, Shalini Sudimack, Daniel Barends, Marion Jaidee, Anchalee Price, Ric N. Nosten, François |
author_sort | Anderson, Tim J. C. |
collection | PubMed |
description | Malaria parasites vary in phenotypic traits of biomedical or biological interest such as growth rate, virulence, sex ratio and drug resistance, and there is considerable interest in identifying the genes that underlie this variation. An important first step is to determine trait heritability (H(2)). We evaluate two approaches to measuring H(2) in natural parasite populations using relatedness inferred from genetic marker data. We collected single-clone Plasmodium falciparum infections from 185 patients from the Thailand–Burma border, monitored parasite clearance following treatment with artemisinin combination therapy (ACT), measured resistance to six antimalarial drugs and genotyped parasites using 335 microsatellites. We found strong relatedness structure. There were 27 groups of two to eight clonally identical (CI) parasites, and 74 per cent of parasites showed significant relatedness to one or more other parasites. Initially, we used matrices of allele sharing and variance components (VC) methods to estimate H(2). Inhibitory concentrations (IC(50)) for six drugs showed significant H(2) (0.24 to 0.79, p = 0.06 to 2.85 × 10(−9)), demonstrating that this study design has adequate power. However, a phenotype of current interest—parasite clearance following ACT—showed no detectable heritability (H(2) = 0–0.09, ns) in this population. The existence of CI parasites allows the use of a simple ANOVA approach for quantifying H(2), analogous to that used in human twin studies. This gave similar results to the VC method and requires considerably less genotyping information. We conclude (i) that H(2) can be effectively measured in malaria parasite populations using minimal genotype data, allowing rational design of genome-wide association studies; and (ii) while drug response (IC(50)) shows significant H(2), parasite clearance following ACT was not heritable in the population studied. |
format | Text |
id | pubmed-2894920 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2010 |
publisher | The Royal Society |
record_format | MEDLINE/PubMed |
spelling | pubmed-28949202010-07-02 Inferred relatedness and heritability in malaria parasites Anderson, Tim J. C. Williams, Jeff T. Nair, Shalini Sudimack, Daniel Barends, Marion Jaidee, Anchalee Price, Ric N. Nosten, François Proc Biol Sci Research articles Malaria parasites vary in phenotypic traits of biomedical or biological interest such as growth rate, virulence, sex ratio and drug resistance, and there is considerable interest in identifying the genes that underlie this variation. An important first step is to determine trait heritability (H(2)). We evaluate two approaches to measuring H(2) in natural parasite populations using relatedness inferred from genetic marker data. We collected single-clone Plasmodium falciparum infections from 185 patients from the Thailand–Burma border, monitored parasite clearance following treatment with artemisinin combination therapy (ACT), measured resistance to six antimalarial drugs and genotyped parasites using 335 microsatellites. We found strong relatedness structure. There were 27 groups of two to eight clonally identical (CI) parasites, and 74 per cent of parasites showed significant relatedness to one or more other parasites. Initially, we used matrices of allele sharing and variance components (VC) methods to estimate H(2). Inhibitory concentrations (IC(50)) for six drugs showed significant H(2) (0.24 to 0.79, p = 0.06 to 2.85 × 10(−9)), demonstrating that this study design has adequate power. However, a phenotype of current interest—parasite clearance following ACT—showed no detectable heritability (H(2) = 0–0.09, ns) in this population. The existence of CI parasites allows the use of a simple ANOVA approach for quantifying H(2), analogous to that used in human twin studies. This gave similar results to the VC method and requires considerably less genotyping information. We conclude (i) that H(2) can be effectively measured in malaria parasite populations using minimal genotype data, allowing rational design of genome-wide association studies; and (ii) while drug response (IC(50)) shows significant H(2), parasite clearance following ACT was not heritable in the population studied. The Royal Society 2010-08-22 2010-04-14 /pmc/articles/PMC2894920/ /pubmed/20392725 http://dx.doi.org/10.1098/rspb.2010.0196 Text en © 2010 The Royal Society http://creativecommons.org/licenses/by/2.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Research articles Anderson, Tim J. C. Williams, Jeff T. Nair, Shalini Sudimack, Daniel Barends, Marion Jaidee, Anchalee Price, Ric N. Nosten, François Inferred relatedness and heritability in malaria parasites |
title | Inferred relatedness and heritability in malaria parasites |
title_full | Inferred relatedness and heritability in malaria parasites |
title_fullStr | Inferred relatedness and heritability in malaria parasites |
title_full_unstemmed | Inferred relatedness and heritability in malaria parasites |
title_short | Inferred relatedness and heritability in malaria parasites |
title_sort | inferred relatedness and heritability in malaria parasites |
topic | Research articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2894920/ https://www.ncbi.nlm.nih.gov/pubmed/20392725 http://dx.doi.org/10.1098/rspb.2010.0196 |
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