Genome-wide diversity and differentiation in New World populations of the human malaria parasite Plasmodium vivax.
The Americas were the last continent colonized by humans carrying malaria parasites. Plasmodium falciparum from the New World shows very little genetic diversity and greater linkage disequilibrium, compared with its African counterparts, and is clearly subdivided into local, highly divergent populat...
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ftdoajarticles:oai:doaj.org/article:1bca1ab26a854e1bb50ec3c9596fa26f 2023-05-15T15:15:06+02:00 Genome-wide diversity and differentiation in New World populations of the human malaria parasite Plasmodium vivax. Thais C de Oliveira Priscila T Rodrigues Maria José Menezes Raquel M Gonçalves-Lopes Melissa S Bastos Nathália F Lima Susana Barbosa Alexandra L Gerber Guilherme Loss de Morais Luisa Berná Jody Phelan Carlos Robello Ana Tereza R de Vasconcelos João Marcelo P Alves Marcelo U Ferreira 2017-07-01T00:00:00Z https://doi.org/10.1371/journal.pntd.0005824 https://doaj.org/article/1bca1ab26a854e1bb50ec3c9596fa26f EN eng Public Library of Science (PLoS) http://europepmc.org/articles/PMC5552344?pdf=render https://doaj.org/toc/1935-2727 https://doaj.org/toc/1935-2735 1935-2727 1935-2735 doi:10.1371/journal.pntd.0005824 https://doaj.org/article/1bca1ab26a854e1bb50ec3c9596fa26f PLoS Neglected Tropical Diseases, Vol 11, Iss 7, p e0005824 (2017) Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 article 2017 ftdoajarticles https://doi.org/10.1371/journal.pntd.0005824 2022-12-31T15:18:40Z The Americas were the last continent colonized by humans carrying malaria parasites. Plasmodium falciparum from the New World shows very little genetic diversity and greater linkage disequilibrium, compared with its African counterparts, and is clearly subdivided into local, highly divergent populations. However, limited available data have revealed extensive genetic diversity in American populations of another major human malaria parasite, P. vivax.We used an improved sample preparation strategy and next-generation sequencing to characterize 9 high-quality P. vivax genome sequences from northwestern Brazil. These new data were compared with publicly available sequences from recently sampled clinical P. vivax isolates from Brazil (BRA, total n = 11 sequences), Peru (PER, n = 23), Colombia (COL, n = 31), and Mexico (MEX, n = 19).We found that New World populations of P. vivax are as diverse (nucleotide diversity π between 5.2 × 10-4 and 6.2 × 10-4) as P. vivax populations from Southeast Asia, where malaria transmission is substantially more intense. They display several non-synonymous nucleotide substitutions (some of them previously undescribed) in genes known or suspected to be involved in antimalarial drug resistance, such as dhfr, dhps, mdr1, mrp1, and mrp-2, but not in the chloroquine resistance transporter ortholog (crt-o) gene. Moreover, P. vivax in the Americas is much less geographically substructured than local P. falciparum populations, with relatively little between-population genome-wide differentiation (pairwise FST values ranging between 0.025 and 0.092). Finally, P. vivax populations show a rapid decline in linkage disequilibrium with increasing distance between pairs of polymorphic sites, consistent with very frequent outcrossing. We hypothesize that the high diversity of present-day P. vivax lineages in the Americas originated from successive migratory waves and subsequent admixture between parasite lineages from geographically diverse sites. Further genome-wide analyses are required to test the ... Article in Journal/Newspaper Arctic Directory of Open Access Journals: DOAJ Articles Arctic PLOS Neglected Tropical Diseases 11 7 e0005824 |
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Directory of Open Access Journals: DOAJ Articles |
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English |
topic |
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 Thais C de Oliveira Priscila T Rodrigues Maria José Menezes Raquel M Gonçalves-Lopes Melissa S Bastos Nathália F Lima Susana Barbosa Alexandra L Gerber Guilherme Loss de Morais Luisa Berná Jody Phelan Carlos Robello Ana Tereza R de Vasconcelos João Marcelo P Alves Marcelo U Ferreira Genome-wide diversity and differentiation in New World populations of the human malaria parasite Plasmodium vivax. |
topic_facet |
Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 |
description |
The Americas were the last continent colonized by humans carrying malaria parasites. Plasmodium falciparum from the New World shows very little genetic diversity and greater linkage disequilibrium, compared with its African counterparts, and is clearly subdivided into local, highly divergent populations. However, limited available data have revealed extensive genetic diversity in American populations of another major human malaria parasite, P. vivax.We used an improved sample preparation strategy and next-generation sequencing to characterize 9 high-quality P. vivax genome sequences from northwestern Brazil. These new data were compared with publicly available sequences from recently sampled clinical P. vivax isolates from Brazil (BRA, total n = 11 sequences), Peru (PER, n = 23), Colombia (COL, n = 31), and Mexico (MEX, n = 19).We found that New World populations of P. vivax are as diverse (nucleotide diversity π between 5.2 × 10-4 and 6.2 × 10-4) as P. vivax populations from Southeast Asia, where malaria transmission is substantially more intense. They display several non-synonymous nucleotide substitutions (some of them previously undescribed) in genes known or suspected to be involved in antimalarial drug resistance, such as dhfr, dhps, mdr1, mrp1, and mrp-2, but not in the chloroquine resistance transporter ortholog (crt-o) gene. Moreover, P. vivax in the Americas is much less geographically substructured than local P. falciparum populations, with relatively little between-population genome-wide differentiation (pairwise FST values ranging between 0.025 and 0.092). Finally, P. vivax populations show a rapid decline in linkage disequilibrium with increasing distance between pairs of polymorphic sites, consistent with very frequent outcrossing. We hypothesize that the high diversity of present-day P. vivax lineages in the Americas originated from successive migratory waves and subsequent admixture between parasite lineages from geographically diverse sites. Further genome-wide analyses are required to test the ... |
format |
Article in Journal/Newspaper |
author |
Thais C de Oliveira Priscila T Rodrigues Maria José Menezes Raquel M Gonçalves-Lopes Melissa S Bastos Nathália F Lima Susana Barbosa Alexandra L Gerber Guilherme Loss de Morais Luisa Berná Jody Phelan Carlos Robello Ana Tereza R de Vasconcelos João Marcelo P Alves Marcelo U Ferreira |
author_facet |
Thais C de Oliveira Priscila T Rodrigues Maria José Menezes Raquel M Gonçalves-Lopes Melissa S Bastos Nathália F Lima Susana Barbosa Alexandra L Gerber Guilherme Loss de Morais Luisa Berná Jody Phelan Carlos Robello Ana Tereza R de Vasconcelos João Marcelo P Alves Marcelo U Ferreira |
author_sort |
Thais C de Oliveira |
title |
Genome-wide diversity and differentiation in New World populations of the human malaria parasite Plasmodium vivax. |
title_short |
Genome-wide diversity and differentiation in New World populations of the human malaria parasite Plasmodium vivax. |
title_full |
Genome-wide diversity and differentiation in New World populations of the human malaria parasite Plasmodium vivax. |
title_fullStr |
Genome-wide diversity and differentiation in New World populations of the human malaria parasite Plasmodium vivax. |
title_full_unstemmed |
Genome-wide diversity and differentiation in New World populations of the human malaria parasite Plasmodium vivax. |
title_sort |
genome-wide diversity and differentiation in new world populations of the human malaria parasite plasmodium vivax. |
publisher |
Public Library of Science (PLoS) |
publishDate |
2017 |
url |
https://doi.org/10.1371/journal.pntd.0005824 https://doaj.org/article/1bca1ab26a854e1bb50ec3c9596fa26f |
geographic |
Arctic |
geographic_facet |
Arctic |
genre |
Arctic |
genre_facet |
Arctic |
op_source |
PLoS Neglected Tropical Diseases, Vol 11, Iss 7, p e0005824 (2017) |
op_relation |
http://europepmc.org/articles/PMC5552344?pdf=render https://doaj.org/toc/1935-2727 https://doaj.org/toc/1935-2735 1935-2727 1935-2735 doi:10.1371/journal.pntd.0005824 https://doaj.org/article/1bca1ab26a854e1bb50ec3c9596fa26f |
op_doi |
https://doi.org/10.1371/journal.pntd.0005824 |
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PLOS Neglected Tropical Diseases |
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11 |
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7 |
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e0005824 |
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1766345478237061120 |