A barcode of organellar genome polymorphisms identifies the geographic origin of Plasmodium falciparum strains

Mark D. Preston; Susana Campino; Samuel A. Assefa; Diego F. Echeverry; Harold Ocholla; Alfred Amambua-Ngwa; Lindsay B. Stewart; David J. Conway; Steffen Borrmann; Pascal Michon; Issaka Zongo; Jean-Bosco Ouédraogo; Abdoulaye A. Djimde; Ogobara K. Doumbo; Francois Nosten; Arnab Pain; Teun Bousema; Chris J. Drakeley; Rick M. Fairhurst; Colin J. Sutherland; Cally Roper; Taane G. Clark

doi:10.1038/ncomms5052

A barcode of organellar genome polymorphisms identifies the geographic origin of Plasmodium falciparum strains

Mark D. Preston, Susana Campino, Samuel A. Assefa, Diego F. Echeverry, Harold Ocholla, Alfred Amambua-Ngwa, Lindsay B. Stewart, David J. Conway, Steffen Borrmann, Pascal Michon, Issaka Zongo, Jean-Bosco Ouédraogo, Abdoulaye A. Djimde, Ogobara K. Doumbo, Francois Nosten, Arnab Pain, Teun Bousema, Chris J. Drakeley, Rick M. Fairhurst, Colin J. SutherlandCally Roper, Taane G. Clark

Tropical Disease Biology

Research output: Contribution to journal › Article › peer-review

106 Citations (Scopus)

Abstract

Malaria is a major public health problem that is actively being addressed in a global eradication campaign. Increased population mobility through international air travel has elevated the risk of re-introducing parasites to elimination areas and dispersing drug-resistant parasites to new regions. A simple genetic marker that quickly and accurately identifies the geographic origin of infections would be a valuable public health tool for locating the source of imported outbreaks. Here we analyse the mitochondrion and apicoplast genomes of 711 Plasmodium falciparum isolates from 14 countries, and find evidence that they are non-recombining and co-inherited. The high degree of linkage produces a panel of relatively few single-nucleotide polymorphisms (SNPs) that is geographically informative. We design a 23-SNP barcode that is highly predictive (~92%) and easily adapted to aid case management in the field and survey parasite migration worldwide.

Original language	English
Article number	4052
Pages (from-to)	e4052
Journal	Nature Communications
Volume	5
DOIs	https://doi.org/10.1038/ncomms5052
Publication status	Published - 13 Jun 2014

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Nature Comms 5 4052Final published version, 851 KBLicence: CC BY

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Preston, M. D., Campino, S., Assefa, S. A., Echeverry, D. F., Ocholla, H., Amambua-Ngwa, A., Stewart, L. B., Conway, D. J., Borrmann, S., Michon, P., Zongo, I., Ouédraogo, J.-B., Djimde, A. A., Doumbo, O. K., Nosten, F., Pain, A., Bousema, T., Drakeley, C. J., Fairhurst, R. M., ... Clark, T. G. (2014). A barcode of organellar genome polymorphisms identifies the geographic origin of Plasmodium falciparum strains. Nature Communications, 5, e4052. Article 4052. https://doi.org/10.1038/ncomms5052

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title = "A barcode of organellar genome polymorphisms identifies the geographic origin of Plasmodium falciparum strains",

abstract = "Malaria is a major public health problem that is actively being addressed in a global eradication campaign. Increased population mobility through international air travel has elevated the risk of re-introducing parasites to elimination areas and dispersing drug-resistant parasites to new regions. A simple genetic marker that quickly and accurately identifies the geographic origin of infections would be a valuable public health tool for locating the source of imported outbreaks. Here we analyse the mitochondrion and apicoplast genomes of 711 Plasmodium falciparum isolates from 14 countries, and find evidence that they are non-recombining and co-inherited. The high degree of linkage produces a panel of relatively few single-nucleotide polymorphisms (SNPs) that is geographically informative. We design a 23-SNP barcode that is highly predictive (\textasciitilde{}92\%) and easily adapted to aid case management in the field and survey parasite migration worldwide.",

author = "Preston, \{Mark D.\} and Susana Campino and Assefa, \{Samuel A.\} and Echeverry, \{Diego F.\} and Harold Ocholla and Alfred Amambua-Ngwa and Stewart, \{Lindsay B.\} and Conway, \{David J.\} and Steffen Borrmann and Pascal Michon and Issaka Zongo and Jean-Bosco Ou{\'e}draogo and Djimde, \{Abdoulaye A.\} and Doumbo, \{Ogobara K.\} and Francois Nosten and Arnab Pain and Teun Bousema and Drakeley, \{Chris J.\} and Fairhurst, \{Rick M.\} and Sutherland, \{Colin J.\} and Cally Roper and Clark, \{Taane G.\}",

year = "2014",

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doi = "10.1038/ncomms5052",

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Preston, MD, Campino, S, Assefa, SA, Echeverry, DF, Ocholla, H, Amambua-Ngwa, A, Stewart, LB, Conway, DJ, Borrmann, S, Michon, P, Zongo, I, Ouédraogo, J-B, Djimde, AA, Doumbo, OK, Nosten, F, Pain, A, Bousema, T, Drakeley, CJ, Fairhurst, RM, Sutherland, CJ, Roper, C & Clark, TG 2014, 'A barcode of organellar genome polymorphisms identifies the geographic origin of Plasmodium falciparum strains', Nature Communications, vol. 5, 4052, pp. e4052. https://doi.org/10.1038/ncomms5052

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AU - Preston, Mark D.

AU - Campino, Susana

AU - Assefa, Samuel A.

AU - Echeverry, Diego F.

AU - Ocholla, Harold

AU - Amambua-Ngwa, Alfred

AU - Stewart, Lindsay B.

AU - Conway, David J.

AU - Borrmann, Steffen

AU - Michon, Pascal

AU - Zongo, Issaka

AU - Ouédraogo, Jean-Bosco

AU - Djimde, Abdoulaye A.

AU - Doumbo, Ogobara K.

AU - Nosten, Francois

AU - Pain, Arnab

AU - Bousema, Teun

AU - Drakeley, Chris J.

AU - Fairhurst, Rick M.

AU - Sutherland, Colin J.

AU - Roper, Cally

AU - Clark, Taane G.

PY - 2014/6/13

Y1 - 2014/6/13

N2 - Malaria is a major public health problem that is actively being addressed in a global eradication campaign. Increased population mobility through international air travel has elevated the risk of re-introducing parasites to elimination areas and dispersing drug-resistant parasites to new regions. A simple genetic marker that quickly and accurately identifies the geographic origin of infections would be a valuable public health tool for locating the source of imported outbreaks. Here we analyse the mitochondrion and apicoplast genomes of 711 Plasmodium falciparum isolates from 14 countries, and find evidence that they are non-recombining and co-inherited. The high degree of linkage produces a panel of relatively few single-nucleotide polymorphisms (SNPs) that is geographically informative. We design a 23-SNP barcode that is highly predictive (~92%) and easily adapted to aid case management in the field and survey parasite migration worldwide.

AB - Malaria is a major public health problem that is actively being addressed in a global eradication campaign. Increased population mobility through international air travel has elevated the risk of re-introducing parasites to elimination areas and dispersing drug-resistant parasites to new regions. A simple genetic marker that quickly and accurately identifies the geographic origin of infections would be a valuable public health tool for locating the source of imported outbreaks. Here we analyse the mitochondrion and apicoplast genomes of 711 Plasmodium falciparum isolates from 14 countries, and find evidence that they are non-recombining and co-inherited. The high degree of linkage produces a panel of relatively few single-nucleotide polymorphisms (SNPs) that is geographically informative. We design a 23-SNP barcode that is highly predictive (~92%) and easily adapted to aid case management in the field and survey parasite migration worldwide.

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DO - 10.1038/ncomms5052

M3 - Article

SN - 2041-1723

VL - 5

SP - e4052

JO - Nature Communications

JF - Nature Communications

M1 - 4052

ER -

A barcode of organellar genome polymorphisms identifies the geographic origin of Plasmodium falciparum strains

Abstract

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