2016
A Worldwide Map of Plasmodium falciparum K13-Propeller Polymorphisms
Ménard D, Khim N, Beghain J, Adegnika A, Shafiul-Alam M, Amodu O, Rahim-Awab G, Barnadas C, Berry A, Boum Y, Bustos M, Cao J, Chen J, Collet L, Cui L, Thakur G, Dieye A, Djallé D, Dorkenoo M, Eboumbou-Moukoko C, Espino F, Fandeur T, Ferreira-da-Cruz M, Fola A, Fuehrer H, Hassan A, Herrera S, Hongvanthong B, Houzé S, Ibrahim M, Jahirul-Karim M, Jiang L, Kano S, Ali-Khan W, Khanthavong M, Kremsner P, Lacerda M, Leang R, Leelawong M, Li M, Lin K, Mazarati J, Ménard S, Morlais I, Muhindo-Mavoko H, Musset L, Na-Bangchang K, Nambozi M, Niaré K, Noedl H, Ouédraogo J, Pillai D, Pradines B, Quang-Phuc B, Ramharter M, Randrianarivelojosia M, Sattabongkot J, Sheikh-Omar A, Silué K, Sirima S, Sutherland C, Syafruddin D, Tahar R, Tang L, Touré O, Tshibangu-wa-Tshibangu P, Vigan-Womas I, Warsame M, Wini L, Zakeri S, Kim S, Eam R, Berne L, Khean C, Chy S, Ken M, Loch K, Canier L, Duru V, Legrand E, Barale J, Stokes B, Straimer J, Witkowski B, Fidock D, Rogier C, Ringwald P, Ariey F, Mercereau-Puijalon O. A Worldwide Map of Plasmodium falciparum K13-Propeller Polymorphisms. New England Journal Of Medicine 2016, 374: 2453-2464. PMID: 27332904, PMCID: PMC4955562, DOI: 10.1056/nejmoa1513137.Peer-Reviewed Original ResearchConceptsK13 mutationsRing-stage survival assayK13-propeller polymorphismsPlasmodium falciparum resistanceA578S mutationParasite clearanceRare nonsynonymous mutationsFalciparum resistanceAntimalarial resistanceArtemisinin resistanceNationwide surveillanceGlobal burdenSentinel sitesGeographic disparitiesSurvival assaysP. falciparum genesMalariaPropeller domainMajor determinantArtemisininMutationsNonsynonymous mutationsSuch resistancePolymorphismPatients
2014
Polymorphisms in Plasmodium falciparum Chloroquine Resistance Transporter and Multidrug Resistance 1 Genes: Parasite Risk Factors That Affect Treatment Outcomes for P. falciparum Malaria After Artemether-Lumefantrine and Artesunate-Amodiaquine
Venkatesan M, Gadalla N, Stepniewska K, Dahal P, Nsanzabana C, Moriera C, Price R, Mårtensson A, Rosenthal P, Dorsey G, Sutherland C, Guérin P, Davis T, Ménard D, Adam I, Ademowo G, Arze C, Baliraine F, Berens-Riha N, Björkman A, Borrmann S, Checchi F, Desai M, Dhorda M, Djimdé A, El-Sayed B, Eshetu T, Eyase F, Falade C, Faucher J, Fröberg G, Grivoyannis A, Hamour S, Houzé S, Johnson J, Kamugisha E, Kariuki S, Kiechel J, Kironde F, Kofoed P, LeBras J, Malmberg M, Mwai L, Ngasala B, Nosten F, Nsobya S, Nzila A, Oguike M, Otienoburu S, Ogutu B, Ouédraogo J, Piola P, Rombo L, Schramm B, Somé A, Thwing J, Ursing J, Wong R, Zeynudin A, Zongo I, Plowe C, Sibley C, Asaq Molecular Marker Study Group. Polymorphisms in Plasmodium falciparum Chloroquine Resistance Transporter and Multidrug Resistance 1 Genes: Parasite Risk Factors That Affect Treatment Outcomes for P. falciparum Malaria After Artemether-Lumefantrine and Artesunate-Amodiaquine. American Journal Of Tropical Medicine And Hygiene 2014, 91: 833-843. PMID: 25048375, PMCID: PMC4183414, DOI: 10.4269/ajtmh.14-0031.Peer-Reviewed Original ResearchMeSH KeywordsAmino Acid SubstitutionAmodiaquineAntimalarialsArtemetherArtemisininsChildChild, PreschoolChloroquineDatasets as TopicDrug CombinationsDrug ResistanceDrug Therapy, CombinationEthanolaminesFluorenesGenetic MarkersGenotypeHumansInfantKaplan-Meier EstimateLumefantrineMalaria, FalciparumMembrane Transport ProteinsMultidrug Resistance-Associated ProteinsPlasmodium falciparumPolymorphism, GeneticProtozoan ProteinsRisk FactorsConceptsArtemether-lumefantrineP. falciparum multidrug resistance 1 genePlasmodium falciparum chloroquine resistance transporterPfmdr1 copy numberArtemisinin combination therapyIndividual patient dataChloroquine resistance transporterMultidrug resistance 1 geneWorldWide Antimalarial Resistance NetworkParasitologic cureCombination therapyParasite polymorphismsPartner drugsTherapeutic responseClinical trialsRelevant outcomesArtemisinin componentPatient dataResistance transporterStandardized methodPolymorphismPatientsPfmdr1PfcrtAmodiaquineA barcode of organellar genome polymorphisms identifies the geographic origin of Plasmodium falciparum strains
Preston M, Campino S, Assefa S, Echeverry D, Ocholla H, Amambua-Ngwa A, Stewart L, Conway D, Borrmann S, Michon P, Zongo I, Ouédraogo J, Djimde A, Doumbo O, Nosten F, Pain A, Bousema T, Drakeley C, Fairhurst R, Sutherland C, Roper C, Clark T. A barcode of organellar genome polymorphisms identifies the geographic origin of Plasmodium falciparum strains. Nature Communications 2014, 5: 4052. PMID: 24923250, PMCID: PMC4082634, DOI: 10.1038/ncomms5052.Peer-Reviewed Original ResearchConceptsMajor public health problemValuable public health toolSingle nucleotide polymorphismsPublic health problemDrug-resistant parasitesPublic health toolPlasmodium falciparum strainsGlobal eradication campaignHealth problemsFalciparum strainsCase managementHealth toolsPlasmodium falciparumParasite migrationElimination areaEradication campaignApicoplast genomeParasitesPolymorphismInfectionMalariaInternational air travelFalciparum
2012
VarB: a variation browsing and analysis tool for variants derived from next-generation sequencing data
Preston M, Manske M, Horner N, Assefa S, Campino S, Auburn S, Zongo I, Ouedraogo J, Nosten F, Anderson T, Clark T. VarB: a variation browsing and analysis tool for variants derived from next-generation sequencing data. Bioinformatics 2012, 28: 2983-2985. PMID: 22976080, PMCID: PMC3496337, DOI: 10.1093/bioinformatics/bts557.Peer-Reviewed Original ResearchConceptsNext-generation sequencing dataUser-defined groupsGenomic regionsVariant call format filesSingle nucleotide polymorphismsDrug resistance genesSequence dataSequencing dataStructural variantsImportant antigenicSequence file formatsInformative markersPlasmodium falciparumDifferent continentsFile formatFormat fileUser manualReal timeAnalysis toolsGenesVariantsDeletionPolymorphismVarBFalciparum