Introduction
The P. falciparum Community Project provides researchers with high-quality genotypes linked to a global resource characterising genetic variation in P. falciparum populations.
Objectives & Coordination
The P. falciparum Community Project connects multiple research groups, each acquiring data on parasite genome variation — often in different geographical locations and for different scientific reasons. Working with this community, our long-term goal is to generate accessible information to improve malaria control.
The project is managed by the MalariaGEN Resource Centre. See the P. falciparum Community Project description for more information on the project structure, and data release and publication policies.
Our work is focused on four related objectives:
Building a catalogue of variation and allele frequencies
By aggregating data across many samples, we’re able to identify thousands of variations with a high-level of confidence and estimate their frequencies in different groups of samples. We’re building a catalogue of variation in the P. falciparum genome based on sequence data analysis, together with estimated allele frequencies in different geographical regions based on aggregated analysis of all the samples and data that have been contributed.
The catalogue is updated periodically — as the number of samples increases, as we incorporate data from different locations, and as sequencing technologies and analytical methods improve.
Providing researchers with standardised genotype data on their samples
Our sequence data analysis pipeline provides researchers with high-quality genotype calls on their samples in a standardised format which enables reliable comparisons to be made with data from other studies and geographical locations.
Publishing global analyses of genome variation, population genetics and evolutionary selection
We’ll report on the major geographical divisions of parasite population structure and use this to calculate allele frequency data, as well as analysing other aspects of genome variation, population genetics and evolutionary selection that can best be achieved using the aggregated dataset. These global analyses will be reported through peer-reviewed publications subject to the agreement of the groups who have contributed samples and data. Where appropriate, this will be done through mechanisms such as the Pf3k Project that bring together expert working groups and integrate multiple sources of data to produce specific analytical outputs.
Creating online tools to maximise the reach and impact of project findings
We’ve developed a set of web tools to enable contributing researchers to explore and analyse sequence read data and genotype calls on their own samples. We have also partnered with the MRC Centre of Genomics and Global Health to build a comprehensive web application to provide the wider research community with user-friendly tools to browse and query project data (https://apps.malariagen.net/apps/pf7/).
Sampling locations
Bangladesh, Benin, Burkina Faso, Cambodia, Cameroon, Colombia, Congo, Ethiopia, The Gambia, Ghana, Guinea, Indonesia, Ivory Coast, Kenya, Laos, Madagascar, Malawi, Mali, Mauritania, Myanmar, Nigeria, Papua New Guinea, Peru, Senegal, Tanzania, Thailand, Uganda, Vietnam.
Data
We routinely release genotype data to our partners.
We routinely release genotype data to our partner studies; in addition, we periodically release public access datasets.
Learn more about data release to partners.
Current
Sample information for 20,864 samples from 33 countries
Open access
Sample information for 7,113 samples from 29 countries
Genotypes for 5,970 samples from 29 countries
Open access
Sample information for 3,411 samples from 23 countries
Genotypes for 3,394 samples from 22 countries
This data is
Open access
Archived
Sample set: 3,488 samples from 23 countries
High-quality SNPs: 900,000+
Manuscript on bioRxiv
Open access
Archived
Sample information for P. falciparum samples and sequence data included in previous published population-level analyses
This data is
Open access
Archived
Sample set: 3,251 samples from 20 countries
High-quality SNPs: 681,587
Partner data release (v5.1)
Open access
Archived
Sample set: 2,155 samples from 19 countries
High-quality SNPs: 531,916
Partner data release (v5.0)
Open access
Archived
Sample set: 227 samples from 6 countries
High-quality SNPs: 86,000
Partner data release (v4.0)
Open access
Archived
For partners
Resources for partners working on parasites
Partner studies
We work with a number of researchers undertaking independent studies to address unique questions about malaria biology and disease in malaria endemic areas. Each study is different, but they all involve a genomic component whereby they partner with us to sequence parasite samples and share the population genetic data. Click a link below to learn more about their work.
Partner study description Abdoulaye Djimde and his colleagues worked with MalariaGEN to collect clinical parasite samples from three sites in Mali: Bamako, the capital, and Kolle and Faladje, rural villages approximately 60km and…
Partner study description In Burkina Faso, Jean-Bosco Ouedraogo and his colleagues worked with the MalariaGEN team to collect samples from three urban clinics in Bobo-Dioulasso – Colsama, Ouezzin-ville and Sakaby – each up…
Partner study description Alfred Amambua-Ngwa, David Conway, and colleagues surveyed clinical Plasmodium falciparum isolates from The Gambia to assess several measures of genetic variation including allele frequency spectra and signatures of balancing selection,…
Partner study description Led by Patrick Duffy, the Mother Offspring Malaria Study (MOMS) aims to understand the relationship between parasite phenotype and clinical outcomes, and to identify parasite ligands and soluble mediators involved…
Partner study description ARCE is a WHO-lead strategy for the containment of artemisinin resistant parasites in Southeast Asia, aiming to ultimately contribute to the elimination of falciparum malaria from the area. Samples collected…
Partner study description In one of the first partnerships of the MalariaGEN P. falciparum Community Project, Timothy Anderson and colleagues used whole genome sequencing and genotyping to identify genetic variants that underpin drug…
Partner study description Xin-zhuan Su and colleagues provided samples from their field site in Pursat province, Cambodia at an early stage in the MalariaGEN P. falciparum Community Project. These samples were contributed to…
Partner study description Several investigators contributed to the early stages of the MalariaGEN P. falciparum Community Project by providing samples that were not themselves the basis of a partner study, but were used…
Samples from Zungarococha, Peru were collected in 2005-6 as part of the Malaria Immunology and Genetics in the Amazon (MIGIA) project. Malaria caused by Plasmodium falciparum emerged near the Amazonian city of Iquitos…
Partner study description In collaboration with Colin Sutherland and Tim Robinson, we sequenced samples obtained from travellers returning to the UK from malaria-endemic countries being treated for clinical malaria in the Hospital for…
Partner study description As a part of clinical studies being undertaken by the KEMRI-Wellcome Trust Research Programme, samples were collected in the Kilifi district of Kenya. Alexis Nzila and his colleagues adapted these…
Partner study description Several investigators contributed to the early stages of the MalariaGEN P. falciparum Community Project by providing samples that were not themselves basis of a partner study, but were used in…
Partner study description In collaboration with colleagues at the Navrongo Health Research Center, Dr Lucas Amenga-Etego conducted his thesis research under the guidance of Prof Dominic Kwiatkowski on genetic diversity in natural populations…
Partner study description Samples were collected in the southern province of Binh Phuoc, Vietnam, as part of a set of clinical studies initiated by Professor Tran Tinh Hien and Christiane Dolecek in 2009…
Partner study description Samples from Papua New Guinea were collected as part of ongoing malaria surveillance efforts to build a national repository of malaria isolates. Some of these samples were obtained as part…
Partner study description As part of his PhD research Harold Ocholla worked with colleagues at the Liverpool School of Tropical Medicine and in Malawi to collect uncultured paediatric Plasmodium falciparum isolates from malaria…
Partner study description Colombia is among the countries with the highest malaria burden outside of Africa, and one of the least successful in reducing case numbers, with approximately 100,000 cases per year. The…
This study aims to correlate protection from malaria with the immune profile of infected individuals. Cross-sectional and longitudinal studies were conducted in all-age cohorts living in Apac, northern Uganda. This area is characterised…
Partner study description This study was designed to identify malaria parasite genes under selection in the highly endemic forested area of southern Guinea, where very few studies on malaria have been conducted previously.…
Partner study description Plasmodium falciparum var genes are a large and diverse gene family that encode PfEMP1, an important set of antigenic virulence molecules that are inserted into the surface of parasite erythrocytes.…
Partner study description ARC3, an international collaboration led by the World Health Organization, supported clinical trials of artesunate monotherapy in Cambodia, Thailand and Bangladesh. ARC3 aimed to confirm clinical resistance to artemisinin in…
Partner study description In field-based studies, Rick Fairhurst and colleagues investigated patient responses to artemisinin combination therapies (ACTs), in three Cambodian provinces, where artemisinin resistance is entrenched (Pursat), emerging (Preah Vihear), or uncommon…
Partner study description TRAC is investigating the scope and spread of parasite resistance to artemisinin-based therapies at sites across Asia and Africa. The first TRAC study has been completed. This multi-centre, open-label randomised…
Partner study description Microsatellite analysis has previously demonstrated that Plasmodium falciparum populations on the north coast of PNG are organised into distinct subpopulations. If this pattern is observed throughout PNG, maps of population…
Partner study description The intensity of malaria transmission varies considerably among sites in Ghana due to differences in average temperatures, rainfall patterns, and urbanization. This study has selected two locations that have among…
Partner study description Tobias Apinjoh is using whole genome sequencing to investigate the genetic diversity present in natural populations of Plasmodium falciparum parasites collected in different micro-ecological zones along the slope of Mount…
Partner study description In collaboration with colleagues at the Navrongo Health Research Center, Lucas Amenga-Etego is investigating the genetic diversity and population structure of Plasmodium falciparum parasites collected in the Kassena-Nankana districts of…
Partner study description This study aims to assess the diversity of Plasmodium falciparum in regions of varying endemicity in Tanzania, and to investigate parasite genetic factors which might affect antimalarial treatment outcome among…
Partner study description Anita Ghansah is investigating the population diversity and genetic structure of Plasmodium falciparum parasites collected from Cape-Coast in the coastal savanna zone of Ghana. The overall objective is to build…
Partner study description Abdoulaye Djimdé at the Malaria Research and Training Centre at the University of Bamako and Oumou Maïga-Ascofaré are investigating the genetic signature of drug pressure on Plasmodium falciparum parasites collected…
Partner study description Since 2004, Ethiopia has adopted a species-specific treatment policy for malaria: artemether-lumefantrine (AL) for the treatment of uncomplicated Plasmodium falciparum malaria and chloroquine (CQ) for Plasmodium vivax infections. P. falciparum…
Partner study description William Yavo is investigating Plasmodium falciparum parasite population structures according to epidemiological facies and their impact on artemisinin combination therapy (ACT) treatment failure. Samples of the parasites were collected in…
Partner study description This clinical study aims to assess the efficacy of amodiaquine-artesunate for the treatment of uncomplicated Plasmodium falciparum malaria in children in Kinshasa, DRC, five years after its introduction as a…
Partner study description The island of Madagascar is geographically situated in the south western region of the Indian Ocean and amongst malaria-endemic countries, its situation is unique: historically, human migration has occurred from…
Partner study description In collaboration with colleagues at the MRC Unit The Gambia, Alfred Amambua Ngwa is investigating the population structure and signatures of selection from immunity and drugs in isolated and cross-border…
DNA extracted from clonal isolates of P. falciparum will be mixed at varying ratios and submitted to the standard MalariaGEN Plasmodium Genome Variation sequencing pipeline. The known in vitro ratios of DNA will…
Partner study description Together with colleagues at the United States Army Medical Research Directorate in Kenya, Edwin Kamau is investigating population structure and signals of selection from anti-malarial drug resistance of Plasmodium falciparum…
Partner study description This study collected Plasmodium falciparum samples in Gabon for genomic sequencing. This study is contributing to the Plasmodium Diversity Network Africa (PDNA), an African-led network investigating the genetic diversity and…
Anita Ghansah is investigating Plasmodium falciparum genomic population structure in Ghana, specifically monitoring for occurrence of the kelch-13 mutation, known to confer drug resistance in South East Asia. This study is contributing to…
Partner study description Plasmodium falciparum resistance to artemisinin derivatives emerged on the Thai Myanmar border between 2000 and 2010. The Shoklo Malaria Research Unit (SMRU) has collected phenotypic data on more than 3,000…
Partner study description Although artemisinin combination therapy (ACT) resistance has not yet been found in Mali, previous studies have shown that cases of recurring Plasmodium falciparum parasites within a month of infection after…
Partner study description Gwladys Bertin is interested to facilitate the identification of variants associated to cerebral malaria in the proteomic analysis. She is correlating proteomic data from cerebral malaria samples with whole genome…
Partner study description Effective control and final elimination of malaria in the face of declining transmission and increasing spatial heterogeneity of disease and infection will require the identification and targeting of hotspots or…
Partner study description This project has involved studying the population genomics of malaria parasites in Mali, to compare the signatures of selection in the parasite genome with patterns seen elsewhere in West Africa.…
Partner study description This project has involved studying the population genomics of malaria parasites in an area of low infection endemicity in Senegal, to compare the signatures of selection in the parasite genome…
Partner study description In The Gambia, malaria transmission has substantially declined in the last 5-10 years and access to treatment is good. The relatively high drug pressure, reduced transmission and consequent waning of…
Partner study description The overall objective of this study is to understand the determinants of malaria heterogeneity and the spatial and temporal spread of malaria infections. Alfred Amambua Ngwa and Umberto d’Alessandro plan…
Partner study description Caterina Fanello and colleagues investigated the incidence of late onset anaemia in children with uncomplicated hyperparasitemic Plasmodium falciparum malaria treated with intravenous (IV) artesunate or IV quinine. Two blood samples…
Partner study description This study is a phase I clinical trial to evaluate the safety of repeated intravenous (IV) immunizations with irradiated Plasmodium falciparum sporozoites (PfSPZ) in African adults. In collaboration with Sanaria…
Partner study description The dry season in The Gambia presents a bottleneck for the total parasite population as there is little or no malaria transmission. Some individuals maintain a malaria infection through this…
Partner study description Dionicia Gamboa, Joseph Vinetz and colleagues are analysing Peruvian Plasmodium falciparum host-parasite interactions during invasion of the parasite into the human red blood cell. Samples for this study were collected…
Partner study description Ric Price and Rintis Noviyanti are the principal investigators in a genome-wide study aiming to characterise the molecular profile of drug resistance-conferring variants in Indonesian Plasmodium falciparum populations. The study…
Partner study description This project is led by the London School of Hygiene and Tropical Medicine and the Institut National de Recherches en Santé Publique (INRSP), Mauritania, and supported by an MRC Project…
This study measured population movement by travel surveys and mobile phone call record data and combined these with parasite genotype data and malaria incidence to examine the role of population movement on the…
Partner study description Treatment Efficacy Studies are conducted routinely in Myanmar, to assess the efficacy of frontline treatments. Dried bloodspot (DBS) samples for this study were collected from patients at multiple sites from…
Partner study description For this study, Lucas Amenga-Etego and colleagues collected dried blood spot (DBS) and venous blood samples from patients in the Navrongo Health and Demographic surveillance area in the Upper East…
In terms of malaria prevalence, The Gambia can be divided into two strata: low prevalence in the western part and relatively high prevalence in the eastern part. Nevertheless, within these two strata, prevalence…
A multicentre study to evaluate the in vivo, in vitro and molecular efficacy of artesunate in monotherapy for the uncomplicated malaria treatment is currently running in two study sites in Mali; Bougoula-hameau, at…
The study was conducted in localities on the eastern slope of Mt Cameroon, with varying malaria transmission profiles and geographic features. The terrain rises from the Atlantic ocean at the Gulf of Guinea,…
Partner study description Artemether-lumefantrine (AL) is the recommended first-line artemisinin-based combination therapy (ACT) for the treatment of uncomplicated falciparum malaria in most of the malaria-endemic countries, including Tanzania. Recently, dihydroartemisinin-piperaquine (DP) has been…
In the Kassena-Nankana Districts (KNDs) malaria is highly endemic with marked seasonal variation in transmission intensity. The high transmission season coincides with the rainy season, which is from July to October and low…
This study aims to use genome-wide sequencing to establish the structure of Plasmodium populations in an endemic area of low malaria transmission with occasional outbreaks, in the Pacific region of Colombia, and analyse…
A multi-centre, open-label randomized trial to assess the efficacy, safety and tolerability of Triple Artemisinin-based Combination Therapies (TACTs) compared to Artemisinin-based Combination Therapies (ACTs) in uncomplicated falciparum malaria and to map the geographical…
Routine monitoring of the efficacy of anti-malarial drugs used is necessary for effective case management, early detection of drug resistance and to provide background information for the development and evaluation of drug policies.…
In terms of malaria prevalence, The Gambia can be divided into two strata: low prevalence in the western part and relatively high prevalence in the eastern part. Nevertheless, within these two strata, prevalence…
Partner study description This study looks at samples collected from two sites in Ghana. The first is Lekma Hospital, Teshie, Accra; near the coast, an eastern suburb of Accra. Malaria transmission in Teshie…
One difficulty in understanding the epidemiology of drug resistance in Cambodia is that we have little notion of what an “original” Western Cambodian parasite looked like, before the founder populations emerged. Five CB…
Partner study description This study collected Plasmodium falciparum dried blood spot samples in Mali for genomic sequencing between 2016 and 2018.
Partner study description A multi-centre, open-label randomized trial to assess the efficacy, safety and tolerability of Triple Artemisinin-based Combination Therapies (TACTs) compared to Artemisinin-based Combination Therapies (ACTs) in uncomplicated falciparum malaria and to…
Partner study description This study looked at different field sites in Mali representing three different major eco-zones across West Africa that are different with regard to endemicity and current implementation of control strategies:…
The objectives of this programme were to scale-up the targeted mass drug administration strategy regionally, and measure its effect on the incidence of clinical malaria in eastern Karen/Kayin state, Myanmar, a difficult-to-access hilly…
Partner study description A small number of Plasmodium falciparumsamples collected in Mali that were contributed to support the set-up of the SpotMalaria platform.
Partner study description This study collected Plasmodium falciparum samples in the Ashanti region of Ghana for genomic sequencing.
1) An ongoing state-wide malaria surveillance study in Sabah, Malaysia funded through NIH and Australian NHMRC. All patients presenting to government health facilities with symptoms of malaria and microscopically confirmed Plasmodium species (with…
Genetic surveillance project conducted by the National Malaria Control Programme in partnership with GenRe-Mekong in endemic regions of Cambodia. This is part of a large project of genetic surveillance of malaria in the…
Genetic surveillance project conducted by the National Malaria Control Programme in partnership with GenRe-Mekong in endemic region of the Lao PDR. This is part of a large project of genetic surveillance of malaria…
Genetic surveillance project conducted by the National Malaria Control Programme in partnership with GenRe-Mekong in endemic region of Vietnam. This is part of a large project of genetic surveillance of malaria in the…
This study aimed to determine risk factors for catching malaria in northeast Thailand, including travel, to identify where people were likely being infected and determine how much antimalarial drug resistance there is.
Malaria during pregnancy is an important cause of maternal and fetal morbidity and mortality. In compliance with WHO recommendations, Mozambique introduced intermittent preventive treatment with Sulfadoxine/Pyrimethamine (IPTp-SP) as standard of care for malaria…
This study is a country-wide retrospective analysis of molecular markers with potential impact on resistance before and after ACT introduction (18-year period).
Partner study description A prospective study designed to identify molecular markers of antimalarial drug resistance in Plasmodium falciparum in Yola, Nigeria. Objectives of the study are: To detect clinically significant genes associated with…
This study and the adjoined Plasmodium vivax study 1250 collectively form a project aimed towards providing genetic and clinical data of circulating P. falciparum and P. vivax populations in different endemic regions in…
The spread of artemisinin-resistant kelch13 mutants in Southeast Asia (in particular the prevalent C580Y strain) gives cause of concern in view of the possibility these strains may migrate to neighbouring regions, such as…
Partner Study Description As countries decrease malaria transmission and come closer to elimination, transmission becomes more fragmented and focal, and human population movement becomes an important factor in the spread of infection. Proper…
Genetic surveillance project conducted by the National Malaria Control Programme in partnership with GenRe-Mekong in endemic regions of Vietnam. The study aimed to determine risk factors for catching malaria in high endemic areas…
Given the emergence of Plasmodium falciparum (Pf) artemisinin resistance Médecins sans Frontières launched in May 2014 a research programme in Chey Saen district (Cambodia), aimed at preventing its spread. The activities of passive…
The main aim of the study shall be to determine the viability and the pathogenicity of Plasmodium falciparum in donor blood units during storage under standard conditions (2-8ᵒC). Specifically, the study has been…
Partner study description This is a cross sectional and screening study to determine the prevalence of drug resistant alleles in Sudanese Plasmodium falciparum field isolates which has been collected from different areas in…
The main objective of this pilot project was to determine the co-transmission of Malaria, Dengue, Zika and Chikungunya in the Peruvian Amazon (Iquitos) and North coast (Piura) using a differential diagnosis by molecular…
Partner study description Randomized trial to assess the safety, tolerability and efficacy of arterolane-piperaquine, arterolane-piperaquine+mefloquine and artemether-lumefantrine. Number of subjects 219. We obtain parasite clearance half lives and travel surveys.
Resistance of Plasmodium species to previous generations of medicines, such as chloroquine and sulfadoxine-pyrimethamine (SP), influenced the replacement of chloroquine (CQ) with sulfadoxine-pyrimethamine (SP) then artemisinin-based combination therapy (ACT) for treatment of malaria…
Partner study description The Plasmodium falciparum samples due to be collected from seven countries (The Gambia, Ghana, Mali, Cameroon, Ethiopia, Tanzania and Madagascar) will contribute to the Pan-African Malaria Genetic Epidemiology Network (PAMGEN)…
The study is the operational research component of a larger project funded by the Global Fund 5% Initiative through the Italian Agency of Development Cooperation. The project title is “Enhancement of Malaria response…
Malaria remains a major public health problem in Sudan and worldwide. One of the major problems hindering the efforts to combat malaria is the emergence of drug resistant parasites and the subsequent treatment…
A two-arm prospective study. The first arm will evaluate the parasite clearance kinetics in hospitalised patients with acute uncomplicated falciparum malaria treated with ASMQ FDC tablets. The second arm is a cross-sectional survey…
The main objective of this study is to demonstrate that pregnant women attending Antenatal Care (ANC) clinics in the DRC are a suitable, pragmatic sentinel population for the genetic surveillance of antimalarial drug…
Genetic surveillance project conducted by the National Malaria Control Programme in partnership with GenRe-Mekong in endemic regions of Cambodia. This is part of a large project of genetic surveillance of malaria in the…
Partner study description As part of his PhD project, Collins Morang’a collected asymptomatic and symptomatic individuals during the dry and wet season from Navrongo, respectively. Navrongo is a region of high malaria transmission…
Partner study description This proposal has been developed in response to recently published pilot data showing mutations in genes associated with resistance to artemisinins. The overall objective is to characterise genomic variation inPlasmodium…
This study is part of the Genomic Surveillance Hubs in West Africa/NIHR Global Health Research Group project. By better understanding the genomic landscape of malaria parasites and vectors in this region, National Malaria…
In Ghana, malaria is still one of the top five morbidities at various health facilities. Majority of cases of malaria is caused by the parasite, Plasmodium falciparum. A minority of cases are caused…
The advent of technologies allowing whole genome sequencing (WGS) at epidemiological scales allows for the performance of genome-wide screens to identify new loci likely to be involved in antimalarial resistance as well as…
Publications
- Characterisation of the erythrocyte invasion phenotype of FCB-2: A South American P. falciparum reference strain
Ararat-Sarria, Curtidor and PatarroyoActa Tropica, 2024; 260 107379- ResMAP—a saturation mutagenesis platform enabling parallel profiling of target-specific resistance-conferring mutations in Plasmodium
Wall et almBio, 2024; e0170824- Detection of novel Plasmodium falciparum haplotypes under treatment pressure in pediatric severe malaria
Fogang et almedRxiv, 2024;- Household clustering and seasonal genetic variation of Plasmodium falciparum at the community-level in The Gambia
Guery et almedRxiv, 2024;- Diversity and selection analyses identify transmission-blocking antigens as the optimal vaccine candidates in Plasmodium falciparum
Ciubotariu et aleBioMedicine, 2024; 106 105227- Benchmarking and Optimization of Methods for the Detection of Identity-By-Descent in High-Recombining Plasmodium falciparum Genomes
Guo, Takala-Harrison and O'ConnorbioRxiv, 2024;- Ancient Plasmodium genomes shed light on the history of human malaria
Michel et alNature, 2024; 631 125–133- Genetic surveillance of Plasmodium falciparum reveals rapid population changes following first-line treatment policy revisions in the Greater Mekong Subregion
Verschuuren et almedRxiv, 2024;- Molecular markers of artemisinin resistance during falciparum malaria elimination in Eastern Myanmar
Thu et alMalaria Journal, 2024; 23(138)- Genetic polymorphism and evidence of signatures of selection in the Plasmodium falciparum circumsporozoite protein gene in Tanzanian regions with different malaria endemicity
Lyimo et alMalaria Journal, 2024; 23(1) 139- Strong positive selection biases identity-by-descent-based inferences of recent demography and population structure in Plasmodium falciparum
Guo et alNat Commun, 2024; 15 2499- Targeted amplicon deep sequencing of ama1 and mdr1 to track within-host P. falciparum diversity throughout treatment in a clinical drug trial
Wamae et alWellcome Open Research, 2024; 7 95- Regional Plasmodium falciparum subpopulations and malaria transmission connectivity in Africa detected with an enlarged panel of genome-wide microsatellite loci.
Demba et albioRxiv, 2024;- Plasmodium falciparum transmission in the highlands of Ethiopia is driven by closely related and clonal parasites
Holzschuh et alMol Ecol, 2024; 33(6) e17292- Artemisinin resistance-associated gene mutations in Plasmodium falciparum: A case study of severe malaria from Mozambique
Casanova et alTravel Medicine and Infectious Disease, 2024; 57 102684- A novel computational pipeline for var gene expression augments the discovery of changes in the Plasmodium falciparum transcriptome during transition from in vivo to short-term in vitro culture
Andradi-Brown et aleLife, 2024; 25 12:RP87726- The Kelch13 compartment contains highly divergent vesicle trafficking proteins in malaria parasites
Schmidt et alPLoS Pathog, 2023; 19(12) e1011814- Mapping the genomic landscape of multidrug resistance in Plasmodium falciparum and its impact on parasite fitness.
Mok et alScience Advances, 2023; 9(45) eadi2364- Evolution and spread of Plasmodium falciparum mutations associated with resistance to sulfadoxine-pyrimethamine in central Africa: a cross-sectional study
Guémas et alLancet Microbe, 2023; 4(12) e983-e993- MalariaSED: a deep learning framework to decipher the regulatory contributions of noncoding variants in malaria parasites
Wang et alGenome Biology, 2023; 24(231)- A potent and durable malaria transmission-blocking vaccine designed from a single-component 60-copy Pfs230D1 nanoparticle
Salinas et alnpj Vaccines, 2023; 8(124)- An optimized GATK4 pipeline for Plasmodium falciparum whole genome sequencing variant calling and analysis
Niaré, Greenhouse and BaileyMalaria Journal, 2023; 22(207)- Highly multiplexed ddPCR-amplicon sequencing reveals strong Plasmodium falciparum population structure and isolated populations amenable to local elimination efforts in Zanzibar
Holzschuh et alNat Commun, 2023; 14(3699)- Genome-wide genetic variation and molecular surveillance of drug resistance in Plasmodium falciparum isolates from asymptomatic individuals in Ouélessébougou, Mali
Vanheer et alScientific Reports, 2023; 13(1) 9522- coiaf: Directly estimating complexity of infection with allele frequencies
Paschalidis et alPLoS Comput Biol, 2023; 19(6) e101024- Targeted and whole-genome sequencing reveal a north-south divide in P. falciparum drug resistance markers and genetic structure in Mozambique
da Silva et alNature Communications Biology, 2023; 6 619- Performance of SNP barcodes to determine genetic diversity and population structure of Plasmodium falciparum in Africa
Argyropoulos et alFrontiers in Genetics, 2023; 13- Population Genomic Evidence of Adaptive Response during the Invasion History of Plasmodium falciparum in the Americas
Lefebvre et alMol Biol Evol, 2023; 40(5) msad082- Limited genetic variations of the Rh5-CyRPA-Ripr invasion complex in Plasmodium falciparum parasite population in selected malaria-endemic regions, Kenya
Waweru et alFrontiers in Tropical Disease, 2023; 4 1102265- Malaria Molecular Surveillance in the Peruvian Amazon with a Novel Highly Multiplexed Plasmodium falciparum AmpliSeq Assay
Kattenberg et alMicrobiology Spectrum, 2023; 11 e00960-22- Nosocomial Malaria Transmissions Resolved by Genomic Analyses—A Retrospective Case Report Study in France: 2007–2021
Coppée et alClinical Infectious Diseases, 2023; 76(4) 631–639- Potent transmission-blocking monoclonal antibodies from naturally exposed individuals target a conserved epitope on Plasmodium falciparum Pfs230
Ivanochko et alImmunity, 2023; 56(2) 420–432- Short tandem repeat polymorphism in the promoter region of cyclophilin 19B drives its transcriptional upregulation and contributes to drug resistance in the malaria parasite Plasmodium falciparum
Kucharski M et alPLOS Pathogens, 2023; 19(1) e1011118- Pf7: An open dataset of Plasmodium falciparum genome variation in 20,000 worldwide samples
MalariaGEN et. alWellcome Open Research, 2023; 8 22- Unravelling var complexity: Relationship between DBLα types and var genes in Plasmodium falciparum
Tan et alFront Parasitol, 2023; 1 1006341- Drug Resistant Prediction Based on Plasmodium falciparum DNA-Barcoding using Bidirectional Long Short Term Memory Method
Muflikhah et alInternational Journal of Advanced Computer Science and Applications (IJACSA), 2023; 14(7)- Phenotypic characterization of Ghanaian P. falciparum clinical isolates reveals a homogenous parasite population
Thiam et alFrontiers Immunology, 2022; 13 1009252- Design and implementation of multiplexed amplicon sequencing panels to serve genomic epidemiology of infectious disease: A malaria case study
LaVerriere E et al.Molecular Ecology Resources, 2022; 22 2285- Artemisinin resistance in the malaria parasite, Plasmodium falciparum, originates from its initial transcriptional response
Zhu et alCommunications Biology, 2022; 5 274- Resolving drug selection and migration in an inbred South American Plasmodium falciparum population with identity-by-descent analysis
Carrasquilla et al.bioRxiv, 2022;- Increase in the proportion of Plasmodium falciparum with kelch13 C580Y mutation and decline in pfcrt and pfmdr1 mutant alleles in Papua New Guinea
Yoshida N et al.Malaria Journal, 2021; 20 410- Arterolane-piperaquine-mefloquine versus arterolane-piperaquine and artemether-lumefantrine in the treatment of uncomplicated Plasmodium falciparum malaria in Kenyan children: a single-centre, open-label, randomised, non-inferiority trial
Hamaluba et alThe Lancet Infectious Diseases, 2021; 21(10) 1395-1406- Genomic analysis reveals independent evolution of Plasmodium falciparum populations in Ethiopia
Abera D et alMalaria Journal, 2021; 20 129- Temporal evolution of sulfadoxine-pyrimethamine resistance genotypes and genetic diversity in response to a decade of increased interventions against Plasmodium falciparum in northern Ghana
Amenga-Etego, L.N. et alMalaria Journal, 2021; 20(152)- An open dataset of Plasmodium falciparum genome variation in 7,000 worldwide samples
MalariaGEN et. alWellcome Open Research, 2021; 6 42- Emergence of artemisinin-resistant Plasmodium falciparum with kelch13 C580Y mutations on the island of New Guinea
Miotto et alPLoS Pathogens, 2020; 16(12) e1009133- Genomic surveillance of Plasmodium falciparum and Plasmodium vivax cases at the University Hospital in Tegucigalpa, Honduras
Valdivia et alScientific Reports, 2020; 10 (1) 20975- Identity-by-descent with uncertainty characterises connectivity of Plasmodium falciparum populations on the Colombian-Pacific coast
Taylor et al.PLoS Genetics, 2020; 16(11) e1009101- Antimalarial drug resistance molecular makers of Plasmodium falciparum isolates from Sudan during 2015–2017
Hussien et al.PLOS ONE, 2020; 15(8) e0235401- Occurrence of septuple and elevated Pfdhfr-Pfdhps quintuple mutations in a general population threatens the use of sulfadoxine-pyrimethamine for malaria prevention during pregnancy in eastern coast of Tanzania
Bwire et alBMC Infectious Diseases, 2020; 20 530- Efficacy of dihydroartemisinin/piperaquine and artesunate monotherapy for the treatment of uncomplicated Plasmodium falciparum malaria in Central Vietnam
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20,759 samples
from
33 countries
Project contact
People
Investigators involved in the P. falciparum Community Project include:
- Abdoulaye Djimdé
- Dr Abraham Oduro
- Dr Abraham Hodgson
- Prof Alexis Nzila
- Alex Shayo
- Prof Alfred Amambua-Ngwa
- Prof Alister Craig
- Dr Alyssa Barry
- Dr Anita Ghansah
- Prof Antoinette Tshefu
- Prof Arjen Dondorp
- Caterina A Fanello
- Chanaki Amaratunga
- Prof Chris Drakeley
- Prof Chris Newbold
- Prof Christopher Plowe
- Dr Christiane Dolecek
- Prof David Conway
- Dr Deus Ishengoma
- Dr Diego F Echeverry
- Maj Edwin Kamau
- Professor Elizabeth Ashley
- Dr Federica Verra
- Prof Francois Nosten
- Dr G L Abby Harrison
- Prof Gordon Awandare
- Dr Harold Ocholla
- Prof Ivo Mueller
- Dr Jean-Bosco Ouedraogo
- Dr Julian C Rayner
- Dr Jutta Marfurt
- Prof Kevin Marsh
- Dr Lastenia Ruiz
- Livingstone Tavul
- Dr Lucas Amenga-Etego
- Prof Maciej Boni
- Dr Marie A Onyamboko
- Assoc Prof Mayfong Mayxay
- Professor Milijaona Randrianarivelojosia
- Dr Myat Phone Kyaw
- Prof Nicholas Day
- Prof Nicholas J White
- Dr Norbert Peshu
- Dr Oralee Branch
- Dr Oumou Maïga-Ascofaré
- Dr Pascal Ringwald
- Dr Patrick Duffy
- Prof Peter Siba
- Dr Peter C Bull
- Dr Pharath Lim
- Ric N Price
- Dr Rick Fairhurst
- Dr Rintis Noviyanti
- Dr Sarah Auburn
- Dr Shannon Takala-Harrison
- Souleymane Dama
- Prof Steffen Borrmann
- Dr Teun Bousema
- Dr Thomas G Egwang
- Dr Tim Anderson
- Dr Tobias Apinjoh
- Prof Tran Tinh Hien
- Dr Vandana Thathy
- Dr Victor Mobegi
- Vito Baraka
- Prof William Yavo
- Dr Xin-zhuan Su
Documents
Funding support
- Role for gene conversion in the evolution of cell-surface antigens of the malaria parasite Plasmodium falciparum
Letcher et alPLOS Biology, 2024; 22(3) e3002507
Updates
6 Mar 2023
Partner data release (v7.0)
Plasmodium falciparum Community Project data, version 7.0 is now available. This release includes over 10.1 million SNPs based on an analysis of 20,864 samples from 54 partner studies in 33 countries. Details of the release are included in MalariaGEN et al, Wellcome Open Research 2023, 8:22 https://wellcomeopenresearch.org/articles/8-22
