ArticleBioinformatics (Oxford, England)2014
estMOI: estimating multiplicity of infection using parasite deep sequencing data.
Article in Bioinformatics (Oxford, England), 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 57 papers, 1 of them a synthesis that pooled it.
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Who cites it
57 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Mapping sulphadoxine-pyrimethamine-resistant Plasmodium falciparum malaria in infected humans and in parasite populations in Africa.Scientific reports · 2017Pooled it
- Molecular surveillance of multiplicity of infection, haplotype frequencies, and prevalence in infectious diseases.PLoS computational biology · 2026Article
- Malaria-MOI: A flexible and scalable tool for predicting multiplicity of infection in malaria parasites.Genome medicine · 2026Article
- The evolutionary history of Plasmodium falciparum from mitochondrial and apicoplast genomes of China-Myanmar border isolates.Parasites & vectors · 2024Article
- Genome sequencing of Plasmodium malariae identifies continental segregation and mutations associated with reduced pyrimethamine susceptibility.Nature communications · 2024Article
- Article
- Review of MrsFreqPhase methods: methods designed to estimate statistically malaria parasite multiplicity of infection, relatedness, frequency and phase.Malaria journal · 2024Review
- SNP-slice resolves mixed infections: simultaneously unveiling strain haplotypes and linking them to hosts.Bioinformatics (Oxford, England) · 2024Article
- Molecular tools are crucial for malaria elimination.Molecular biology reports · 2024Review
- A new Plasmodium vivax reference genome for South American isolates.BMC genomics · 2023Article
- Mixed infections in genotypic drug-resistant Mycobacterium tuberculosis.Scientific reports · 2023Article
- Article
- coiaf: Directly estimating complexity of infection with allele frequencies.PLoS computational biology · 2023Article
- Population genetic analysis of Plasmodium knowlesi reveals differential selection and exchange events between Borneo and Peninsular sub-populations.Scientific reports · 2023Article
- Neutral vs. non-neutral genetic footprints of Plasmodium falciparum multiclonal infections.PLoS computational biology · 2023Article
- Genomic evidence of contemporary hybridization between Schistosoma species.PLoS pathogens · 2022Article
- Global Population Genomics of Two Subspecies of Cryptosporidium hominis during 500 Years of Evolution.Molecular biology and evolution · 2022Article
- A maximum-likelihood method to estimate haplotype frequencies and prevalence alongside multiplicity of infection from SNP data.Frontiers in epidemiology · 2022Article
- Population genomics in neglected malaria parasites.Frontiers in microbiology · 2022Review
- Potential Opportunities and Challenges of Deploying Next Generation Sequencing and CRISPR-Cas Systems to Support Diagnostics and Surveillance Towards Malaria Control and Elimination in Africa.Frontiers in cellular and infection microbiology · 2022Review
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6 authors.
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Abstract
Individuals living in endemic areas generally harbour multiple parasite strains. Multiplicity of infection (MOI) can be an indicator of immune status and transmission intensity. It has a potentially confounding effect on a number of population genetic analyses, which often assume isolates are clonal. Polymerase chain reaction-based approaches to estimate MOI can lack sensitivity. For example, in the human malaria parasite Plasmodium falciparum, genotyping of the merozoite surface protein (MSP1/2) genes is a standard method for assessing MOI, despite the apparent problem of underestimation. The availability of deep coverage data from massively parallizable sequencing technologies means that MOI can be detected genome wide by considering the abundance of heterozygous genotypes. Here, we present a method to estimate MOI, which considers unique combinations of polymorphisms from sequence reads. The method is implemented within the estMOI software. When applied to clinical P.falciparum isolates from three continents, we find that multiple infections are common, especially in regions with high transmission.
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