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R H : a genetic metric for measuring intrahost Plasmodium falciparum relatedness and distinguishing cotransmission from superinfection.

التفاصيل البيبلوغرافية
العنوان: R H : a genetic metric for measuring intrahost Plasmodium falciparum relatedness and distinguishing cotransmission from superinfection.
المؤلفون: Wong W; Department of Immunology and Infectious Diseases, Harvard T.H. Chan School of Public Health, 665 Huntington Ave, Boston, MA 02115, USA., Volkman S; Department of Immunology and Infectious Diseases, Harvard T.H. Chan School of Public Health, 665 Huntington Ave, Boston, MA 02115, USA.; Infectious Disease and Microbiome Program, Broad Institute, Cambridge, MA 02142, USA.; College of Natural, Behavioral, and Health Sciences, Simmons University, Boston, MA 02115, USA., Daniels R; Department of Immunology and Infectious Diseases, Harvard T.H. Chan School of Public Health, 665 Huntington Ave, Boston, MA 02115, USA.; Infectious Disease and Microbiome Program, Broad Institute, Cambridge, MA 02142, USA., Schaffner S; Infectious Disease and Microbiome Program, Broad Institute, Cambridge, MA 02142, USA., Sy M; Laboratory of Parasitology and Mycology, Aristide le Dantec Hospital, Cheikh Anta Diop University, Dakar 10200, Senegal., Ndiaye YD; Laboratory of Parasitology and Mycology, Aristide le Dantec Hospital, Cheikh Anta Diop University, Dakar 10200, Senegal., Badiane AS; Laboratory of Parasitology and Mycology, Aristide le Dantec Hospital, Cheikh Anta Diop University, Dakar 10200, Senegal., Deme AB; Laboratory of Parasitology and Mycology, Aristide le Dantec Hospital, Cheikh Anta Diop University, Dakar 10200, Senegal., Diallo MA; Laboratory of Parasitology and Mycology, Aristide le Dantec Hospital, Cheikh Anta Diop University, Dakar 10200, Senegal., Gomis J; Laboratory of Parasitology and Mycology, Aristide le Dantec Hospital, Cheikh Anta Diop University, Dakar 10200, Senegal., Sy N; Laboratory of Parasitology and Mycology, Aristide le Dantec Hospital, Cheikh Anta Diop University, Dakar 10200, Senegal., Ndiaye D; Laboratory of Parasitology and Mycology, Aristide le Dantec Hospital, Cheikh Anta Diop University, Dakar 10200, Senegal., Wirth DF; Department of Immunology and Infectious Diseases, Harvard T.H. Chan School of Public Health, 665 Huntington Ave, Boston, MA 02115, USA.; Infectious Disease and Microbiome Program, Broad Institute, Cambridge, MA 02142, USA., Hartl DL; Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA.
المصدر: PNAS nexus [PNAS Nexus] 2022 Sep 10; Vol. 1 (4), pp. pgac187. Date of Electronic Publication: 2022 Sep 10 (Print Publication: 2022).
نوع المنشور: Journal Article
اللغة: English
بيانات الدورية: Publisher: Oxford University Press on behalf of the National Academy of Sciences Country of Publication: England NLM ID: 9918367777906676 Publication Model: eCollection Cited Medium: Internet ISSN: 2752-6542 (Electronic) Linking ISSN: 27526542 NLM ISO Abbreviation: PNAS Nexus Subsets: PubMed not MEDLINE
أسماء مطبوعة: Original Publication: [Oxford] : Oxford University Press on behalf of the National Academy of Sciences, [2022]-
مستخلص: Multiple-strain (polygenomic) infections are a ubiquitous feature of Plasmodium falciparum parasite population genetics. Under simple assumptions of superinfection, polygenomic infections are hypothesized to be the result of multiple infectious bites. As a result, polygenomic infections have been used as evidence of repeat exposure and used to derive genetic metrics associated with high transmission intensity. However, not all polygenomic infections are the result of multiple infectious bites. Some result from the transmission of multiple, genetically related strains during a single infectious bite (cotransmission). Superinfection and cotransmission represent two distinct transmission processes, and distinguishing between the two could improve inferences regarding parasite transmission intensity. Here, we describe a new metric, R H , that utilizes the correlation in allelic state (heterozygosity) within polygenomic infections to estimate the likelihood that the observed complexity resulted from either superinfection or cotransmission. R H is flexible and can be applied to any type of genetic data. As a proof of concept, we used R H to quantify polygenomic relatedness and estimate cotransmission and superinfection rates from a set of 1,758 malaria infections genotyped with a 24 single nucleotide polymorphism (SNP) molecular barcode. Contrary to expectation, we found that cotransmission was responsible for a significant fraction of 43% to 53% of the polygenomic infections collected in three distinct epidemiological regions in Senegal. The prediction that polygenomic infections frequently result from cotransmission stresses the need to incorporate estimates of relatedness within polygenomic infections to ensure the accuracy of genomic epidemiology surveillance data for informing public health activities.
(© The Author(s) 2022. Published by Oxford University Press on behalf of National Academy of Sciences.)
التعليقات: Erratum in: PNAS Nexus. 2024 Jan 30;3(1):pgad468. (PMID: 38292547)
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معلومات مُعتمدة: R21 AI141843 United States AI NIAID NIH HHS
فهرسة مساهمة: Keywords: cotransmission; genetic surveillance; malaria; superinfection
تواريخ الأحداث: Date Created: 20221017 Latest Revision: 20240131
رمز التحديث: 20240131
مُعرف محوري في PubMed: PMC9552330
DOI: 10.1093/pnasnexus/pgac187
PMID: 36246152
قاعدة البيانات: MEDLINE
الوصف
تدمد:2752-6542
DOI:10.1093/pnasnexus/pgac187