Genetic characterization of Plasmodium vivax linked to autochthonous malaria transmission in the US (2023) using Illumina AmpliSeq technology: a genetic epidemiology studyResearch in context
Summary: Background: Malaria is a mosquito borne disease caused by parasites of the genus Plasmodium. In 2023, the United States (US) experienced nine cases of autochthonous Plasmodium vivax malaria transmission; seven in Florida, one in Texas, and another in Arkansas. These were the first autochth...
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2025-08-01
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| Series: | The Lancet Regional Health. Americas |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2667193X25001693 |
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| author | Joel L.N. Barratt David Jacobson Edwin Pierre-Louis Marko Bajic Julia Kelley Dhruviben S. Patel Ira Goldman Zhiyong Zhou Ya Ping Shi Alison Ridpath Kimberly Mace Christina Carlson Alice Sutcliffe Qiana Butler Andrea Morrison Danielle Stanek Kelly Tomson Carina Blackmore Andrew Cannons Susan Rollo Chun Wang Rashmi Tuladhar Brooke Clemons Susan Madison-Antenucci Kimberly Mergen Jennifer White Mike Antwi Laura Rothfeldt Katelyn Lazenby Stephen Hedges Jennifer N. Shray Ashleah Courtney Bobby Boyanton Yvonne Qvarnstrom Molly Freeman Brian H. Raphael |
| author_facet | Joel L.N. Barratt David Jacobson Edwin Pierre-Louis Marko Bajic Julia Kelley Dhruviben S. Patel Ira Goldman Zhiyong Zhou Ya Ping Shi Alison Ridpath Kimberly Mace Christina Carlson Alice Sutcliffe Qiana Butler Andrea Morrison Danielle Stanek Kelly Tomson Carina Blackmore Andrew Cannons Susan Rollo Chun Wang Rashmi Tuladhar Brooke Clemons Susan Madison-Antenucci Kimberly Mergen Jennifer White Mike Antwi Laura Rothfeldt Katelyn Lazenby Stephen Hedges Jennifer N. Shray Ashleah Courtney Bobby Boyanton Yvonne Qvarnstrom Molly Freeman Brian H. Raphael |
| author_sort | Joel L.N. Barratt |
| collection | DOAJ |
| description | Summary: Background: Malaria is a mosquito borne disease caused by parasites of the genus Plasmodium. In 2023, the United States (US) experienced nine cases of autochthonous Plasmodium vivax malaria transmission; seven in Florida, one in Texas, and another in Arkansas. These were the first autochthonous cases since 2003 when a cluster was identified in Florida. The aim of this study was to genetically characterize the implicated P. vivax isolates in order to complement epidemiologic investigations of these cases. Methods: A custom Illumina AmpliSeq sequencing panel capturing 495 amplicons was designed. This panel was used to ascertain whether these 2023 cases were related, and assess if they were associated with a single or separate introduction events. Sequence data were hierarchically clustered and a Naïve Bayes classification approach was used to assign genotypes to a probable geographic origin based on 113 ‘geo-informative’ SNPs captured by the panel. Genotypes associated with the 2023 Arkansas, Texas, and Florida cases were clustered alongside those sequenced from archived blood samples from the 2003 Florida case-patients, a set of reference strains, and other travel-associated specimens. Microsatellite analysis was performed on a subset of samples from these autochthonous cases to complement the AmpliSeq analysis. Findings: The 2023 autochthonous Florida cases were genetically linked as were the 2003 Florida cases. The 2023 and 2003 Florida clusters were genetically distinct, and the two Florida clusters were distinct from the 2023 Texas and Arkansas cases, which were also distinct from each other. These genotypes classified to the Central or South American region using the Naïve Bayes classifier, including those from the 2003 cluster. Interpretation: These data support that at least three distinct P. vivax introduction events in the US in 2023, involving parasites possessing genetic signatures consistent with Central or South America. Funding: This work was supported by the National Center for Emerging and Zoonotic Infectious Diseases at the US Centers for Disease Control and Prevention. |
| format | Article |
| id | doaj-art-5b444a5e9f084d27b7d6b98e955ff0e8 |
| institution | OA Journals |
| issn | 2667-193X |
| language | English |
| publishDate | 2025-08-01 |
| publisher | Elsevier |
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| series | The Lancet Regional Health. Americas |
| spelling | doaj-art-5b444a5e9f084d27b7d6b98e955ff0e82025-08-20T02:36:53ZengElsevierThe Lancet Regional Health. Americas2667-193X2025-08-014810115910.1016/j.lana.2025.101159Genetic characterization of Plasmodium vivax linked to autochthonous malaria transmission in the US (2023) using Illumina AmpliSeq technology: a genetic epidemiology studyResearch in contextJoel L.N. Barratt0David Jacobson1Edwin Pierre-Louis2Marko Bajic3Julia Kelley4Dhruviben S. Patel5Ira Goldman6Zhiyong Zhou7Ya Ping Shi8Alison Ridpath9Kimberly Mace10Christina Carlson11Alice Sutcliffe12Qiana Butler13Andrea Morrison14Danielle Stanek15Kelly Tomson16Carina Blackmore17Andrew Cannons18Susan Rollo19Chun Wang20Rashmi Tuladhar21Brooke Clemons22Susan Madison-Antenucci23Kimberly Mergen24Jennifer White25Mike Antwi26Laura Rothfeldt27Katelyn Lazenby28Stephen Hedges29Jennifer N. Shray30Ashleah Courtney31Bobby Boyanton32Yvonne Qvarnstrom33Molly Freeman34Brian H. Raphael35Centers for Disease Control and Prevention, National Center for Emerging and Zoonotic Infectious Diseases, Division of Parasitic Diseases and Malaria, 1600 Clifton Road, Atlanta, GA, 30329, USA; Corresponding author.Centers for Disease Control and Prevention, National Center for Emerging and Zoonotic Infectious Diseases, Division of Parasitic Diseases and Malaria, 1600 Clifton Road, Atlanta, GA, 30329, USACenters for Disease Control and Prevention, National Center for Emerging and Zoonotic Infectious Diseases, Division of Parasitic Diseases and Malaria, 1600 Clifton Road, Atlanta, GA, 30329, USA; Oak Ridge Associated Universities – ORAU, P.O. Box 117, MS-36, Oak Ridge, TN, 37831-0117, USACenters for Disease Control and Prevention, National Center for Emerging and Zoonotic Infectious Diseases, Division of Parasitic Diseases and Malaria, 1600 Clifton Road, Atlanta, GA, 30329, USA; US President's Malaria Initiative, Division of Parasitic Diseases and Malaria, National Center for Emerging and Zoonotic Infectious Disease, Centers for Disease Control and Prevention, Atlanta, GA, USACenters for Disease Control and Prevention, National Center for Emerging and Zoonotic Infectious Diseases, Division of Parasitic Diseases and Malaria, 1600 Clifton Road, Atlanta, GA, 30329, USACenters for Disease Control and Prevention, National Center for Emerging and Zoonotic Infectious Diseases, Division of Parasitic Diseases and Malaria, 1600 Clifton Road, Atlanta, GA, 30329, USACenters for Disease Control and Prevention, National Center for Emerging and Zoonotic Infectious Diseases, Division of Parasitic Diseases and Malaria, 1600 Clifton Road, Atlanta, GA, 30329, USACenters for Disease Control and Prevention, National Center for Emerging and Zoonotic Infectious Diseases, Division of Parasitic Diseases and Malaria, 1600 Clifton Road, Atlanta, GA, 30329, USACenters for Disease Control and Prevention, National Center for Emerging and Zoonotic Infectious Diseases, Division of Parasitic Diseases and Malaria, 1600 Clifton Road, Atlanta, GA, 30329, USACenters for Disease Control and Prevention, National Center for Emerging and Zoonotic Infectious Diseases, Division of Parasitic Diseases and Malaria, 1600 Clifton Road, Atlanta, GA, 30329, USACenters for Disease Control and Prevention, National Center for Emerging and Zoonotic Infectious Diseases, Division of Parasitic Diseases and Malaria, 1600 Clifton Road, Atlanta, GA, 30329, USACenters for Disease Control and Prevention, National Center for Emerging and Zoonotic Infectious Diseases, Division of Parasitic Diseases and Malaria, 1600 Clifton Road, Atlanta, GA, 30329, USACenters for Disease Control and Prevention, National Center for Emerging and Zoonotic Infectious Diseases, Division of Parasitic Diseases and Malaria, 1600 Clifton Road, Atlanta, GA, 30329, USACenters for Disease Control and Prevention, National Center for Emerging and Zoonotic Infectious Diseases, Division of Parasitic Diseases and Malaria, 1600 Clifton Road, Atlanta, GA, 30329, USAFlorida Department of Health, 4052 Bald Cypress Way, Tallahassee, FL, 32399, USAFlorida Department of Health, 4052 Bald Cypress Way, Tallahassee, FL, 32399, USAFlorida Department of Health, 4052 Bald Cypress Way, Tallahassee, FL, 32399, USAFlorida Department of Health, 4052 Bald Cypress Way, Tallahassee, FL, 32399, USABureau of Public Health Laboratories-Tampa, 3602 Spectrum Blvd, Tampa, FL, 33612, USATexas Department of State Health Services, 1100 West 49th Street, Austin, TX, 78756-3199, USATexas Department of State Health Services, 1100 West 49th Street, Austin, TX, 78756-3199, USATexas Department of State Health Services, 1100 West 49th Street, Austin, TX, 78756-3199, USANew York State Department of Health Wadsworth Center, 120 New Scotland Ave, Albany, NY, 12208, USANew York State Department of Health Wadsworth Center, 120 New Scotland Ave, Albany, NY, 12208, USANew York State Department of Health Wadsworth Center, 120 New Scotland Ave, Albany, NY, 12208, USANew York State Department of Health, Empire State Plaza, Albany, NY, 12237, USANYC Department of Health and Mental Hygiene, 42-09 28th St., Long Island City, NY, 11101, USAArkansas Department of Health, Zoonotic Disease Section, 4815 W. Markham, Little Rock, AR, 72205, USAArkansas Department of Health, Zoonotic Disease Section, 4815 W. Markham, Little Rock, AR, 72205, USAArkansas Department of Health, Zoonotic Disease Section, 4815 W. Markham, Little Rock, AR, 72205, USAArkansas Department of Health, Glen F. Baker Public Health Lab., 201 S. Monroe Street, Little Rock, AR, 72205, USAArkansas Children's Hospital, 1 Children's Way, Little Rock, AR, 72202, USA; University of Arkansas for Medical Sciences, Little Rock, AR, USAArkansas Children's Hospital, 1 Children's Way, Little Rock, AR, 72202, USA; University of Arkansas for Medical Sciences, Little Rock, AR, USACenters for Disease Control and Prevention, National Center for Emerging and Zoonotic Infectious Diseases, Division of Parasitic Diseases and Malaria, 1600 Clifton Road, Atlanta, GA, 30329, USACenters for Disease Control and Prevention, National Center for Emerging and Zoonotic Infectious Diseases, Division of Parasitic Diseases and Malaria, 1600 Clifton Road, Atlanta, GA, 30329, USACenters for Disease Control and Prevention, National Center for Emerging and Zoonotic Infectious Diseases, Division of Parasitic Diseases and Malaria, 1600 Clifton Road, Atlanta, GA, 30329, USA; Corresponding author.Summary: Background: Malaria is a mosquito borne disease caused by parasites of the genus Plasmodium. In 2023, the United States (US) experienced nine cases of autochthonous Plasmodium vivax malaria transmission; seven in Florida, one in Texas, and another in Arkansas. These were the first autochthonous cases since 2003 when a cluster was identified in Florida. The aim of this study was to genetically characterize the implicated P. vivax isolates in order to complement epidemiologic investigations of these cases. Methods: A custom Illumina AmpliSeq sequencing panel capturing 495 amplicons was designed. This panel was used to ascertain whether these 2023 cases were related, and assess if they were associated with a single or separate introduction events. Sequence data were hierarchically clustered and a Naïve Bayes classification approach was used to assign genotypes to a probable geographic origin based on 113 ‘geo-informative’ SNPs captured by the panel. Genotypes associated with the 2023 Arkansas, Texas, and Florida cases were clustered alongside those sequenced from archived blood samples from the 2003 Florida case-patients, a set of reference strains, and other travel-associated specimens. Microsatellite analysis was performed on a subset of samples from these autochthonous cases to complement the AmpliSeq analysis. Findings: The 2023 autochthonous Florida cases were genetically linked as were the 2003 Florida cases. The 2023 and 2003 Florida clusters were genetically distinct, and the two Florida clusters were distinct from the 2023 Texas and Arkansas cases, which were also distinct from each other. These genotypes classified to the Central or South American region using the Naïve Bayes classifier, including those from the 2003 cluster. Interpretation: These data support that at least three distinct P. vivax introduction events in the US in 2023, involving parasites possessing genetic signatures consistent with Central or South America. Funding: This work was supported by the National Center for Emerging and Zoonotic Infectious Diseases at the US Centers for Disease Control and Prevention.http://www.sciencedirect.com/science/article/pii/S2667193X25001693MalariaAutochthonousPlasmodium vivaxUSATransmissionSequencing |
| spellingShingle | Joel L.N. Barratt David Jacobson Edwin Pierre-Louis Marko Bajic Julia Kelley Dhruviben S. Patel Ira Goldman Zhiyong Zhou Ya Ping Shi Alison Ridpath Kimberly Mace Christina Carlson Alice Sutcliffe Qiana Butler Andrea Morrison Danielle Stanek Kelly Tomson Carina Blackmore Andrew Cannons Susan Rollo Chun Wang Rashmi Tuladhar Brooke Clemons Susan Madison-Antenucci Kimberly Mergen Jennifer White Mike Antwi Laura Rothfeldt Katelyn Lazenby Stephen Hedges Jennifer N. Shray Ashleah Courtney Bobby Boyanton Yvonne Qvarnstrom Molly Freeman Brian H. Raphael Genetic characterization of Plasmodium vivax linked to autochthonous malaria transmission in the US (2023) using Illumina AmpliSeq technology: a genetic epidemiology studyResearch in context The Lancet Regional Health. Americas Malaria Autochthonous Plasmodium vivax USA Transmission Sequencing |
| title | Genetic characterization of Plasmodium vivax linked to autochthonous malaria transmission in the US (2023) using Illumina AmpliSeq technology: a genetic epidemiology studyResearch in context |
| title_full | Genetic characterization of Plasmodium vivax linked to autochthonous malaria transmission in the US (2023) using Illumina AmpliSeq technology: a genetic epidemiology studyResearch in context |
| title_fullStr | Genetic characterization of Plasmodium vivax linked to autochthonous malaria transmission in the US (2023) using Illumina AmpliSeq technology: a genetic epidemiology studyResearch in context |
| title_full_unstemmed | Genetic characterization of Plasmodium vivax linked to autochthonous malaria transmission in the US (2023) using Illumina AmpliSeq technology: a genetic epidemiology studyResearch in context |
| title_short | Genetic characterization of Plasmodium vivax linked to autochthonous malaria transmission in the US (2023) using Illumina AmpliSeq technology: a genetic epidemiology studyResearch in context |
| title_sort | genetic characterization of plasmodium vivax linked to autochthonous malaria transmission in the us 2023 using illumina ampliseq technology a genetic epidemiology studyresearch in context |
| topic | Malaria Autochthonous Plasmodium vivax USA Transmission Sequencing |
| url | http://www.sciencedirect.com/science/article/pii/S2667193X25001693 |
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