Genomic characterization of a severe West Nile Virus transmission season using a single reaction amplicon sequencing approach

Shawn Freed Jr.; Sarah Chandler; Sarah Uhm; Zach Pella; Dikchha Gurung; Hallie Smith; Tammy Dowdy; Amanda M. Bartling; Ava Butz; Michael R. Wiley; M. Jana Broadhurst; Sydney Stein; Emily L. McCutchen; Jeff Hamik; Peter C. Iwen; Nick Downey; Kaylee S. Herzog; Joseph R. Fauver

doi:10.1371/journal.pntd.0013931

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Open Access

Peer-reviewed

Research Article

Genomic characterization of a severe West Nile Virus transmission season using a single reaction amplicon sequencing approach

Shawn Freed Jr. ,

Contributed equally to this work with: Shawn Freed Jr., Sarah Chandler, Sarah Uhm

Roles Conceptualization, Formal analysis, Investigation, Writing – original draft

Affiliations University of Nebraska Medical Center, College of Public Health, Department of Epidemiology, Omaha, Nebraska, United States of America, Association of Public Health Laboratories, Bethesda, Maryland, United States of America
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Sarah Chandler ,

Contributed equally to this work with: Shawn Freed Jr., Sarah Chandler, Sarah Uhm

Roles Formal analysis, Investigation

Affiliation University of Nebraska Medical Center, College of Medicine, Omaha, Nebraska, United States of America
⨯
Sarah Uhm ,

Contributed equally to this work with: Shawn Freed Jr., Sarah Chandler, Sarah Uhm

Roles Formal analysis, Investigation

Affiliation University of Nebraska Medical Center, College of Public Health, Department of Epidemiology, Omaha, Nebraska, United States of America
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Zach Pella,

Roles Formal analysis, Investigation

Affiliations University of Nebraska Medical Center, College of Public Health, Department of Epidemiology, Omaha, Nebraska, United States of America, Association of Public Health Laboratories, Bethesda, Maryland, United States of America
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Dikchha Gurung,

Roles Investigation

Affiliation University of Nebraska Medical Center, College of Public Health, Department of Epidemiology, Omaha, Nebraska, United States of America
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Hallie Smith,

Roles Investigation

Affiliation Nebraska Department of Health and Human Services, Lincoln, Nebraska, United States of America
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Tammy Dowdy,

Roles Investigation

Affiliation Nebraska Department of Health and Human Services, Lincoln, Nebraska, United States of America
⨯
Amanda M. Bartling,

Roles Investigation

Affiliation Nebraska Public Health Laboratory, Omaha, Nebraska, United States of America
⨯
Ava Butz,

Roles Investigation

Affiliation University of Nebraska Medical Center, College of Public Health, Department of Epidemiology, Omaha, Nebraska, United States of America
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Michael R. Wiley,

Roles Methodology

Affiliations Nebraska Public Health Laboratory, Omaha, Nebraska, United States of America, University of Nebraska Medical Center, College of Medicine, Department of Pathology, Microbiology, and Immunology, Omaha, Nebraska, United States of America
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M. Jana Broadhurst,

Roles Investigation

Affiliation University of Nebraska Medical Center, College of Medicine, Department of Pathology, Microbiology, and Immunology, Omaha, Nebraska, United States of America
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Sydney Stein,

Roles Investigation, Writing – review & editing

Affiliation Nebraska Department of Health and Human Services, Lincoln, Nebraska, United States of America
⨯
Emily L. McCutchen,

Roles Investigation, Writing – review & editing

Affiliation Nebraska Public Health Laboratory, Omaha, Nebraska, United States of America
⨯
Jeff Hamik,

Roles Investigation, Writing – review & editing

Affiliation Nebraska Department of Health and Human Services, Lincoln, Nebraska, United States of America
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Peter C. Iwen,

Roles Investigation, Writing – review & editing

Affiliations Nebraska Public Health Laboratory, Omaha, Nebraska, United States of America, University of Nebraska Medical Center, College of Medicine, Department of Pathology, Microbiology, and Immunology, Omaha, Nebraska, United States of America
⨯
Nick Downey,

Roles Conceptualization, Writing – review & editing

Affiliation Integrated DNA Technologies, Coralville, Iowa, United States of America
⨯
Kaylee S. Herzog,

Roles Conceptualization, Formal analysis, Investigation, Writing – review & editing

Affiliation University of Nebraska Medical Center, College of Public Health, Department of Epidemiology, Omaha, Nebraska, United States of America
⨯
[ ... ],
Joseph R. Fauver

Roles Conceptualization, Data curation, Formal analysis, Funding acquisition, Investigation, Supervision, Visualization, Writing – original draft, Writing – review & editing

* E-mail: jfauver@unmc.edu

Affiliation University of Nebraska Medical Center, College of Public Health, Department of Epidemiology, Omaha, Nebraska, United States of America

https://orcid.org/0000-0001-8099-2991

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Genomic characterization of a severe West Nile Virus transmission season using a single reaction amplicon sequencing approach

Shawn Freed Jr.,
Sarah Chandler,
Sarah Uhm,
Zach Pella,
Dikchha Gurung,
Hallie Smith,
Tammy Dowdy,
Amanda M. Bartling,
Ava Butz,
Michael R. Wiley

Published: January 21, 2026
https://doi.org/10.1371/journal.pntd.0013931

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