Acute SARS-CoV-2 infections harbor limited within-host diversity and transmit via tight transmission bottlenecks

• Katarina M. Braun ,

  Contributed equally to this work with: Katarina M. Braun, Gage K. Moreno

  Roles Conceptualization, Data curation, Formal analysis, Investigation, Software, Validation, Visualization, Writing – original draft, Writing – review & editing

  Affiliation Department of Pathobiological Sciences, University of Wisconsin-Madison, Madison, Wisconsin, United States of America

  https://orcid.org/0000-0003-3612-9319

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• Gage K. Moreno ,

  Contributed equally to this work with: Katarina M. Braun, Gage K. Moreno

  Roles Conceptualization, Formal analysis, Investigation, Methodology, Software, Validation, Visualization, Writing – original draft, Writing – review & editing

  Affiliation Department of Pathology and Laboratory Medicine, University of Wisconsin-Madison, Madison, Wisconsin, United States of America

  https://orcid.org/0000-0003-4738-5318

  ⨯
• Cassia Wagner,

  Roles Conceptualization, Software, Validation, Writing – original draft

  Affiliation Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, Washington, United States of America

  https://orcid.org/0000-0002-9934-7578

  ⨯
• Molly A. Accola,

  Roles Data curation, Methodology

  Affiliation University of Wisconsin School of Medicine and Public Health and the William S. Middleton Memorial Veterans Hospital, Madison, Wisconsin, United States of America

  https://orcid.org/0000-0001-6904-7171

  ⨯
• William M. Rehrauer,

  Roles Data curation

  Affiliation University of Wisconsin School of Medicine and Public Health and the William S. Middleton Memorial Veterans Hospital, Madison, Wisconsin, United States of America

  ⨯
• David A. Baker,

  Roles Data curation, Formal analysis, Software

  Affiliations Department of Pathology and Laboratory Medicine, University of Wisconsin-Madison, Madison, Wisconsin, United States of America, Wisconsin National Primate Research Center, University of Wisconsin-Madison, Madison, Wisconsin, United States of America

  https://orcid.org/0000-0002-6811-8238

  ⨯
• Katia Koelle,

  Roles Conceptualization, Formal analysis, Methodology, Resources, Software, Writing – original draft

  Affiliation Department of Biology, Emory University, Atlanta, Georgia, United States of America

  https://orcid.org/0000-0002-0254-6141

  ⨯
• David H. O’Connor,

  Roles Conceptualization, Data curation, Funding acquisition, Supervision

  Affiliations Department of Pathology and Laboratory Medicine, University of Wisconsin-Madison, Madison, Wisconsin, United States of America, Wisconsin National Primate Research Center, University of Wisconsin-Madison, Madison, Wisconsin, United States of America

  https://orcid.org/0000-0003-2139-470X

  ⨯
• Trevor Bedford,

  Roles Methodology, Supervision

  Affiliation Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, Washington, United States of America

  https://orcid.org/0000-0002-4039-5794

  ⨯
• Thomas C. Friedrich ,

  Roles Conceptualization, Funding acquisition, Methodology, Resources, Supervision, Writing – original draft, Writing – review & editing

  * E-mail: tcfriedrich@gmail.com (TCF); lhmoncla@gmail.com (LHM)

  Affiliation Department of Pathobiological Sciences, University of Wisconsin-Madison, Madison, Wisconsin, United States of America

  https://orcid.org/0000-0001-9831-6895

  ⨯
• Louise H. Moncla

  Roles Conceptualization, Data curation, Formal analysis, Investigation, Methodology, Software, Supervision, Validation, Visualization, Writing – original draft, Writing – review & editing

  * E-mail: tcfriedrich@gmail.com (TCF); lhmoncla@gmail.com (LHM)

  Affiliation Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, Washington, United States of America

  https://orcid.org/0000-0001-5722-1988

  ⨯