Quantifying plasmid movement in drug-resistant Shigella species using phylodynamic inference

• Nicola F. Müller ,

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

  * E-mail: nicola.felix.mueller@gmail.com (NFM); sebastian.duchene@pasteur.fr (SD); danielle.ingle@unimelb.edu.au (DJI)

  Affiliations Division of HIV, ID and Global Medicine, University of California San Francisco, San Francisco, California, United States of America, Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Center, Seattle, Washington State, United States of America

  https://orcid.org/0000-0002-2927-1002

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• Ryan R. Wick,

  Roles Formal analysis, Investigation, Writing – review & editing

  Affiliation Department of Microbiology and Immunology at the Peter Doherty Institute for Infection and Immunity, The University of Melbourne, Melbourne, Victoria, Australia

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• Louise M. Judd,

  Roles Investigation, Writing – review & editing

  Affiliation Center for Pathogen Genomics, The University of Melbourne, Melbourne, Victoria, Australia

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• Deborah A. Williamson,

  Roles Writing – review & editing

  Affiliations Department of Infectious Diseases at the Peter Doherty Institute for Infection and Immunity, The University of Melbourne, Melbourne, Victoria, Australia, School of Medicine, University of St Andrews, Fife, Scotland

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• Trevor Bedford,

  Roles Conceptualization, Funding acquisition, Writing – review & editing

  Affiliations Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Center, Seattle, Washington State, United States of America, Howard Hughes Medical Institute, Seattle, Washington State, United States of America

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• Benjamin P. Howden,

  Roles Funding acquisition, Resources, Writing – review & editing

  Affiliations Department of Microbiology and Immunology at the Peter Doherty Institute for Infection and Immunity, The University of Melbourne, Melbourne, Victoria, Australia, Center for Pathogen Genomics, The University of Melbourne, Melbourne, Victoria, Australia

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• Sebastián Duchêne ,

  Contributed equally to this work with: Sebastián Duchêne, Danielle J. Ingle

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

  * E-mail: nicola.felix.mueller@gmail.com (NFM); sebastian.duchene@pasteur.fr (SD); danielle.ingle@unimelb.edu.au (DJI)

  Affiliations Department of Microbiology and Immunology at the Peter Doherty Institute for Infection and Immunity, The University of Melbourne, Melbourne, Victoria, Australia, EDID Unit, Department of Computational Biology, Institut Pasteur, Paris, France, Université Paris Cité, Paris, France

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• Danielle J. Ingle

  Contributed equally to this work with: Sebastián Duchêne, Danielle J. Ingle

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

  * E-mail: nicola.felix.mueller@gmail.com (NFM); sebastian.duchene@pasteur.fr (SD); danielle.ingle@unimelb.edu.au (DJI)

  Affiliations Department of Microbiology and Immunology at the Peter Doherty Institute for Infection and Immunity, The University of Melbourne, Melbourne, Victoria, Australia, Center for Pathogen Genomics, The University of Melbourne, Melbourne, Victoria, Australia

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