Metagenomics analysis of sewage for surveillance of antimicrobial resistance in South Africa

• Anthony M. Smith ,

  Contributed equally to this work with: Anthony M. Smith, Masindi Ramudzulu, Phuti Sekwadi

  Roles Conceptualization, Data curation, Formal analysis, Funding acquisition, Investigation, Methodology, Project administration, Resources, Supervision, Validation, Visualization, Writing – original draft, Writing – review & editing

  * E-mail: anthonys@nicd.ac.za

  Affiliations Division of the National Health Laboratory Service, National Institute for Communicable Diseases, Centre for Enteric Diseases, Johannesburg, South Africa, Faculty of Health Sciences, Department of Medical Microbiology, School of Medicine, University of Pretoria, Pretoria, South Africa

  https://orcid.org/0000-0002-3637-7155

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• Masindi Ramudzulu ,

  Contributed equally to this work with: Anthony M. Smith, Masindi Ramudzulu, Phuti Sekwadi

  Roles Methodology

  Affiliation Division of the National Health Laboratory Service, National Institute for Communicable Diseases, Centre for Enteric Diseases, Johannesburg, South Africa

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• Patrick Munk ,

  Roles Data curation, Formal analysis, Investigation, Methodology, Software

  ¶‡ These authors also contributed equally to this work.

  Affiliation National Food Institute, Technical University of Denmark, Copenhagen, Denmark

  https://orcid.org/0000-0001-8813-4019

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• Baptiste J. P. Avot ,

  Roles Data curation, Investigation

  ¶‡ These authors also contributed equally to this work.

  Affiliation National Food Institute, Technical University of Denmark, Copenhagen, Denmark

  https://orcid.org/0009-0009-9566-7871

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• Kerneels C. M. Esterhuyse ,

  Roles Investigation, Resources

  ¶‡ These authors also contributed equally to this work.

  Affiliation Waste Water Treatment, Tshwane, South Africa

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• Nico van Blerk ,

  Roles Investigation, Resources

  ¶‡ These authors also contributed equally to this work.

  Affiliation Ekurhuleni Water Care Company, Kempton Park, South Africa

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• Stanford Kwenda ,

  Roles Formal analysis, Investigation, Software

  ¶‡ These authors also contributed equally to this work.

  Affiliation Division of the National Health Laboratory Service, National Institute for Communicable Diseases, Centre for Enteric Diseases, Johannesburg, South Africa

  https://orcid.org/0000-0002-9008-4898

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• Phuti Sekwadi

  Contributed equally to this work with: Anthony M. Smith, Masindi Ramudzulu, Phuti Sekwadi

  Roles Formal analysis, Resources, Software

  Affiliation Division of the National Health Laboratory Service, National Institute for Communicable Diseases, Centre for Enteric Diseases, Johannesburg, South Africa

  https://orcid.org/0000-0001-8627-9791

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