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Routine Use of Microbial Whole Genome Sequencing in Diagnostic and Public Health Microbiology

  • Claudio U. Köser mail,

    cuk21@cam.ac.uk

    Affiliations: Department of Medicine, University of Cambridge, Addenbrooke's Hospital, Cambridge, United Kingdom, Clinical Microbiology and Public Health Laboratory, Health Protection Agency Microbiology Services, Addenbrooke's Hospital, Cambridge, United Kingdom

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  • Matthew J. Ellington,

    Affiliation: Clinical Microbiology and Public Health Laboratory, Health Protection Agency Microbiology Services, Addenbrooke's Hospital, Cambridge, United Kingdom

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  • Edward J. P. Cartwright,

    Affiliations: Department of Medicine, University of Cambridge, Addenbrooke's Hospital, Cambridge, United Kingdom, Clinical Microbiology and Public Health Laboratory, Health Protection Agency Microbiology Services, Addenbrooke's Hospital, Cambridge, United Kingdom

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  • Stephen H. Gillespie,

    Affiliation: The Medical School University of St. Andrews, North Haugh, St. Andrews Fife, United Kingdom

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  • Nicholas M. Brown,

    Affiliation: Clinical Microbiology and Public Health Laboratory, Health Protection Agency Microbiology Services, Addenbrooke's Hospital, Cambridge, United Kingdom

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  • Mark Farrington,

    Affiliation: Clinical Microbiology and Public Health Laboratory, Health Protection Agency Microbiology Services, Addenbrooke's Hospital, Cambridge, United Kingdom

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  • Matthew T. G. Holden,

    Affiliation: The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom

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  • Gordon Dougan,

    Affiliation: The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom

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  • Stephen D. Bentley,

    Affiliation: The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom

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  • Julian Parkhill,

    Affiliation: The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom

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  • Sharon J. Peacock

    Affiliations: Department of Medicine, University of Cambridge, Addenbrooke's Hospital, Cambridge, United Kingdom, Clinical Microbiology and Public Health Laboratory, Health Protection Agency Microbiology Services, Addenbrooke's Hospital, Cambridge, United Kingdom, The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom, Department of Pathology, University of Cambridge, Cambridge, United Kingdom

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  • Published: August 02, 2012
  • DOI: 10.1371/journal.ppat.1002824

About the Authors

Claudio U. Köser, Edward J. P. Cartwright, Sharon J. Peacock
Department of Medicine, University of Cambridge, Addenbrooke's Hospital, Cambridge, United Kingdom
Claudio U. Köser, Matthew J. Ellington, Edward J. P. Cartwright, Nicholas M. Brown, Mark Farrington, Sharon J. Peacock
Clinical Microbiology and Public Health Laboratory, Health Protection Agency Microbiology Services, Addenbrooke's Hospital, Cambridge, United Kingdom
Stephen H. Gillespie
The Medical School University of St. Andrews, North Haugh, St. Andrews Fife, United Kingdom
Matthew T. G. Holden, Gordon Dougan, Stephen D. Bentley, Julian Parkhill, Sharon J. Peacock
The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom
Sharon J. Peacock
Department of Pathology, University of Cambridge, Cambridge, United Kingdom

Corresponding Author

Email: cuk21@cam.ac.uk

Competing Interests

I have read the journal's policy and have the following conflicts: CUK, MJE, EJPC, NMB, MTGH, GD, SDB, JP, and SJP have collaborated with Illumina Ltd. on a number of scientific projects. JP has received funding for travel and accommodation from Pacific Biosciences Inc. and Illumina Inc. NMB is a consultant for Astellas Pharma Ltd. SHG has received payments from Bayer Schering Health Care for lectures. SJP is a consultant for Pfizer Inc. This does not alter our adherence to all PLoS Pathogens policies on sharing data and materials.