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      Transforming clinical microbiology with bacterial genome sequencing.

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          Abstract

          Whole-genome sequencing of bacteria has recently emerged as a cost-effective and convenient approach for addressing many microbiological questions. Here, we review the current status of clinical microbiology and how it has already begun to be transformed by using next-generation sequencing. We focus on three essential tasks: identifying the species of an isolate, testing its properties, such as resistance to antibiotics and virulence, and monitoring the emergence and spread of bacterial pathogens. We predict that the application of next-generation sequencing will soon be sufficiently fast, accurate and cheap to be used in routine clinical microbiology practice, where it could replace many complex current techniques with a single, more efficient workflow.

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          Author and article information

          Journal
          Nat Rev Genet
          Nature reviews. Genetics
          Springer Science and Business Media LLC
          1471-0064
          1471-0056
          Sep 2012
          : 13
          : 9
          Affiliations
          [1 ] Department of Statistics, University of Oxford, 1 South Parks Road, Oxford OX1 3TG, UK.
          [2 ] Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, UK.
          [3 ] NIHR Oxford Biomedical Research Centre, John Radcliffe Hospital, Oxford OX3 9DU, UK.
          [4 ] Nuffield Department of Clinical Medicine, University of Oxford, John Radcliffe Hospital, Oxford, OX3 9DU, UK.
          Article
          EMS70029
          10.1038/nrg3226
          5049685
          22868263
          ea48180d-a509-49cb-87c6-656a38d8ac6b
          History

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