title: New methods for identifying infectious diseases.
abstract: BACKGROUND
  The goal of clinical microbiology is to identify the cause of infection, aiding rapid treatment initiation or altering empirically chosen anti-microbial regimens. Automation and molecular techniques have brought about a revolution in the clinical laboratory, ensuring ever faster and more accurate diagnoses. In the last few years however, there have been a number of developments that radically alter the way that microbiology and other diagnostic laboratories are advancing. In particular, clinical microbiology will have the opportunity to intervene at the public health level as well as at the individual patient.
  Experts in the new technologies discuss the advances and some of the key literature that has been published to-date. They touch upon both the potential benefits and some of the hurdles that must be overcome before the technologies are embraced fully into the clinical laboratory.
  
  
  CONCLUSIONS
  This review discusses a number of technologies that may alter the way in which clinical microbiology is used to investigate infectious disease. Diagnostic services in the UK are currently undergoing a process of rationalization, which involves a shift towards laboratory amalgamation, adoption of 24/7 working patterns and greater automation in order to reduce costs. This review explores technologies that are already or are expected to be important in this on-going transition because they simplify or accelerate the complex workflows that are required for pathogen identification.
authors.affiliation: Public Health England, Cambridge, UK jane.greatorex@addenbrookes.nhs.uk.
authors.forename: Jane
authors.initials: J
authors.lastname: Greatorex
authors.affiliation: Public Health England, Cambridge, UK.
authors.forename: Matthew J
authors.initials: MJ
authors.lastname: Ellington
authors.affiliation: University of Cambridge, Cambridge, UK.
authors.forename: Claudio U
authors.initials: CU
authors.lastname: Köser
authors.affiliation: Public Health England, Cambridge, UK.
authors.forename: Kathryn J
authors.initials: KJ
authors.lastname: Rolfe
authors.affiliation: Public Health England, Cambridge, UK.
authors.forename: Martin D
authors.initials: MD
authors.lastname: Curran
mesh_terms: D003141:Communicable Diseases / Q000175:diagnosis*; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods; D006801:Humans; D008828:Microbiological Techniques / Q000379:methods* / Q000639:trends; D025202:Molecular Diagnostic Techniques / Q000379:methods / Q000639:trends; D019032:Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / Q000379:methods
keywords: MALDI-ToF; arrays; diagnostics; next generation sequencing