Future potential of metagenomics in microbiology laboratories

Leonard Schuele, Hayley Cassidy, Nilay Peker, John W.A. Rossen, Natacha Couto

Research output: Contribution to journalReview articlepeer-review

8 Citations (SciVal)


Rapid and sensitive diagnostic strategies are necessary for patient care and public health. Most of the current conventional microbiological assays detect only a restricted panel of pathogens at a time or require a microbe to be successfully cultured from a sample. Clinical metagenomics next-generation sequencing (mNGS) has the potential to unbiasedly detect all pathogens in a sample, increasing the sensitivity for detection and enabling the discovery of unknown infectious agents. High expectations have been built around mNGS; however, this technique is far from widely available. This review highlights the advances and currently available options in terms of costs, turnaround time, sensitivity, specificity, validation, and reproducibility of mNGS as a diagnostic tool in clinical microbiology laboratories. The need for a novel diagnostic tool to increase the sensitivity of microbial diagnostics is clear. mNGS has the potential to revolutionize clinical microbiology. However, its role as a diagnostic tool has yet to be widely established, which is crucial for successfully implementing the technique. A clear definition of diagnostic algorithms that include mNGS is vital to show clinical utility. Similarly to real-time PCR, mNGS will one day become a vital tool in any testing algorithm.

Original languageEnglish
Pages (from-to)1273-1285
Number of pages13
JournalExpert Review of Molecular Diagnostics
Issue number12
Early online date10 Dec 2021
Publication statusPublished - 31 Dec 2021


  • Clinical metagenomics
  • clinical microbiology
  • diagnostics
  • infection
  • infectious disease
  • next-generation sequencing
  • pathogen

ASJC Scopus subject areas

  • Pathology and Forensic Medicine
  • Molecular Medicine
  • Molecular Biology
  • Genetics


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