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Whole-Genome Sequencing for Bacterial Virulence Assessment

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Application and Integration of Omics-powered Diagnostics in Clinical and Public Health Microbiology

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Abstract

Whole-genome sequencing (WGS) can provide a detailed map of the genetic determinants of any microorganism, including pathogens. In clinical microbiology, the use of WGS to assess the content in genes encoding virulence factors as well as in mutations associated to virulence brings new perspectives to the field. In a clinical setting, WGS should be considered only (i) when the results may change the therapy or the clinical management, or (ii) for public health surveillance of the emergence of a hypervirulent clone (both by typing and virulence factors detection approaches). In this chapter, we will review the main current and foreseen clinical applications where WGS has or could have an added value regarding the presence of virulence factors. In addition, we will discuss the main technical approaches and limitations of WGS as well as the validation and interpretation of the results.

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The authors declare no conflict of interest.

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Authors and Affiliations

  1. Institute of Microbiology, Department of Laboratory Medicine, Lausanne University Hospital and University of Lausanne, Lausanne, Switzerland

    Florian Tagini, Trestan Pillonel & Gilbert Greub

  2. Division of Infectious Diseases, Department of Medicine, Lausanne University Hospital, Lausanne, Switzerland

    Gilbert Greub

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  1. Florian Tagini
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  2. Trestan Pillonel
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  3. Gilbert Greub
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Correspondence to Gilbert Greub .

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  1. Ben-Gurion University of the Negev, Beer Sheva, Israel

    Jacob Moran-Gilad

  2. Ben-Gurion University of the Negev, Beer-Sheva, Israel

    Yael Yagel

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Tagini, F., Pillonel, T., Greub, G. (2021). Whole-Genome Sequencing for Bacterial Virulence Assessment. In: Moran-Gilad, J., Yagel, Y. (eds) Application and Integration of Omics-powered Diagnostics in Clinical and Public Health Microbiology . Springer, Cham. https://doi.org/10.1007/978-3-030-62155-1_4

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