Genomic Tools for the Surveillance and Investigation of Foodborne Disease and Enteric Zoonoses
A special issue of Microorganisms (ISSN 2076-2607). This special issue belongs to the section "Molecular Microbiology and Immunology".
Deadline for manuscript submissions: closed (31 July 2022) | Viewed by 15937
Special Issue Editor
Special Issue Information
Dear Colleagues,
Whole-genome sequencing (WGS) is rapidly replacing traditional typing methods that provide limited information and are usually pathogen-specific. By offering the highest resolution possible, genomic-based microbial typing tools can be used for pathogen tracking, outbreak control and source attribution, in addition to provide an all-in-one test for species identification, serotyping, resistance profiling and virulence detection useful for pathogen diagnostics and treatment decisions. However, WGS raises several challenges in terms of data extraction and its conversion to clinical and epidemiological information which include bioinformatic tool development, interpretation guideline definitions, harmonization and societal acceptance. This last challenge is covered by GE3LS by investigating economic, legal and societal questions at the intersection of genomics and society.
In the last few years, several methods have been developed for phylogenetic analysis based on single nucleotide polymorphism (SNP) or allelic (cgMLST or wgMLST) variation applied on the core- or the whole- genome. The use of core- or whole-genome sequences should take in consideration the genetic features of the pathogen in regards to genome size, evolution rate, plasticity and horizontally-transferred sequence content. The aim of this issue is to provide a reference collection of articles on the validation and the use of genomic tools for foodborne and zoonotic pathogen surveillance, outbreak investigation, source attribution, GE3LS and emerging challenges. Articles on the use of genomics for strain characterization, including virulence and resistance gene detection, are also accepted.
Dr. Sadjia Bekal
Guest Editor
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Keywords
- Foodborne pathogens
- Enteric zoonosis
- Genomic analysis tools
- Molecular Identification
- Comparative genomic
- GE3LS
- Virulence
- Antimicrobial Resistance
- Epidemiology
- Source attribution
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