Comparative genomics in infectious disease. (February 2020)

• Record Type: Journal Article
• Authors: Moustafa, Ahmed M; Lal, Arnav; Planet, Paul J
• Is Part Of: Current opinion in microbiology. Volume 53(2020)
• Page Start: 61
• Page End: 70
• Publication Date: 2020-02
• Subjects: Microbiology -- Periodicals; 579.05
• DOI: 10.1016/j.mib.2020.02.009
• Languages: English
• ISSNs: 1369-5274

Abstract

Highlights: 72% of the available 1 067 277 bacterial genomes on NCBI are from only 10 species. WGS is a new gold standard for detection of clonal outbreaks and transmission events. WGS ancestral reconstruction and GWAS allow unbiased functional prediction. WGS of longitudinal infection can be used to detect host adaptations. The data loss common in WGS methods may be tackled with database-driven approaches. Abstract : With more than one million bacterial genome sequences uploaded to public databases in the last 25 years, genomics has become a powerful tool for studying bacterial biology. Here, we review recent approaches that leverage large numbers of whole genome sequences to decipher the spread and pathogenesis of bacterial infectious diseases.