Comparison of Whole Genome (wg-) and Core Genome (cg-) MLST (BioNumericsTM) Versus SNP Variant Calling for Epidemiological Investigation of Pseudomonas aeruginosa

Comparison of Whole Genome (wg-) and Core Genome (cg-) MLST (BioNumericsTM) Versus SNP Variant Calling for Epidemiological Investigation of Pseudomonas aeruginosa

Whole genome sequencing (WGS) is increasingly used for epidemiological investigations of pathogens. While SNP variant calling is currently considered as the most suitable method, the choice of a representative reference genome and the isolate dependency of results limit standardization and affect re...

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Bibliographic Details
Main Authors: Dominique S. Blanc, Bárbara Magalhães, Isabelle Koenig, Laurence Senn, Bruno Grandbastien
Format: Article
Language:English
Published: Frontiers Media S.A. 2020-07-01
Series:Frontiers in Microbiology
Subjects:
whole genome sequencing
Pseudomonas aeruginosa
molecular typing
wgMLST
cgMLST
evaluation
Online Access:https://www.frontiersin.org/article/10.3389/fmicb.2020.01729/full

Internet

https://www.frontiersin.org/article/10.3389/fmicb.2020.01729/full

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