Optimization of subculture and DNA extraction steps within the whole genome sequencing workflow for source tracking of Salmonella enterica and Listeria monocytogenes

Johan Gimonet; Anne-Catherine Portmann; Coralie Fournier; Leen Baert

doi:10.1016/j.mimet.2018.06.005

Optimization of subculture and DNA extraction steps within the whole genome sequencing workflow for source tracking of Salmonella enterica and Listeria monocytogenes

J Microbiol Methods. 2018 Aug:151:66-68. doi: 10.1016/j.mimet.2018.06.005. Epub 2018 Jun 18.

Authors

Johan Gimonet¹, Anne-Catherine Portmann¹, Coralie Fournier², Leen Baert³

Affiliations

¹ Nestlé Research Center, Nestec Ltd, Vers-Chez-les-Blanc, 1000 Lausanne 26, Switzerland.
² Nestlé Institute of Health Sciences, 1015 Lausanne, Switzerland.
³ Nestlé Research Center, Nestec Ltd, Vers-Chez-les-Blanc, 1000 Lausanne 26, Switzerland. Electronic address: leen.baert@rdls.nestle.com.

PMID: 29920304
DOI: 10.1016/j.mimet.2018.06.005

Abstract

This work shows that an incubation time reduced to 4-5 h to prepare a culture for DNA extraction followed by an automated DNA extraction can shorten the hands-on time, the turnaround time by 30% and increase the throughput while maintaining the WGS quality assessed by high quality Single Nucleotide Polymorphism analysis.

Keywords: Automation; DNA extraction; Listeria monocytogenes; Salmonella enterica; Source tracking; Subculture.

MeSH terms

DNA, Bacterial / isolation & purification*
Food Contamination / analysis
Food Microbiology
Genome, Bacterial
Listeria monocytogenes / genetics*
Polymorphism, Single Nucleotide
Salmonella enterica / genetics*
Sequence Analysis, DNA / methods
Whole Genome Sequencing / methods*
Workflow*

Substances

DNA, Bacterial