Improving the quality and workflow of bacterial genome sequencing and analysis: paving the way for a Switzerland-wide molecular epidemiological surveillance platform.

Détails

Ressource 1Télécharger: smw_2018_14693.pdf (739.77 [Ko])
Etat: Public
Version: Final published version
Licence: CC BY 4.0
ID Serval
serval:BIB_A2EB75DDA9CB
Type
Article: article d'un périodique ou d'un magazine.
Collection
Publications
Institution
Titre
Improving the quality and workflow of bacterial genome sequencing and analysis: paving the way for a Switzerland-wide molecular epidemiological surveillance platform.
Périodique
Swiss medical weekly
Auteur(s)
Egli A., Blanc D.S., Greub G., Keller P.M., Lazarevic V., Lebrand A., Leib S., Neher R.A., Perreten V., Ramette A., Schrenzel J., Stephan R., Wagner K., Wuethrich D., Xenarios I.
ISSN
1424-3997 (Electronic)
ISSN-L
0036-7672
Statut éditorial
Publié
Date de publication
03/12/2018
Peer-reviewed
Oui
Volume
148
Pages
w14693
Langue
anglais
Notes
Publication types: Journal Article
Publication Status: epublish
Résumé
Facing multidrug resistant (MDR) bacterial pathogens is one of the most important challenges for our society. The spread of highly virulent and resistant pathogens can be described using molecular typing technologies; in particular, whole genome sequencing (WGS) data can be used for molecular typing purposes with high resolution. WGS data analysis can explain the spatiotemporal patterns of pathogen transmission. However, the transmission between compartments (human, animal, food, environment) is very complex. Interoperable and curated metadata are a key requirement for fully understanding this complexity. In addition, high quality sequence data are a key element between centres using WGS data for diagnostic and epidemiological applications. We aim to describe steps to improve WGS data analysis and to implement a molecular surveillance platform allowing integration of high resolution WGS typing data and epidemiological data.
Mots-clé
Bacteria/genetics, Bacteria/pathogenicity, Disease Outbreaks, Drug Resistance, Microbial, Genome, Bacterial/genetics, Humans, Molecular Epidemiology/organization & administration, Molecular Typing/methods, Population Surveillance/methods, Switzerland, Whole Genome Sequencing/methods, Whole Genome Sequencing/standards, Workflow
Pubmed
Open Access
Oui
Création de la notice
29/08/2019 9:45
Dernière modification de la notice
24/01/2020 7:19
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