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Defining metrics for whole-genome sequence analysis of MRSA in clinical practice
- Publication Year :
- 2020
- Publisher :
- Microbiology Society, 2020.
-
Abstract
- Bacterial sequencing will become increasingly adopted in routine microbiology laboratories. Here, we report the findings of a technical evaluation of almost 800 clinical methicillin-resistant Staphylococcus aureus (MRSA) isolates, in which we sought to define key quality metrics to support MRSA sequencing in clinical practice. We evaluated the accuracy of mapping to a generic reference versus clonal complex (CC)-specific mapping, which is more computationally challenging. Focusing on isolates that were genetically related (50 bp apart to identify same-species contamination for MRSA. These metrics were combined into a quality-control (QC) flowchart to determine whether sequence runs and individual clinical isolates passed QC, which could be adapted by future automated analysis systems to enable rapid hands-off sequence analysis by clinical laboratories.
- Subjects :
- Methicillin-Resistant Staphylococcus aureus
Whole Genome Sequencing
translational
Computational Biology
High-Throughput Nucleotide Sequencing
MRSA
Staphylococcal Infections
Polymorphism, Single Nucleotide
United Kingdom
Workflow
quality metrics
Bacterial Proteins
whole-genome sequencing
Humans
Penicillin-Binding Proteins
Subjects
Details
- ISSN :
- 20575858
- Database :
- OpenAIRE
- Accession number :
- edsair.doi.dedup.....06be91dc32ed529cd6c6a8479443993e
- Full Text :
- https://doi.org/10.17863/cam.49903