High-throughput targeted amplicon screening tool for characterizing intrahost diversity in Staphylococcus aureus directly from sample
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View abstract on PubMed
Summary
This summary is machine-generated.A new amplicon sequencing assay (AmpSeq) offers a cost-effective way to track Staphylococcus aureus (SA) strains. This method rapidly identifies transmission sources and colonization patterns without expensive whole-genome sequencing.
Area Of Science
- Microbiology and Infectious Diseases
- Genomics and Molecular Biology
- Epidemiology
Background
- Asymptomatic Staphylococcus aureus (SA) carriage is a significant risk factor for opportunistic infections.
- SA colonization dynamics, strain evolution, and transmission between body sites and individuals complicate detection and control.
- Whole-genome sequencing (WGS) is accurate but resource-intensive for large-scale, longitudinal studies.
Purpose Of The Study
- To develop and validate a low-cost, direct-from-sample amplicon sequencing (AmpSeq) assay for high-resolution SA genotyping.
- To characterize SA colonization patterns and transmission dynamics in a longitudinal study.
- To provide a cost-effective alternative to WGS for initial transmission assessments.
Main Methods
- Development of a custom, species-specific amplicon sequencing (AmpSeq) assay for SA.
- Longitudinal collection of oral and nasal samples from nine participants over 18 weeks.
- Direct analysis of qPCR-positive samples using AmpSeq without prior culturing.
Main Results
- AmpSeq successfully discriminated SA genotypes directly from samples, enabling strain typing.
- Longitudinal data revealed within-person spread, with nasal SA populations likely seeding oral colonization.
- The assay rapidly ruled out inter-person transmission among sampled participants.
Conclusions
- The developed AmpSeq assay is a rapid, cost-effective, direct-from-sample method for SA screening and transmission analysis.
- AmpSeq facilitates population-level characterization, strain typing, and identification of potential reservoirs.
- This approach serves as a valuable precursor to more resource-intensive WGS for detailed colonization pattern validation.
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