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NGS in the clinical microbiology settings
Milena Pitashny1,2, Balqees Kadry1, Raya Shalaginov2
1Clinical and Research Microbiome Center, Research Division, Rambam Health Care Campus, Haifa, Israel.
Frontiers in Cellular and Infection Microbiology
|November 7, 2022
Summary
Targeted next-generation sequencing (NGS) shows promise for identifying polymicrobial infections missed by Sanger sequencing. This advanced method could improve patient management in complex cases.
Area of Science:
- Microbiology
- Genomic Medicine
- Infectious Diseases
Background:
- Polymicrobial infections present diagnostic challenges.
- Sanger sequencing is a standard but may miss complex infections.
- Next-generation sequencing (NGS) offers potential for improved detection.
Purpose of the Study:
- To compare targeted NGS with Sanger sequencing for identifying pathogens in clinical samples.
- To evaluate the advantage of NGS in detecting polymicrobial infections.
Main Methods:
- Targeted NGS and Sanger sequencing were performed on 55 clinical specimens from 51 patients.
- Comparison of pathogen identification between the two sequencing methods.
Main Results:
- Overall concordance between NGS and Sanger sequencing was 58%.
- NGS identified additional polymicrobial and monomicrobial infections in samples negative or inconclusive by Sanger.
- NGS detected 8 polymicrobial infections in samples with identified 16S genes but unmapped pathogens by Sanger.
Conclusions:
- Targeted NGS demonstrates an advantage over Sanger sequencing in diagnosing polymicrobial infections.
- NGS has the potential to improve patient management by uncovering previously undetected pathogens.
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