Rapid identification and phylogenetic classification of diverse bacterial pathogens in a multiplexed hybridization assay targeting ribosomal RNA

Rapid bacterial identification remains a critical challenge in infectious disease diagnostics. We developed a novel molecular approach to detect and identify a wide diversity of bacterial pathogens in a single, simple assay, exploiting the conservation, abundance, and rich phylogenetic content of ri...

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Bibliographic Details
Published in:Scientific reports 2019-03, Vol.9 (1), p.4516-4516, Article 4516
Main Authors: Bhattacharyya, Roby P, Walker, Mark, Boykin, Rich, Son, Sophie S, Liu, Jamin, Hachey, Austin C, Ma, Peijun, Wu, Lidan, Choi, Kyungyong, Cummins, Kaelyn C, Benson, Maura, Skerry, Jennifer, Ryu, Hyunryul, Wong, Sharon Y, Goldberg, Marcia B, Han, Jongyoon, Pierce, Virginia M, Cosimi, Lisa A, Shoresh, Noam, Livny, Jonathan, Beechem, Joseph, Hung, Deborah T
Format: Article
Language:English
Subjects:
Bacteria
Bacteria - classification
Bacteria - genetics
Bacteria - isolation & purification
Bacteria - pathogenicity
Hybridization
Infectious diseases
Mycobacterium - classification
Mycobacterium - genetics
Mycobacterium - isolation & purification
Mycobacterium - pathogenicity
Nucleic Acid Hybridization - methods
Pathogens
Phylogenetics
Phylogeny
RNA, Ribosomal, 16S - genetics
rRNA
Sputum
Staphylococcus aureus - classification
Staphylococcus aureus - genetics
Staphylococcus aureus - isolation & purification
Staphylococcus aureus - pathogenicity
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Summary:Rapid bacterial identification remains a critical challenge in infectious disease diagnostics. We developed a novel molecular approach to detect and identify a wide diversity of bacterial pathogens in a single, simple assay, exploiting the conservation, abundance, and rich phylogenetic content of ribosomal RNA in a rapid fluorescent hybridization assay that requires no amplification or enzymology. Of 117 isolates from 64 species across 4 phyla, this assay identified bacteria with >89% accuracy at the species level and 100% accuracy at the family level, enabling all critical clinical distinctions. In pilot studies on primary clinical specimens, including sputum, blood cultures, and pus, bacteria from 5 different phyla were identified.
ISSN:2045-2322
2045-2322
DOI:10.1038/s41598-019-40792-3