ArticleScientific reports2017
Targeted next-generation sequencing of the 16S-23S rRNA region for culture-independent bacterial identification - increased discrimination of closely related species.
Article in Scientific reports, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 72 papers, 2 of them syntheses that pooled it.
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Who cites it
72 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Exploring the clinical and diagnostic value of metagenomic next-generation sequencing for urinary tract infection: a systematic review and meta-analysis.BMC infectious diseases · 2024Pooled it
- Recent advances in surface enhanced Raman spectroscopy for bacterial pathogen identifications.Journal of advanced research · 2023Pooled it
- A total infectome framework for resolving complex disease etiology in aquaculture.Advanced biotechnology · 2026Article
- Distinct commensal bacteria in human nasopharyngeal lymphoid tissue associated with localized immunological memory.iScience · 2026Article
- Article
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- Comparison of the microbiome of sputum from HIV/AIDS patients using PacBio 16S rRNA sequencing and ddPCR.BMC infectious diseases · 2025Article
- Evaluation of biofilm formation, antimicrobial pattern, and typing of Stenotrophomonas maltophilia isolated from clinical sources in Brazil.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2025Article
- Bacterial Isolates Associated with Mortality Events in Brown Trout (Animals : an open access journal from MDPI · 2025Article
- Current Methods for Reliable Identification of Species in theMicroorganisms · 2025Review
- Development of a Rapid, Culture-Free, Universal Microbial Identification System Using Internal Transcribed Spacer Targeting Primers.The Journal of infectious diseases · 2025Article
- GenomicGapID: leveraging spatial distribution of conserved genomic sites for broad-spectrum microbial identification.Microbiology spectrum · 2025Article
- An integrated AI knowledge graph framework of bacterial enzymology and metabolism.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Evaluating the efficiency of 16S-ITS-23S operon sequencing for species level resolution in microbial communities.Scientific reports · 2025Article
- Examining the bacterial diversity including extracellular vesicles in air and soil: implications for human health.PloS one · 2025Article
- Guidelines for Antibiotics Prescription in Critically Ill Patients.Indian journal of critical care medicine : peer-reviewed, official publication of Indian Society of Critical Care Medicine · 2024Article
- Challenges in water kefir production and limitations in human consumption: A comprehensive review of current knowledge.Heliyon · 2024Review
- Harnessing the intragenomic variability of rRNA operons to improve differentiation of Vibrio species.Scientific reports · 2024Article
- Synthesis, Optimization, and Characterization of Cellulase Enzyme Obtained from ThermotolerantJournal of microbiology and biotechnology · 2024Article
- The complete genome sequence of unculturableFrontiers in cellular and infection microbiology · 2024Article
12 more citing papers are in PubMed but not listed here.
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Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The aim of this study was to develop an easy-to-use culture-free diagnostic method based on next generation sequencing (NGS) of PCR amplification products encompassing whole 16S-23S rRNA region to improve the resolution of bacterial species identification. To determine the resolution of the new method 67 isolates were subjected to four identification methods: Sanger sequencing of the 16S rRNA gene; NGS of the 16S-23S rRNA region using MiSeq (Illumina) sequencer; Microflex MS (Bruker) and VITEK MS (bioMérieux). To evaluate the performance of this new method when applied directly on clinical samples, we conducted a proof of principle study with 60 urine samples from patients suspected of urinary tract infections (UTIs), 23 BacT/ALERT (bioMérieux) positive blood culture bottles and 21 clinical orthopedic samples. The resolution power of NGS of the 16S-23S rRNA region was superior to other tested identification methods. Furthermore, the new method correctly identified pathogens established as the cause of UTIs and blood stream infections with conventional culture. NGS of the 16S-23S rRNA region also showed increased detection of bacterial microorganisms in clinical samples from orthopedic patients. Therefore, we conclude that our method has the potential to increase diagnostic yield for detection of bacterial pathogenic species compared to current methods.
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