ArticleJournal of microbiological methods2007
A detailed analysis of 16S ribosomal RNA gene segments for the diagnosis of pathogenic bacteria.
Article in Journal of microbiological methods, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 470 papers, 4 of them syntheses that pooled it.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
470 citing papers in PubMed, 4 syntheses or guidelines pooled it, 1,151 citations in OpenAlex.
- Unlocking the hidden potential of the genus Salvia through a systematic review of endophytic bacterial and fungal diversity and biotechnological prospects.Archives of microbiology · 2026Pooled it
- Exploring Oral Microbiome in Healthy Infants and Children: A Systematic Review.International journal of environmental research and public health · 2022Pooled it
- A systematic review and critical appraisal of metagenomic and culture studies in hidradenitis suppurativa.Experimental dermatology · 2021Pooled it
- Microbiome in Eosinophilic Esophagitis-Metagenomic, Metatranscriptomic, and Metabolomic Changes: A Systematic Review.Frontiers in physiology · 2021Pooled it
- A scalable and cost-effective nanopore workflow for 16S rRNA microbiome profiling validated in a zebrafish gut model.Microbial genomics · 2026Article
- Characterization of Fecal Microbiota and Serum Metabolome Variations Across Different Gestational Stages in Hu Sheep.Animals : an open access journal from MDPI · 2026Article
- Article
- Discordance Between 16S rRNA Similarity and Genome-Based Species Boundaries in Gluconobacter.MicrobiologyOpen · 2026Article
- Exploring the oral microbiome: from traditional techniques to advanced omics and databases.Antonie van Leeuwenhoek · 2026Review
- Test Strips Based on Gated Nanoporous Anodic Alumina for the Rapid and Accurate Detection ofAnalytical chemistry · 2026Article
- Computational Design of a Multi Epitope Vaccine Against Staphylococcus warneri for Combatting Recurrent UTIs and Skin Infections.Molecular biotechnology · 2026Article
- Laboratory strategies for the identification of Burkholderia species: From classical phenotyping to advanced genomic and proteomic approaches.Antonie van Leeuwenhoek · 2026Review
- Faecal microbiome profiling uncovers putative biomarkers for piglets resilient to post-weaning diarrhoea.Animal microbiome · 2026Article
- Optimizing primer selection for microbial diversity studies in freshwater lakes: a comprehensive evaluation of 16S rRNA, 18S rRNA, and ITS gene regions.FEMS microbiology ecology · 2026Article
- Metagenomics as an Effective Diagnostic Approach for Exploring Oral Microbial Diversity and Dental Diseases: A Narrative Review.International journal of clinical pediatric dentistry · 2026Review
- Information storage across a microbial community using universal RNA barcoding.Nature biotechnology · 2026Article
- Isothermal assay targeting the V1-V2 region of the 16S rRNA gene for rapid screening ofInternational dairy journal · 2026Article
- Microbial dysbiosis and inferred functional profiling reveals the potential role ofFrontiers in cellular and infection microbiology · 2026Article
- Article
- Oral microbiome dysbiosis in autism spectrum disorder: the oral-gut-brain axis and future perspectives: a narrative review.Frontiers in microbiology · 2026Review
410 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 2 institutions in 1 country.
Funding
Abstract
Bacterial 16S ribosomal RNA (rRNA) genes contain nine "hypervariable regions" (V1-V9) that demonstrate considerable sequence diversity among different bacteria. Species-specific sequences within a given hypervariable region constitute useful targets for diagnostic assays and other scientific investigations. No single region can differentiate among all bacteria; therefore, systematic studies that compare the relative advantage of each region for specific diagnostic goals are needed. We characterized V1-V8 in 110 different bacterial species including common blood borne pathogens, CDC-defined select agents and environmental microflora. Sequence similarity dendrograms were created for hypervariable regions V1-V8, and for selected combinations of regions or short segments within individual hypervariable regions that might be appropriate for DNA probing and real-time PCR. We determined that V1 best differentiated among Staphylococcus aureus and coagulase negative Staphylococcus sp. V2 and V3 were most suitable for distinguishing all bacterial species to the genus level except for closely related enterobacteriaceae. V2 best distinguished among Mycobacterium species and V3 among Haemophilus species. The 58 nucleotides-long V6 could distinguish among most bacterial species except enterobacteriaceae. V6 was also noteworthy for being able to differentiate among all CDC-defined select agents including Bacillus anthracis, which differed from B. cereus by a single polymorphism. V4, V5, V7 and V8 were less useful targets for genus or species-specific probes. The hypervariable sequence-specific dendrograms and the "MEGALIGN" files provided online will be highly useful tools for designing specific probes and primers for molecular assays to detect pathogenic bacteria, including select agents.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.