ArticleFrontiers in cellular and infection microbiology2022
Choice of 16S Ribosomal RNA Primers Impacts Male Urinary Microbiota Profiling.
Article in Frontiers in cellular and infection microbiology, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers, 1 of them a synthesis that pooled it.
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Who cites it
22 citing papers in PubMed, 1 synthesis or guideline pooled it, 29 citations in OpenAlex.
- The Study of Microbiome of the Female Genital Area in Relation to Pelvic Floor Dysfunction: A Systematic Review.International urogynecology journal · 2024Pooled it
- Urinary microbiota diversity and composition in patients with advanced renal cell cancer.BJUI compass · 2026Article
- Integrated analysis of gut microbiota structure and metabolic function in patients with cirrhosis and refractory ascites.Biomedical reports · 2026Article
- Methodological bias shapes the interpretation of the urinary microbiome in low-biomass systems.Frontiers in microbiology · 2026Review
- Research advances on the urinary microbiome in non-infectious urinary tract diseases: from community composition to clinical prospects.Frontiers in cellular and infection microbiology · 2026Review
- Rapid and accurate testing for urinary tract infection: new clothes for the emperor.Clinical microbiology reviews · 2025Review
- Polymicrobial urine cultures: reconciling contamination with the urobiome while recognizing the pathogens.Frontiers in cellular and infection microbiology · 2025Review
- Advances in human microbiome and prostate cancer research.Frontiers in immunology · 2025Review
- Unveiling the impact of 16S rRNA gene intergenomic variation on primer design and gut microbiome profiling.Frontiers in microbiology · 2025Article
- Comparison of 16S ribosomal RNA hypervariable regions in microbiome studies of anorexia nervosa.Frontiers in microbiology · 2025Article
- Revisiting Socransky's Complexes: A Review Suggesting Updated New Bacterial Clusters (GF-MoR Complexes) for Periodontal and Peri-Implant Diseases and Conditions.Microorganisms · 2024Review
- Effect of the 16S rRNA Gene Hypervariable Region on the Microbiome Taxonomic Profile and Diversity in the Endangered FishMicroorganisms · 2024Article
- Dysbiosis in Human Urinary Microbiota May Differentiate Patients with a Bladder Cancer.International journal of molecular sciences · 2024Article
- Current Trends and Challenges of Microbiome Research in Bladder Cancer.Current oncology reports · 2024Review
- Article
- Synthesis of current pediatric urinary microbiome research.Frontiers in pediatrics · 2024Review
- Gut microbiota of the critically endangered Saiga antelope across two wild populations in a year without mass mortality.Scientific reports · 2023Article
- 16S rRNA gene primer choice impacts off-target amplification in human gastrointestinal tract biopsies and microbiome profiling.Scientific reports · 2023Article
- Improved Assembly of Metagenome-Assembled Genomes and Viruses in Tibetan Saline Lake Sediment by HiFi Metagenomic Sequencing.Microbiology spectrum · 2023Article
- Cataloging variation in 16S rRNA gene sequences of female urobiome bacteria.Frontiers in urology · 2023Article
Corrections and comments
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Authors and funding
9 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Accessibility to next-generation sequencing (NGS) technologies has enabled the profiling of microbial communities living in distinct habitats. 16S ribosomal RNA (rRNA) gene sequencing is widely used for microbiota profiling with NGS technologies. Since most used NGS platforms generate short reads, sequencing the full-length 16S rRNA gene is impractical. Therefore, choosing which 16S rRNA hypervariable region to sequence is critical in microbiota profiling studies. All nine 16S rRNA hypervariable regions are taxonomically informative, but due to variability in profiling performance for specific clades, choosing the ideal 16S rRNA hypervariable region will depend on the bacterial composition of the habitat under study. Recently, NGS allowed the identification of microbes in the urinary tract, and urinary microbiota has become an active research area. However, there is no current study evaluating the performance of different 16S rRNA hypervariable regions for male urinary microbiota profiling. We collected urine samples from male volunteers and profiled their urinary microbiota by sequencing a panel of six amplicons encompassing all nine 16S rRNA hypervariable regions. Systematic comparisons of their performance indicate V1V2 hypervariable regions better assess the taxa commonly present in male urine samples, suggesting V1V2 amplicon sequencing is more suitable for male urinary microbiota profiling. We believe our results will be helpful to guide this crucial methodological choice in future male urinary microbiota studies.
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