ArticleScientific reports2023
Factors influencing oral microbiome analysis: from saliva sampling methods to next-generation sequencing platforms.
Article in Scientific reports, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed.
- Site-specific oral microbiome profiles in healthy young Korean women.Scientific reports · 2026Article
- Human salivary microbiome as a potential non-invasive biomarker for early-onset colorectal cancer screening: a prospective study.BMC microbiology · 2026Article
- Metagenomics in the Interplay Among Oral and Gut Dysbiosis.Metabolites · 2026Review
- Heavy Metal-Driven Oral Dysbiosis: Salivary Toxicometallomics at the Host-Microbiome Interface Across Pathologies.Life (Basel, Switzerland) · 2026Review
- Current Perspectives on the Inflammatory Bowel Disease Pathogenesis of Microbiota and the Gut-Brain Axis, and Emerging Therapeutics.Biomedicines · 2026Review
- From mouth to muscle: mechanistic and interventional perspectives on the tongue-coating microbiome in sarcopenia.Journal of translational medicine · 2026Review
- Comparison of oral collection methods for 16S rRNA gene and shotgun metagenomic sequencing.Microbiology spectrum · 2026Article
- An Overview of How HNCs Radiotherapy Affects Oral Microbiota: Shifts, Complications, and Management Strategies.Journal of lasers in medical sciences · 2026Review
- Effect of sialidase inhibitors on a plaque community biofilm model.Access microbiology · 2026Article
- Distinct gut and oral microbiome patterns associated with dyslexia in a family-based cohort: A preliminary exploratory study.PloS one · 2026Article
- The oral-amplifier hypothesis: linking oral inflammation to intestinal microbial activity in autism spectrum disorder.Frontiers in microbiology · 2026Article
- The gut microbiota-immune-brain axis in post-traumatic stress disorder: mechanistic integration and translational prospects.Frontiers in immunology · 2026Review
- Oral Microbiome in Oral Cancer Research from Sampling to Analysis: Strategies, Challenges, and Recommendations.Cancers · 2025Review
- Assessing the Oral Microbiome in Women of Reproductive Age: A Narrative Review.Clinics and practice · 2025Review
- Microbiome Shifts in Peri-Implantitis: Longitudinal Characterization of Dysbiosis and Resolution.International dental journal · 2025Article
- Periodontal Microbial Profiles Across Periodontal Conditions in Pediatric Subjects: A Narrative Review.Microorganisms · 2025Review
- Intestinal Microbiota and Fecal Transplantation in Patients with Inflammatory Bowel Disease andJournal of clinical medicine · 2025Review
- Oral Microbiota Dysbiosis in Firefighters and the Potential Contributing Environmental and Lifestyle Factors Based on a Case-Control Study.Microorganisms · 2025Article
- Saliva assay: a call for methodological standardization.Journal of periodontal & implant science · 2025Review
- The role of oral microbiota in digestive system diseases: current advances and perspectives.Journal of oral microbiology · 2025Review
Corrections and comments
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Authors and funding
9 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The exploration of oral microbiome has been increasing due to its relatedness with various systemic diseases, but standardization of saliva sampling for microbiome analysis has not been established, contributing to the lack of data comparability. Here, we evaluated the factors that influence the microbiome data. Saliva samples were collected by the two collection methods (passive drooling and mouthwash) using three saliva-preservation methods (OMNIgene, DNA/RNA shield, and simple collection). A total of 18 samples were sequenced by both Illumina short-read and Nanopore long-read next-generation sequencing (NGS). The component of the oral microbiome in each sample was compared with alpha and beta diversity and the taxonomic abundances, to find out the effects of factors on oral microbiome data. The alpha diversity indices of the mouthwash sample were significantly higher than that of the drooling group with both short-read and long-read NGS, while no significant differences in microbial diversities were found between the three saliva-preservation methods. Our study shows mouthwash and simple collection are not inferior to other sample collection and saliva-preservation methods, respectively. This result is promising since the convenience and cost-effectiveness of mouthwash and simple collection can simplify the saliva sample preparation, which would greatly help clinical operators and lab workers.
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