ArticleScientific reports2019
Evaluation of Oral Cavity DNA Extraction Methods on Bacterial and Fungal Microbiota.
Article in Scientific reports, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. It is linked to trial NCT05301231 (Omics-based Predictors of NAFLD/Potential NASH), which is not on this map. Cited by 38 papers.
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.
Omics-based Predictors of NAFLD/Potential NASH: A New Era Towards Valid and Reliable Non-invasive Diagnosis and Personalized Therapy
Who cites it
38 citing papers in PubMed, 51 citations in OpenAlex.
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- The Salivary Microbiota-Host Nexus: Unraveling Opportunities for Non-Invasive Monitoring of Health and Productivity in Farm Animals.Animals : an open access journal from MDPI · 2026Review
- The impact of DNA extraction methods on species quantification and apparent community composition of in vitro oral biofilms.FEMS microbiology letters · 2026Article
- Comparing saliva collection and DNA extraction methods for saliva-based microbiome profiling.Frontiers in microbiology · 2026Article
- A dual-loop chemostat to investigate multi-species biofilms on implant surfaces under adjustable flow conditions.Frontiers in microbiology · 2026Article
- Mucosal washes are useful for sampling intestinal mucus-associated microbiota despite low biomass.Gut microbes · 2025Article
- Wet Lab Protocols Matter: Choice of DNA Extraction and Library Preparation Protocols Bias Ancient Oral Microbiome Recovery.Molecular ecology resources · 2025Article
- Article
- The Microbial Diversity and Biofilm Characteristics of d-PTFE Membranes Used for Socket Preservation: A Randomized Controlled Clinical Trial.Journal of functional biomaterials · 2025Article
- Oral microbiome dysbiosis in acute ischemic stroke and transient ischemic attack patients.PloS one · 2025Article
- Comparative pilot study of three commercial kits for bacterial DNA extraction from human subgingival biofilm samples collected with a single paper point.Journal of oral microbiology · 2025Article
- A comprehensive guide to assess gut mycobiome and its role in pathogenesis and treatment of inflammatory bowel disease.Indian journal of gastroenterology : official journal of the Indian Society of Gastroenterology · 2024Review
- Multiomics Analysis Reveals Significant Disparities in the Oral Microbiota and Metabolites Between Pregnant Women with and without Periodontitis.Infection and drug resistance · 2024Article
- Oral swabs as a proxy for direct ruminal microbiome sampling in Holstein dairy cows is correlated with sample color.Frontiers in microbiology · 2024Article
- Simultaneous Detection ofInfection and drug resistance · 2024Article
- Rapid and visual detection of specific bacteria for saliva and vaginal fluid identification with the lateral flow dipstick strategy.International journal of legal medicine · 2023Article
- TRiCit: A High-Throughput Approach to DetectInternational journal of molecular sciences · 2023Article
- Contribution of the Oral and Gastrointestinal Microbiomes to Bloodstream Infections in Leukemia Patients.Microbiology spectrum · 2023Article
- Review
Corrections and comments
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Authors and funding
9 authors at 2 institutions in 3 countries.
Funding
Abstract
The objective of this study was to evaluate the most effective method of DNA extraction of oral mouthwash samples for use in microbiome studies that utilize next generation sequencing (NGS). Eight enzymatic and mechanical DNA extraction methods were tested. Extracted DNA was amplified using barcoded primers targeting the V6 variable region of the bacterial 16S rRNA gene and the ITS1 region of the fungal ribosomal gene cluster and sequenced using the Illumina NGS platform. Sequenced reads were analyzed using QIIME and R. The eight methods yielded significantly different quantities of DNA (p < 0.001), with the phenol-chloroform extraction method producing the highest total yield. There were no significant differences in observed bacterial or fungal Shannon diversity (p = 0.64, p = 0.93 respectively) by extraction method. Bray-Curtis beta-diversity did not demonstrate statistically significant differences between the eight extraction methods based on bacterial (R
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What OpenQuestion holds
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.