ArticleFrontiers in microbiology2023
An independent evaluation in a CRC patient cohort of microbiome 16S rRNA sequence analysis methods: OTU clustering, DADA2, and Deblur.
Article in Frontiers in microbiology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed.
- MetaCAT enables reconstruction of high-quality microbial genomes and their association with host traits from metagenomic data.Nature microbiology · 2026Article
- Effects ofAnimals : an open access journal from MDPI · 2026Article
- Microbial Signatures in Head and Neck versus Gastrointestinal Tumors: Identification and Prognostic Modeling.Polish journal of microbiology · 2026Article
- Sampling Design and Sample Processing Affect Soil Biodiversity Assessments.Molecular ecology resources · 2026Article
- Review
- Berberine protects against hypoxia-induced intestinal injury through modulation of gut microbiota and bile acid metabolism.Frontiers in immunology · 2026Article
- Effects of elevated root-zone COFrontiers in plant science · 2026Article
- Exploring the gut microbiome in type 2 diabetes across different insulin resistance levels: a machine learning approach.Frontiers in nutrition · 2026Article
- Characterization of the gut virome in patients with nonalcoholic fatty liver disease.Journal of translational medicine · 2025Article
- Comparison of QIIME1 and QIIME2 for Analyzing Fungal Samples from Various Built Environments.Microorganisms · 2025Article
- Pruning the Tree: Comparing OTUs and ASVs in High-Throughput Sequencing of 5S-IGS Nuclear Ribosomal DNA in Phylogenetic Studies.Ecology and evolution · 2025Article
- clonevdjseq: A workflow and bioinformatics management system for sequencing, archiving, and analysis of VDJ sequences from clonal libraries.BMC bioinformatics · 2025Article
- Metagenomic insights into microbial diversity and potential pathogenic transmission in poultry farm environments of Bangladesh.BMC microbiology · 2025Article
- Standardizing a microbiome pipeline for body fluid identification from complex crime scene stains.Applied and environmental microbiology · 2025Article
- Long-read 16S rRNA amplicon sequencing reveals microbial characteristics in patients with colorectal adenomas and carcinoma lesions in Egypt.Gut pathogens · 2025Article
- Distinct microbes, metabolites, and the host genome define the multi-omics profiles in right-sided and left-sided colon cancer.Microbiome · 2024Article
- Alterations of Gut Microbiome in Patients with Colorectal Advanced Adenoma by Metagenomic Analyses.The Turkish journal of gastroenterology : the official journal of Turkish Society of Gastroenterology · 2024Article
- Improved diagnostic efficiency of CRC subgroups revealed using machine learning based on intestinal microbes.BMC gastroenterology · 2024Article
- Datasets of fungal diversity and pseudo-chromosomal genomes of mangrove rhizosphere soil in China.Scientific data · 2024Article
- Investigating the causal role of the gut microbiota in esophageal cancer and its subtypes: a two-sample Mendelian randomization study.BMC cancer · 2024Article
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
16S rRNA is the universal gene of microbes, and it is often used as a target gene to obtain profiles of microbial communities via next-generation sequencing (NGS) technology. Traditionally, sequences are clustered into operational taxonomic units (OTUs) at a 97% threshold based on the taxonomic standard using 16S rRNA, and methods for the reduction of sequencing errors are bypassed, which may lead to false classification units. Several denoising algorithms have been published to solve this problem, such as DADA2 and Deblur, which can correct sequencing errors at single-nucleotide resolution by generating amplicon sequence variants (ASVs). As high-resolution ASVs are becoming more popular than OTUs and only one analysis method is usually selected in a particular study, there is a need for a thorough comparison of OTU clustering and denoising pipelines. In this study, three of the most widely used 16S rRNA methods (two denoising algorithms, DADA2 and Deblur, along with
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