ArticleBioinformatics advances2021
RibDif: can individual species be differentiated by 16S sequencing?
Article in Bioinformatics advances, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 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.
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Who cites it
18 citing papers in PubMed.
- MeioBIOME: A snakemake workflow for the parallel analysis of meiofaunal genomes and host-associated bacteria/archaea.bioRxiv : the preprint server for biology · 2026Article
- Targeted isolation of bacteria with potential to competitively exclude Staphylococcus aureus in the upper respiratory tract of pigs.BMC microbiology · 2026Article
- Wastewater-based epidemiology for public health - benefits and trade-offs of different molecular methods for the generation of actionable data in a small-town context.Frontiers in public health · 2026Article
- Detection ofFood chemistry. Molecular sciences · 2025Article
- Nanopore-based amplicon sequencing for rapid detection and identification ofFrontiers in microbiology · 2025Article
- Enhanced specificity of Bacillus metataxonomics using a tuf-targeted amplicon sequencing approach.ISME communications · 2023Article
- Selective enrichment of founding reproductive microbiomes allows extensive vertical transmission in a fungus-farming termite.Proceedings. Biological sciences · 2023Article
- The airway microbiota of neonates colonized with asthma-associated pathogenic bacteria.Nature communications · 2023Article
- The effects of antibiotic use on the dynamics of the microbiome and resistome in pigs.Animal microbiome · 2023Article
- The potential to produce tropodithietic acid by Phaeobacter inhibens affects the assembly of microbial biofilm communities in natural seawater.NPJ biofilms and microbiomes · 2023Article
- Article
- RibDif2: expanding amplicon analysis to full genomes.Bioinformatics advances · 2023Article
- Gut microbiome profiling of neonates using Nanopore MinION and Illumina MiSeq sequencing.Frontiers in microbiology · 2023Article
- The ability of Phaeobacter inhibens to produce tropodithietic acid influences the community dynamics of a microalgal microbiome.ISME communications · 2022Article
- Fecal microbiota dynamics and its relationship to diarrhea and health in dairy calves.Journal of animal science and biotechnology · 2022Article
- Article
- Microbiome analysis of raw honey reveals important factors influencing the bacterial and fungal communities.Frontiers in microbiology · 2022Article
- Comparative Analysis of Metagenomics and Metataxonomics for the Characterization of Vermicompost Microbiomes.Frontiers in microbiology · 2022Article
Corrections and comments
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Authors and funding
1 author.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Motivation: Metataxonomic analysis is now routinely used to profile the microbiome of virtually every ecological niche on planet Earth. The use of amplicon sequence variants (ASVs), proposing to be the exact biological 16S rRNA amplicon sequences of a given biological system, is now considered the gold standard. However, the 16S rRNA genes, and in particular the amplicons derived from it, are not unique for most species nor are they necessarily unique within individual genomes. Despite these restrictions, individual ASVs are often used to make inferences on the state of a given ecosystem, which may cause erroneous conclusions on the effects of a given species on a specific host phenotype or ecosystem. Availability and implementation: RibDif is freely available along with source code and detailed documentation at https://github.com/mikaells/RibDif.
Identifiers
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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.