Updating the 97% identity threshold for 16S ribosomal RNA OTUs
By Robert C. Edgar. bioRxiv, 2017
622 citations recorded by the source corpus.
Subfields: Molecular Biology, Periodontics
View Paper: https://www.semanticscholar.org/paper/54f4a6e0e29a4e0c4c0d3108494d14ce6b92c333
How researchers see this paper
The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.
In Molecular Biology
- Johannes Z. Groenewald
- P. W. Crous
- Sandra Reitmeier
- H. Niculita‐Hirzel
- Isabel Abellan-Schneyder
- Enrique Lara
- A. Willis
- Daniel J. Park
In Periodontics
- Sandra Reitmeier
- H. Niculita‐Hirzel
- Isabel Abellan-Schneyder
- Enrique Lara
- Daniel J. Park
- Markus List
- Antoine Guisan
- Nicolas Guex
Citations in the corpus
- Consistent and correctable bias in metagenomic sequencing experiments (2019, background): “…level (Yarza et al., 2014), exact short-read ribosomal sequence variants and common shotgun profilers group variation at roughly the species level (Edgar, 2018; Hillmann et al., 2018), and metagenome assembly combines strains too similar to be separated by the assembler or by the subsequent…”
- Benchmarking Metagenomics Tools for Taxonomic Classification. (2019, methodology): “The most widely used single marker gene for bacterial metagenomics is the highly conserved 16S rRNA sequence (Edgar, 2018; Yarza et al., 2014), though other markers are needed to identify viruses, fungi and other microbes that do not have the 16S marker gene.”
- Primer, Pipelines, Parameters: Issues in 16S rRNA Gene Sequencing (2021, methodology): “USEARCH-UNOISE3 aims to reconstruct exact biological sequences from the samples into zOTUs.”
- Comparative analysis of diversity and environmental niches of soil bacterial, archaeal, fungal and protist communities reveal niche divergences along environmental gradients in the Alps (2021, methodology): “Amplicons were dereplicated to obtain zero-radius operational taxonomic units (zOTUs) at 100% identity (Edgar, 2018).”
- Large-scale generation and analysis of filamentous fungal DNA barcodes boosts coverage for kingdom fungi and reveals thresholds for fungal species and higher taxon delimitation (2018, background): “Furthermore, the optimal similarity range to make informed decisions about species delineation is still highly uncertain compared to bacterial species (Stackebrandt & Ebers 2006, Edgar 2018).”