ArticlePloS one2012
The chaperonin-60 universal target is a barcode for bacteria that enables de novo assembly of metagenomic sequence data.
Article in PloS one, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 63 papers.
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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.
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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
63 citing papers in PubMed, 159 citations in OpenAlex.
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- PMA-qPCR to quantify viable cells in multispecies oral biofilm after disinfectant treatments.Biofilm · 2025Article
- Environmental Heterogeneity Drives Ecological Differentiation in Vibrio Populations Across Subtropical Marine Habitats.Environmental microbiology · 2025Article
- Identification of genetic markers of resistance to macrolide class antibiotics inApplied and environmental microbiology · 2024Article
- Gut microbiota in cats with inflammatory bowel disease and low-grade intestinal T-cell lymphoma.Frontiers in microbiology · 2024Review
- GroEL-Proteotyping of Bacterial Communities Using Tandem Mass Spectrometry.International journal of molecular sciences · 2023Article
- Rapid and accurate taxonomic classification of cpn60 amplicon sequence variants.ISME communications · 2023Article
- Evaluating cpn60 for high-resolution profiling of the mammalian skin microbiome and detection of phylosymbiosis.ISME communications · 2023Article
- Review
- Yeast Cell Wall Compounds on The Formation of Fermentation Products and Fecal Microbiota in Cats: An In Vivo and In Vitro Approach.Animals : an open access journal from MDPI · 2023Article
- Maternal vaginal microbiome composition does not affect development of the infant gut microbiome in early life.Frontiers in cellular and infection microbiology · 2023Article
- Potential Use of Microbial Community Genomes in Various Dimensions of Agriculture Productivity and Its Management: A Review.Frontiers in microbiology · 2022Review
- Pragmatic Applications and Universality of DNA Barcoding for Substantial Organisms at Species Level: A Review to Explore a Way Forward.BioMed research international · 2022Review
- Article
- Detection of blueberry stunt phytoplasma in Eastern Canada using cpn60-based molecular diagnostic assays.Scientific reports · 2021Article
- Early Neonatal Meconium Does Not Have a Demonstrable Microbiota Determined through Use of Robust Negative Controls withMicrobiology spectrum · 2021Article
- The Rhizobial Microbiome from the Tropical Savannah Zones in Northern Côte d'Ivoire.Microorganisms · 2021Article
- First report of Kingella kingae diagnosed in pediatric bone and joint infections in Morocco.BMC infectious diseases · 2021Article
- CaptureSeq: Hybridization-Based Enrichment ofMicroorganisms · 2021Article
- Biases in Viral Metagenomics-Based Detection, Cataloguing and Quantification of Bacteriophage Genomes in Human Faeces, a Review.Microorganisms · 2021Review
3 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors at 2 institutions in 1 country.
Funding
Abstract
Barcoding with molecular sequences is widely used to catalogue eukaryotic biodiversity. Studies investigating the community dynamics of microbes have relied heavily on gene-centric metagenomic profiling using two genes (16S rRNA and cpn60) to identify and track Bacteria. While there have been criteria formalized for barcoding of eukaryotes, these criteria have not been used to evaluate gene targets for other domains of life. Using the framework of the International Barcode of Life we evaluated DNA barcodes for Bacteria. Candidates from the 16S rRNA gene and the protein coding cpn60 gene were evaluated. Within complete bacterial genomes in the public domain representing 983 species from 21 phyla, the largest difference between median pairwise inter- and intra-specific distances ("barcode gap") was found from cpn60. Distribution of sequence diversity along the ∼555 bp cpn60 target region was remarkably uniform. The barcode gap of the cpn60 universal target facilitated the faithful de novo assembly of full-length operational taxonomic units from pyrosequencing data from a synthetic microbial community. Analysis supported the recognition of both 16S rRNA and cpn60 as DNA barcodes for Bacteria. The cpn60 universal target was found to have a much larger barcode gap than 16S rRNA suggesting cpn60 as a preferred barcode for Bacteria. A large barcode gap for cpn60 provided a robust target for species-level characterization of data. The assembly of consensus sequences for barcodes was shown to be a reliable method for the identification and tracking of novel microbes in metagenomic studies.
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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.