ArticleMicrobiome2018
Hybridization capture reveals microbial diversity missed using current profiling methods.
Article in Microbiome, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- Intratumoral microbiome: the double-edged sword in remodeling cancer immunotherapy.Molecular cancer · 2026Review
- Hybridization capture sequencing formBio · 2025Article
- Probe Capture Enrichment Sequencing of amoA Genes Improves the Detection of Diverse Ammonia-Oxidising Archaeal and Bacterial Populations.Molecular ecology resources · 2025Article
- Enriching the future of public health microbiology with hybridization bait capture.Clinical microbiology reviews · 2024Review
- Improved Equine Fecal Microbiome Characterization Using Target Enrichment by Hybridization Capture.Animals : an open access journal from MDPI · 2024Article
- Evaluation of multiple displacement amplification for metagenomic analysis of low biomass samples.ISME communications · 2024Article
- The endohyphal microbiome: current progress and challenges for scaling down integrative multi-omic microbiome research.Microbiome · 2023Article
- 'Multi-omics' data integration: applications in probiotics studies.NPJ science of food · 2023Review
- TheInternational journal of molecular sciences · 2022Article
- RiboTaxa: combined approaches for rRNA genes taxonomic resolution down to the species level from metagenomics data revealing novelties.NAR genomics and bioinformatics · 2022Article
- Multilocus sequence typing of diverse phytoplasmas using hybridization probe-based sequence capture provides high resolution strain differentiation.Frontiers in microbiology · 2022Article
- Revealing microbial species diversity using sequence capture by hybridization.Microbial genomics · 2021Article
- CaptureSeq: Hybridization-Based Enrichment ofMicroorganisms · 2021Article
- DNA Metabarcoding for the Characterization of Terrestrial Microbiota-Pitfalls and Solutions.Microorganisms · 2021Review
- Improved Microbial Community Characterization of 16S rRNA via Metagenome Hybridization Capture Enrichment.Frontiers in microbiology · 2021Article
- A Guide to Carrying Out a Phylogenomic Target Sequence Capture Project.Frontiers in genetics · 2019Review
- Comparing 16S rDNA amplicon sequencing and hybridization capture for pea aphid microbiota diversity analysis.BMC research notes · 2018Article
- Insights Into the Bovine Milk Microbiota in Dairy Farms With Different Incidence Rates of Subclinical Mastitis.Frontiers in microbiology · 2018Article
Corrections and comments
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundMicroorganisms comprise the majority of living organisms on our planet. For many years, exploration of the composition of microbial communities has been performed through the PCR-based study of the small subunit rRNA gene due to its high conservation across the domains of life. The application of this method has resulted in the discovery of many unexpected evolutionary lineages. However, amplicon sequencing is subject to numerous biases, with some taxa being missed, and is limited by the read length of second-generation sequencing platforms, which drastically reduces the phylogenetic resolution.
resultsHere, we describe a hybridization capture strategy that allows the enrichment of 16S rRNA genes from metagenomic samples and enables an exhaustive identification and a complete reconstruction of the biomarker. Applying this approach to a microbial mock community and a soil sample, we demonstrated that hybridization capture is able to reveal greater microbial diversity than 16S rDNA amplicon sequencing and shotgun sequencing. The reconstruction of full-length 16S rRNA genes facilitated the improvement of phylogenetic resolution and the discovery of novel prokaryotic taxa.
conclusionsOur results demonstrate that hybridization capture can lead to major breakthroughs in our understanding of microbial diversity, overcoming the limitations of conventional 16S rRNA gene studies. If applied to a broad range of environmental samples, this innovative approach could reveal the undescribed diversity of the still underexplored microbial communities and could provide a better understanding of ecosystem function.
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