ArticlePloS one2015
The Characterization of Novel Tissue Microbiota Using an Optimized 16S Metagenomic Sequencing Pipeline.
Article in PloS one, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 96 papers.
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Who cites it
96 citing papers in PubMed.
- Higher bacterial DNAemia can affect the impact of a polyphenol-rich dietary pattern on biomarkers of intestinal permeability and cardiovascular risk in older subjects.European journal of nutrition · 2022Trial
- Colonic Microbiota Profile Characterization of the Responsiveness to Dietary Fibre Treatment in Hypercholesterolemia.Nutrients · 2022Trial
- Short term overfeeding disrupts small intestinal barrier integrity and activates hepatic immunity in healthy men.iScience · 2026Article
- Early growth restriction disrupts mice intestinal clock and homeostasis without being prevented by lactoferrin.Pediatric research · 2026Article
- Microbial product translocation and mortality in adults hospitalised with HIV-associated tuberculosis: a prospective observational cohort study.Research square · 2026Article
- Periodontitis in Patients With Severe Obesity: From the Oral and Gut Microbiota Dysregulation to the Visceral Adipose Tissue Inflammatory and Metabolic Disorders.FASEB journal : official publication of the Federation of American Societies for Experimental Biology · 2026Article
- Identifying the location-dependent adipose tissue bacterial DNA signatures in obese patients that predict body weight loss.Gut microbes · 2025Article
- A simplified, one step technique for disinfection of non-hardened rainbow trout eggs with tosylchloramide (Chloramine T) and peroxide (Wofasteril) compounds and the effects on bacterial load and microbiome composition in comparison to iodophore disinfection.Journal, genetic engineering & biotechnology · 2025Article
- Article
- Visualizing metagenomic and metatranscriptomic data: A comprehensive review.Computational and structural biotechnology journal · 2024Review
- Effect of SinetrolNutrition & metabolism · 2024Article
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- A rapid phylogeny-based method for accurate community profiling of large-scale metabarcoding datasets.eLife · 2024Article
- Diet at birth is critical for healthy growth, independent of effects on the gut microbiota.Microbiome · 2024Article
- Blood Microbiota and Its Products: Mechanisms of Interference with Host Cells and Clinical Outcomes.Hematology reports · 2024Review
- Tissue-resident bacteria in metabolic diseases: emerging evidence and challenges.Nature metabolism · 2024Review
- The Cellular Microbiome of Visceral Organs: An Inherent Inhabitant of Parenchymal Cells.Microorganisms · 2024Article
- Relationship between feed efficiency and gut microbiota in laying chickens under contrasting feeding conditions.Scientific reports · 2024Article
- Bacterial community profiling and identification of bacteria with lignin-degrading potential in different gut segments of African palm weevil larvae (Frontiers in microbiology · 2024Article
- Machine learning models reveal microbial signatures in healthy human tissues, challenging the sterility of human organs.Frontiers in microbiology · 2024Article
36 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
13 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundSubstantial progress in high-throughput metagenomic sequencing methodologies has enabled the characterisation of bacteria from various origins (for example gut and skin). However, the recently-discovered bacterial microbiota present within animal internal tissues has remained unexplored due to technical difficulties associated with these challenging samples.
resultsWe have optimized a specific 16S rDNA-targeted metagenomics sequencing (16S metabarcoding) pipeline based on the Illumina MiSeq technology for the analysis of bacterial DNA in human and animal tissues. This was successfully achieved in various mouse tissues despite the high abundance of eukaryotic DNA and PCR inhibitors in these samples. We extensively tested this pipeline on mock communities, negative controls, positive controls and tissues and demonstrated the presence of novel tissue specific bacterial DNA profiles in a variety of organs (including brain, muscle, adipose tissue, liver and heart).
conclusionThe high throughput and excellent reproducibility of the method ensured exhaustive and precise coverage of the 16S rDNA bacterial variants present in mouse tissues. This optimized 16S metagenomic sequencing pipeline will allow the scientific community to catalogue the bacterial DNA profiles of different tissues and will provide a database to analyse host/bacterial interactions in relation to homeostasis and disease.
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