ArticleFrontiers in microbiology2020
Microbiomic Analysis on Low Abundant Respiratory Biomass Samples; Improved Recovery of Microbial DNA From Bronchoalveolar Lavage Fluid.
Article in Frontiers in microbiology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed.
- Trial
- Article
- Insights into the relationship between nasal bacterial composition and susceptibility to early-life respiratory disease: a pilot observational study.medRxiv : the preprint server for health sciences · 2025Article
- Cannabidiol Is Associated with Improved Survival in Pancreatic Cancer and Modulation of Bile Acids and Gut Microbiota.International journal of molecular sciences · 2025Article
- Shotgun Metagenomic Sequencing Analysis as a Diagnostic Strategy for Patients with Lower Respiratory Tract Infections.Microorganisms · 2025Article
- Virome assembly reveals draft genomes of native Pseudomonas phages isolated from a paediatric bronchoalveolar lavage sample.Microbiology resource announcements · 2025Article
- Effects of combined exposure to heavy metals on lower respiratory flora and its role of lung injury in rats.Frontiers in microbiology · 2025Article
- Bile acids in the lower airways is associated with airway microbiota changes in chronic obstructive pulmonary disease: an observational study.BMJ open respiratory research · 2024Observational
- A near-complete genome of the unculturedMicrobiology resource announcements · 2024Article
- Impact of cell lysis treatment before saliva metagenomic DNA extraction on the oral microbiome and the associated resistome.Clinical and experimental dental research · 2024Article
- An Analysis of the Gut Microbiota and Related Metabolites following PCSK9 Inhibition in Statin-Treated Patients with Elevated Levels of Lipoprotein(a).Microorganisms · 2024Article
- Airway epithelium respiratory illnesses and allergy (AERIAL) birth cohort: study protocol.Frontiers in allergy · 2024Article
- Gut Microbiome and Associated Metabolites Following Bariatric Surgery and Comparison to Healthy Controls.Microorganisms · 2023Article
- Is there a placental microbiota? A critical review and re-analysis of published placental microbiota datasets.BMC microbiology · 2023Review
- DNA extraction protocol impacts ocular surface microbiome profile.Frontiers in microbiology · 2023Article
- Comparison of four DNA extraction kits efficiency for 16SrDNA microbiota profiling of diverse human samples.Future science OA · 2023Article
- Microbiome as an immune regulator in health, disease, and therapeutics.Advanced drug delivery reviews · 2022Review
- Antimicrobial resistance-Do we share more than companionship with our dogs?Journal of applied microbiology · 2022Article
- ddPCR allows 16S rRNA gene amplicon sequencing of very small DNA amounts from low-biomass samples.BMC microbiology · 2021Article
- Systems Biology and Bile Acid Signalling in Microbiome-Host Interactions in the Cystic Fibrosis Lung.Antibiotics (Basel, Switzerland) · 2021Review
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In recent years the study of the commensal microbiota is driving a remarkable paradigm shift in our understanding of human physiology. However, intrinsic technical difficulties associated with investigating the Microbiomics of some body niches are hampering the development of new knowledge. This is particularly the case when investigating the functional role played by the human microbiota in modulating the physiology of key organ systems. A major hurdle in investigating specific Microbiome communities is linked to low bacterial density and susceptibility to bias caused by environmental contamination. To prevent such inaccuracies due to background processing noise, harmonized tools for Microbiomic and bioinformatics practices have been recommended globally. The fact that the impact of this undesirable variability is negatively correlated with the DNA concentration in the sample highlights the necessity to improve existing DNA isolation protocols. In this report, we developed and tested a protocol to more efficiently recover bacterial DNA from low volumes of bronchoalveolar lavage fluid obtained from infants and adults. We have compared the efficiency of the described method with that of a commercially available kit for microbiome analysis in body fluids. We show that this new methodological approach performs better in terms of extraction efficiency. As opposed to commercial kits, the DNA extracts obtained with this new protocol were clearly distinguishable from the negative extraction controls in terms of 16S copy number and Microbiome community profiles. Altogether, we described a cost-efficient protocol that can facilitate microbiome research in low-biomass human niches.
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