ArticleScientific reports2019
Incomplete cell disruption of resistant microbes.
Article in Scientific reports, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
What it found
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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.
The trial behind it
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
22 citing papers in PubMed.
- Postbiotics and Paraprobiotics as Next-Generation Gut Microbiome Modulators in Sustainable Aquaculture Health.Antibiotics (Basel, Switzerland) · 2026Review
- Preparation method shapes the recovery and ecological interpretation of DNA and RNA soil viral communities.Nature communications · 2026Article
- Enhancing DNA recovery in low-biomass snow algae samples: a comparative study of extraction methods and their effect on community composition.Applied and environmental microbiology · 2026Article
- Genetically-Programmed Hypervesiculation of Lactiplantibacillus Plantarum Increases Production of Bacterial Extracellular Vesicles with Therapeutic Efficacy in a Preclinical Inflammatory Bowel Disease Model.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Multiplex on-chip detection ofFrontiers in bioengineering and biotechnology · 2026Article
- State-Specific Extraction of Environmental DNA: Spike-and-Recovery Controls to Validate and Optimise Extraction Protocols.Environmental microbiology · 2025Article
- Parity influences on the infant gut microbiome development: a longitudinal cohort study.Gut microbes · 2025Article
- Efficient dispersion of aggregated extracellular vesicles: a comparative study of water-bath sonication and regular pipetting.Scientific reports · 2025Article
- The microbiologist's guide to metaproteomics.iMeta · 2025Review
- Impact of Pre-Extraction Methods on Apple Blossom Microbiome Analysis.Microorganisms · 2025Article
- Tracking Different States of Spiked Environmental DNA Using Multiplex Digital PCR Assays.Environmental microbiology · 2025Article
- A Comparison of Three Automated Nucleic Acid Extraction Systems for Human Stool Samples.Microorganisms · 2024Article
- Review
- Towards Standards for Human Fecal Sample Preparation in Targeted and Untargeted LC-HRMS Studies.Metabolites · 2021Article
- Protein Extractions fromLife (Basel, Switzerland) · 2021Article
- Increasing Reproducibility in Oral Microbiome Research.Methods in molecular biology (Clifton, N.J.) · 2021Article
- An Innovative Protocol for Metaproteomic Analyses of Microbial Pathogens in Cystic Fibrosis Sputum.Frontiers in cellular and infection microbiology · 2021Article
- Site and Bioenergy Cropping System Similarly Affect Distinct Live and Total Soil Microbial Communities.Frontiers in microbiology · 2021Article
- Optimization of a Method for the Concentration of Genetic Material in Bacterial and Fungal Communities on Fresh Apple Peel Surfaces.Microorganisms · 2020Article
- Environmentally Relevant Concentration of Bisphenol S Shows Slight Effects on SIHUMIx.Microorganisms · 2020Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Biomolecules for OMIC analysis of microbial communities are commonly extracted by bead-beating or ultra-sonication, but both showed varying yields. In addition to that, different disruption pressures are necessary to lyse bacteria and fungi. However, the disruption efficiency and yields comparing bead-beating and ultra-sonication of different biological material have not yet been demonstrated. Here, we show that ultra-sonication in a bath transfers three times more energy than bead-beating over 10 min. TEM imaging revealed intact gram-positive bacterial and fungal cells whereas the gram-negative bacterial cells were destroyed beyond recognition after 10 min of ultra-sonication. DNA extraction using 10 min of bead-beating revealed higher yields for fungi but the extraction efficiency was at least three-fold lower considering its larger genome. By our critical viewpoint, we encourage the review of the commonly used extraction techniques as we provide evidence for a potential underrepresentation of resistant microbes, particularly fungi, in ecological 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.