ArticleScientific reports2019
Human faecal collection methods demonstrate a bias in microbiome composition by cell wall structure.
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 28 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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
28 citing papers in PubMed, 47 citations in OpenAlex.
- Microbiome Single Cell Atlases Generated with a Commercial Instrument.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- High-throughput DNA extraction strategy for fecal microbiome studies.Microbiology spectrum · 2024Article
- Current Trends and Challenges of Microbiome Research in Prostate Cancer.Current oncology reports · 2024Review
- Evaluation of fecal sample collection methods for feline gut microbiome profiling: fecal loop vs. litter box.Frontiers in microbiology · 2024Article
- Article
- Optimization of a DNA extraction protocol for improving bacterial and fungal classification based on Nanopore sequencing.Access microbiology · 2024Article
- Microbiome single cell atlases generated with a commercial instrument.Research square · 2023Article
- Validation of a batch cultivation protocol for fecal microbiota of Kenyan infants.BMC microbiology · 2023Article
- Can butyrate prevent colon cancer? The AusFAP study: A randomised, crossover clinical trial.Contemporary clinical trials communications · 2023Article
- Accelerating Gut Microbiome Research with Robust Sample Collection.Research & reviews. Journal of microbiology and biotechnology · 2023Article
- Long-term taxonomic and functional stability of the gut microbiome from human fecal samples.Scientific reports · 2023Article
- DNA extraction bias is more pronounced for microbial eukaryotes than for prokaryotes.MicrobiologyOpen · 2022Article
- Cryopreservation of stool samples altered the microbial viability quantitively and compositionally.Archives of microbiology · 2022Article
- Developing whole cell standards for the microbiome field.Microbiome · 2022Article
- The Prebiotic Effect of Australian Seaweeds on Commensal Bacteria and Short Chain Fatty Acid Production in a Simulated Gut Model.Nutrients · 2022Article
- Systematic Cross-biospecimen Evaluation of DNA Extraction Kits for Long- and Short-read Multi-metagenomic Sequencing Studies.Genomics, proteomics & bioinformatics · 2022Article
- Human Stool Preservation Impacts Taxonomic Profiles in 16S Metagenomics Studies.Frontiers in cellular and infection microbiology · 2022Article
- Review
- Recovering prokaryotic genomes from host-associated, short-read shotgun metagenomic sequencing data.Nature protocols · 2021Article
- Validation and standardization of DNA extraction and library construction methods for metagenomics-based human fecal microbiome measurements.Microbiome · 2021Article
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 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Clinical trial faecal collections present challenges through geographical spread and inexperienced participants. Collection techniques have been developed and tested to overcome these challenges, but previous studies investigating these techniques have demonstrated a highly variable capacity for sample preservation. Furthermore, these studies typically only examine either preservation of genetic content or metabolites, not both. This study investigated the Stool Nucleic Acid Collection and Preservation Tube (Norgen BioTek Corp) for the preservation of both microbial DNA and microbial organic acid metabolites in human faecal samples when compared to frozen samples. Twenty six healthy adult participants were instructed to collect a bowel movement, subsample into collection tubes and immediately transfer the remaining bulk to -20 °C storage. Resulting organic acid concentrations remained comparable across methods when the preservation tubes were used correctly. The 16S rRNA gene sequencing data revealed twenty significantly different bacterial genera between the two collection methods. Ten Gram-negative genera were more abundant in the collection tubes, and ten Gram-positive genera were more abundant in the fresh frozen samples. This study has illustrated that faecal collection methods bias the microbial community profile according to Gram status and this should be considered when designing studies that collect and store human faecal samples.
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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.