ArticleBMC microbiology2021
Optimisation of sample storage and DNA extraction for human gut microbiota studies.
Article in BMC microbiology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 40 papers.
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Who cites it
40 citing papers in PubMed, 66 citations in OpenAlex.
- Nationwide cohort study reveals low bifidobacteria and distinct microbiota composition and function in Swedish newborns.Gut microbes · 2026Observational
- Benchmarking DNA extraction protocols across use cases for culture-independent Nanopore metagenomics.Microbial genomics · 2026Article
- Insights from adult gut microbiota using the Estonian cohort as a uniform model.Scientific reports · 2026Article
- Fecal virome transplantation alleviates weaning stress-induced behavioral alterations and intestinal health by reshaping the gut microbiome.Scientific reports · 2026Article
- Prevalence of extended-spectrum β-lactamase-producing Enterobacterales and carbapenemase-resistant Enterobacterales in British military cohorts.BMJ military health · 2026Article
- Standardizing vaginal microbial profiling: evaluating swab materials, storage conditions, and host DNA depletion strategies.BMC microbiology · 2026Article
- Early-life microbiome trajectories as biomarkers to predict health outcomes.Microbiome research reports · 2026Review
- Benchmarking Cost-Effective DNA Extraction Kits for Diverse Metagenomic Samples.International journal of molecular sciences · 2025Article
- The Gut Microbiome in Stevens-Johnson Syndrome and Sjögren's Disease: Correlations with Dry Eye.Microorganisms · 2025Article
- Molecular Mechanisms and Therapeutic Perspectives of Gut Microbiota, Autophagy, and Apoptosis in Cholangiocarcinoma Pathophysiology.International journal of molecular sciences · 2025Review
- Challenges and Opportunities in Analyzing Cancer-Associated Microbiomes.Cancer research · 2025Review
- Comparison of different microbiome analysis pipelines to validate their reproducibility of gastric mucosal microbiome composition.mSystems · 2025Article
- How resistant is anammox biofilm against antibiotics: A special insight into anammox response towards fluoroquinolones.Heliyon · 2025Article
- Prospective evaluation of different faecal preservation media for travellers' diarrhoea diagnostic application with multiplex PCR BioFire FilmArray in resource-limited settings.Journal of medical microbiology · 2025Article
- Impact of fresh and fermented vegetable consumption on gut microbiota and body composition: insights from diverse data analysis approaches.Frontiers in nutrition · 2025Article
- Impact of DNA extraction techniques and sequencing approaches on microbial community profiling accuracy.Frontiers in microbiomes · 2025Article
- Next-generation sequencing applications in food science: fundamentals and recent advances.Frontiers in bioengineering and biotechnology · 2025Review
- Article
- The gut microbiota of healthy individuals remains resilient in response to the consumption of various dietary fibers.Scientific reports · 2024Article
- Short-read full-length 16S rRNA amplicon sequencing for characterisation of the respiratory bacteriome of captive and free-ranging African elephants (Loxodonta africana).Scientific reports · 2024Article
Corrections and comments
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
Abstract
backgroundNew developments in next-generation sequencing technologies and massive data received from this approach open wide prospects for personalised medicine and nutrition studies. Metagenomic analysis of the gut microbiota is paramount for the characterization of human health and wellbeing. Despite the intensive research, there is a huge gap and inconsistency between different studies due to the non-standardised and biased pipeline. Methodical and systemic understanding of every stage in the process is necessary to overcome all bottlenecks and grey zones of gut microbiota studies, where all details and interactions between processes are important.
resultsHere we show that an inexpensive, but reliable iSeq 100 platform is an excellent tool to perform the analysis of the human gut microbiota by amplicon sequencing of the 16 S rRNA gene. Two commercial DNA extraction kits and different starting materials performed similarly regarding the taxonomic distribution of identified bacteria. DNA/RNA Shield reagent proved to be a reliable solution for stool samples collection, preservation, and storage, as the storage of faecal material in DNA/RNA Shield for three weeks at different temperatures and thawing cycles had a low impact on the bacterial distribution.
conclusionsAltogether, a thoroughly elaborated pipeline with close attention to details ensures high reproducibility with significant biological but not technical variations.
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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.