ArticleScientific reports2019
Gut microbiome comparability of fresh-frozen versus stabilized-frozen samples from hospitalized patients using 16S rRNA gene and shotgun metagenomic sequencing.
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 18 papers.
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Who cites it
18 citing papers in PubMed, 60 citations in OpenAlex.
- Reviving formalin-fixed, paraffin embedded (FFPE) tissues for on-slide and multiscale correlative microscopy.Scientific reports · 2026Article
- Comparison of oral collection methods for 16S rRNA gene and shotgun metagenomic sequencing.Microbiology spectrum · 2026Article
- Evaluating stool microbiome integrity after domestic freezer storage using whole-metagenome sequencing, genome assembly, and antimicrobial resistance gene analysis.Microbiology spectrum · 2025Article
- Stability of oral and fecal microbiome at room temperature: impact on diversity.Frontiers in microbiomes · 2025Article
- Position statement of the Microbiota International Clinical Society.Frontiers in microbiomes · 2025Article
- Stabilized and unstabilized sampling methods result in differential fecal 16S rRNA microbial sequencing results.PloS one · 2025Article
- Analysis of metagenomic data.Nature reviews. Methods primers · 2025Article
- Omnigene-GutAMB Express · 2024Article
- Article
- Standardization of gut microbiome analysis in sports.Cell reports. Medicine · 2024Review
- Comparison between 16S rRNA and shotgun sequencing in colorectal cancer, advanced colorectal lesions, and healthy human gut microbiota.BMC genomics · 2024Article
- Multicenter evaluation of gut microbiome profiling by next-generation sequencing reveals major biases in partial-length metabarcoding approach.Scientific reports · 2023Article
- Long-term taxonomic and functional stability of the gut microbiome from human fecal samples.Scientific reports · 2023Article
- Critical evaluation of faecal microbiome preservation using metagenomic analysis.ISME communications · 2021Article
- Evaluation of the Effect of Storage Methods on Fecal, Saliva, and Skin Microbiome Composition.mSystems · 2021Article
- Toward Best Practice in Livestock Microbiota Research: A Comprehensive Comparison of Sample Storage and DNA Extraction Strategies.Frontiers in microbiology · 2021Article
- Comparing Circadian Rhythmicity in the Human Gut Microbiome.STAR protocols · 2020Article
- Parkinson's disease-associated alterations of the gut microbiome predict disease-relevant changes in metabolic functions.BMC biology · 2020Article
Corrections and comments
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Authors and funding
10 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Collection of faecal samples for microbiome analysis in acutely sick patients is logistically difficult, particularly if immediate freezing is required (i.e. fresh-frozen, or FF sampling). Previous studies in healthy/non-hospitalized volunteers have shown that chemical stabilization (i.e. stabilized-frozen, or SF sampling) allows room-temperature storage with comparable results to FF samples. To test this in a hospital setting we compared FF and SF approaches across 17 patients undergoing haematopoietic stem cell transplantation (HSCT) using both 16S rRNA gene and shotgun metagenomic sequencing. A paired (same stool specimen) comparison of FF and SF samples was made, with an overall comparable level in relative taxonomic abundances between the two sampling techniques. Though shotgun metagenomic sequencing found significant differences for certain bacterial genera (P < 0.001), these were considered minor methodological effects. Within-sample diversity of either method was not significantly different (Shannon diversity P
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