Trial reportPloS one2019
Usability of rectal swabs for microbiome sampling in a cohort study of hematological and oncological patients.
Trial report in PloS one, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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
21 citing papers in PubMed, 42 citations in OpenAlex.
- Article
- Towards unraveling antimicrobial resistance dynamics: a longitudinal exploration of rectal swab metagenomes.BMC microbiology · 2025Article
- Gut microbiome features and resistome elements associated with colonization and infection with antibiotic-resistance threats.Gut microbes reports · 2025Article
- Gut Microbiota Comparison in Rectal Swabs Versus Stool Samples in Cats with Kidney Stones.Microorganisms · 2024Article
- The effects of prenatal exposure to opioids on early childhood development: context matters most.Expert opinion on pharmacotherapy · 2024Review
- Anorectal Infections in Neutropenic Leukemia Patients: A Common Clinical Challenge.Journal of hematology · 2024Review
- First-Day-of-Life Rectal Swabs Fail To Represent Meconial Microbiota Composition and Underestimate the Presence of Antibiotic Resistance Genes.Microbiology spectrum · 2023Article
- The Gut Microbiome Modulates Body Temperature Both in Sepsis and Health.American journal of respiratory and critical care medicine · 2023Article
- Accelerating Gut Microbiome Research with Robust Sample Collection.Research & reviews. Journal of microbiology and biotechnology · 2023Article
- Article
- Gut microbiota on admission as predictive biomarker for acute necrotizing pancreatitis.Frontiers in immunology · 2022Article
- Comparison of bacterial community profiles from large intestine specimens, rectal swabs, and stool samples.Applied microbiology and biotechnology · 2021Article
- Comprehensive Wet-Bench and Bioinformatics Workflow for Complex Microbiota Using Oxford Nanopore Technologies.mSystems · 2021Article
- Study protocol P-MAPS: microbiome as predictor of severity in acute pancreatitis-a prospective multicentre translational study.BMC gastroenterology · 2021Article
- Variations in Gut Microbiome are Associated with Prognosis of Hypertriglyceridemia-Associated Acute Pancreatitis.Biomolecules · 2021Observational
- Potential role of indolelactate and butyrate in multiple sclerosis revealed by integrated microbiome-metabolome analysis.Cell reports. Medicine · 2021Article
- Prevalence of Vancomycin-ResistantAntibiotics (Basel, Switzerland) · 2021Article
- Identification of Dysfunctional Gut Microbiota Through Rectal Swab in Patients with Different Severity of Acute Pancreatitis.Digestive diseases and sciences · 2020Article
- Combined effects of HIV and obesity on the gastrointestinal microbiome of young men who have sex with men.HIV medicine · 2020Article
- Antimicrobial Resistance Gene Prevalence in a Population of Patients with Advanced Dementia Is Related to Specific Pathobionts.iScience · 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
9 authors at 5 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
objectivesLarge-scale clinical studies investigating associations between intestinal microbiota signatures and human diseases usually rely on stool samples. However, the timing of repeated stool sample collection cannot be predefined in longitudinal settings. Rectal swabs, being straightforward to obtain, have the potential to overcome this drawback. Therefore, we assessed the usability of rectal swabs for microbiome sampling in a cohort of hematological and oncological patients. STUDY
designWe used a pipeline for intestinal microbiota analysis from deep rectal swabs which was established and validated with test samples and negative controls. Consecutively, a cohort of patients from hematology and oncology wards was established and weekly deep rectal swabs taken during their admissions and re-admissions.
resultsValidation of our newly developed pipeline for intestinal microbiota analysis from rectal swabs revealed consistent and reproducible results. Over a period of nine months, 418 rectal swabs were collected longitudinally from 41 patients. Adherence to the intended sampling protocol was 97%. After DNA extraction, sequencing, read pre-processing and filtering of chimeric sequences, 405 of 418 samples (96.9%) were eligible for further analyses. Follow-up samples and those taken under current antibiotic exposure showed a significant decrease in alpha diversity as compared to baseline samples. Microbial domination occurred most frequently by Enterococcaceae (99 samples, 24.4%) on family level and Enterococcus (90 samples, 22.2%) on genus level. Furthermore, we noticed a high abundance of potential skin commensals in 99 samples (24.4%). SUMMARY: Deep rectal swabs were shown to be reliable for microbiome sampling and analysis, with practical advantages related to high sampling adherence, easy timing, transport and storage. The relatively high abundance of putative skin commensals in this patient cohort may be of potential interest and should be further investigated. Generally, previous findings on alpha diversity dynamics obtained from stool samples were confirmed.
Indexed as
Identifiers
What OpenQuestion holds
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.