ReviewJournal of advanced research2019
What is new and relevant for sequencing-based microbiome research? A mini-review.
Review in Journal of advanced research, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 62 papers, 1 of them a synthesis that pooled it.
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
62 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Gut Microbiota in Patients with Polycystic Ovary Syndrome: a Systematic Review.Reproductive sciences (Thousand Oaks, Calif.) · 2022Pooled it
- Functional Capacity and Gut Microbiota Shifts in Heart Failure Patients Following Cardiac Rehabilitation.Journal of clinical medicine · 2026Article
- Comparison of 16S rRNA gene amplicon and whole-genome shotgun metagenomic sequencing for subgingival oral microbiome profiling.Journal of oral microbiology · 2026Article
- The wound microbiome associated with deep sternal wound infection: a scoping review.Journal of thoracic disease · 2025Review
- An integrative approach for imaging and quantitative analysis of gut microbiota growthBiophysics reports · 2025Article
- Metabarcoding with Illumina and Oxford Nanopore Technologies provides complementary insights into tree seed mycobiota.Environmental microbiome · 2025Article
- Effect of dietary fibre on the gastrointestinal microbiota during critical illness: A scoping review.World journal of critical care medicine · 2025Review
- Next-generation sequencing applications in food science: fundamentals and recent advances.Frontiers in bioengineering and biotechnology · 2025Review
- Soil microbiome characterization and its future directions with biosensing.Journal of biological engineering · 2024Article
- Bacterial Pesticides: Mechanism of Action, Possibility of Food Contamination, and Residue Analysis Using MS.Journal of pesticide science · 2024Article
- Optimization of the Method for Isolating Bacterial DNA from the Aboveground Part of Lettuce.International journal of molecular sciences · 2024Article
- Amplidiff: an optimized amplicon sequencing approach to estimating lineage abundances in viral metagenomes.BMC bioinformatics · 2024Article
- Cecal metabolomics of 2 divergently selected rabbit lines revealed microbial mechanisms correlated to intramuscular fat deposition.Journal of animal science · 2024Article
- Chemical tongues as multipurpose bioanalytical tools for the characterization of complex biological samples.Biophysics and physicobiology · 2024Review
- Benchmarking MicrobIEM - a user-friendly tool for decontamination of microbiome sequencing data.BMC biology · 2023Article
- Establishment of a consensus protocol to explore the brain pathobiome in patients with mild cognitive impairment and Alzheimer's disease: Research outline and call for collaboration.Alzheimer's & dementia : the journal of the Alzheimer's Association · 2023Review
- Skin Microbiota and the Cosmetic Industry.Microbial ecology · 2023Review
- The Epibiotic Microbiota of Wild Caribbean Sea Urchin Spines Is Species Specific.Microorganisms · 2023Article
- Big Data in Gastroenterology Research.International journal of molecular sciences · 2023Review
- Preliminary exploratory research on the application value of oral and intestinal meta-genomics in predicting subjects' occupations-A case study of the distinction between students and migrant workers.Frontiers in microbiology · 2023Article
2 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Microbiome research has transformed the scientific landscape, as reflected by the exponential increase in microbiome-related publications from many different disciplines. Host-associated microbial communities play a role for almost all aspects of human, animal and plant biology and health. Consequently, there are tremendous expectations for the development of new clinical, agricultural and biotechnological applications of microbiome research. However, the field continues to be largely shaped by descriptive studies, the mechanistic understanding of microbiome functions for their hosts remains fragmentary, and direct applications of microbiome research are lacking. The aim of this review is therefore to provide a general introduction to the technical opportunities and challenges of microbiome research, as well as to make experimental and bioinformatic recommendations, i.e. (i) to avoid, reduce and assess the confounding effects of sample storage, nucleic acid isolation and microbial contamination; (ii) to minimize non-microbial contributions in host-associated microbiome samples; (iii) to sharpen the focus on physiologically relevant microbiome features by distinguishing signals from metabolically active and inactive or dead microbes and by adopting quantitative methods; and (iv) to enforce open data and protocol policies in order increase the transparency, reproducibility and credibility of the field.
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.