ArticlePloS one2014
Strengths and limitations of 16S rRNA gene amplicon sequencing in revealing temporal microbial community dynamics.
Article in PloS one, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 349 papers, 5 of them syntheses that pooled it.
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
349 citing papers in PubMed, 5 syntheses or guidelines pooled it.
- Systematic review of associations between gut microbiome composition and stunting in under-five children.NPJ biofilms and microbiomes · 2024Pooled it
- Microbiota composition effect on immunotherapy outcomes in colorectal cancer patients: A systematic review.PloS one · 2024Pooled it
- A systematic review of gut microbiota composition in observational studies of major depressive disorder, bipolar disorder and schizophrenia.Molecular psychiatry · 2022Pooled it
- Hawaiian Fungal Amplicon Sequence Variants Reveal Otherwise Hidden Biogeography.Microbial ecology · 2022Pooled it
- Gut microbiota variations in patients diagnosed with major depressive disorder-A systematic review.Brain and behavior · 2021Pooled it
- Resistant starch types 2 and 4 induce distinct and reversible changes in the human gut microbiome.Microbiology spectrum · 2026Trial
- Functional divergence of bacterial communities in root zones of Suaeda salsa in an aged petroleum-polluted area of the Yellow River Delta.World journal of microbiology & biotechnology · 2026Article
- Resistant Starch Supplementation Modulates Gut Microbiota, Short-Chain Fatty Acids, and Markers of Gut Barrier Integrity in Estrogen-Deficient Mice.Current developments in nutrition · 2026Article
- Comparing Aquatic Environmental DNA, Microscopy and Sedimentary DNA to Investigate Cyanobacterial Community Dynamics Across a Trophic Gradient.Microbial ecology · 2026Article
- Ecosystem state and soil depth determine the microbial community response to warming in coastal marsh soils.iScience · 2026Article
- The gut-joint axis in osteoarthritis.Nature reviews. Rheumatology · 2026Review
- Persistence of specialized bacteria during disinfectant challenge in a new swimming pool.Engineering microbiology · 2026Article
- Evidence for bidirectional gut-spleen crosstalk in rodent models: scoping review of possible mechanisms and therapeutic implications.Journal of applied biomedicine · 2026Review
- Insights into microbial diversity affected by plant cover in athalassohaline ecosystem of el-hamra lake, wadi el-natrun, Egypt.World journal of microbiology & biotechnology · 2026Article
- Article
- Functional Capacity and Gut Microbiota Shifts in Heart Failure Patients Following Cardiac Rehabilitation.Journal of clinical medicine · 2026Article
- Exploring the oral microbiome: from traditional techniques to advanced omics and databases.Antonie van Leeuwenhoek · 2026Review
- Genomic and experimental characterization of unique Antarctic temperate phage Perkons reveals multiple integrases and complex lysogenic dynamics in Psychrobacillus sp. L4.BMC microbiology · 2026Article
- Integrative phylogenomic and pangenome landscape of Bacillus: insights from 10,000 genomes into taxonomy, functional potential, and biotechnological applications.World journal of microbiology & biotechnology · 2026Article
- Caught Between Invasions: Community Structure and Environmental Drivers of Cyanobacteria in a Vulnerable Post-glacial Lake Region.Microbial ecology · 2026Article
289 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
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
This study explored the short-term planktonic microbial community structure and resilience in Lake Lanier (GA, USA) while simultaneously evaluating the technical aspects of identifying taxa via 16S rRNA gene amplicon and metagenomic sequence data. 16S rRNA gene amplicons generated from four temporally discrete samples were sequenced with 454 GS-FLX-Ti yielding ∼40,000 rRNA gene sequences from each sample and representing ∼300 observed OTUs. Replicates obtained from the same biological sample clustered together but several biases were observed, linked to either the PCR or sequencing-preparation steps. In comparisons with companion whole-community shotgun metagenome datasets, the estimated number of OTUs at each timepoint was concordant, but 1.5 times and ∼10 times as many phyla and genera, respectively, were identified in the metagenomes. Our analyses showed that the 16S rRNA gene captures broad shifts in community diversity over time, but with limited resolution and lower sensitivity compared to metagenomic data. We also identified OTUs that showed marked shifts in abundance over four close timepoints separated by perturbations and tracked these taxa in the metagenome vs. 16S rRNA amplicon data. A strong summer storm had less of an effect on community composition than did seasonal mixing, which revealed a distinct succession of organisms. This study provides insights into freshwater microbial communities and advances the approaches for assessing community diversity and dynamics in situ.
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