ArticleNature communications2019
Evaluation of 16S rRNA gene sequencing for species and strain-level microbiome analysis.
Article in Nature communications, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1,164 papers, 8 of them syntheses that pooled it.
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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.
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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.
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Who cites it
1,164 citing papers in PubMed, 8 syntheses or guidelines pooled it.
- Socioeconomic position and the gut microbiota: a narrative synthesis of the association and recommendations.Gut microbes · 2026Pooled it
- Effects of GLP-1 agonists on the gut microbiota in type 2 diabetes mellitus: a systematic review.The FEBS journal · 2026Pooled it
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- Marine microbiomes and their expanding role in biotechnological potential: a systematic review.Archives of microbiology · 2026Pooled it
- From culture-based to 16S sequencing approaches: oral microbiota changes in aging, frailty, and oral hypofunction - a systematic review.BMC oral health · 2026Pooled it
- Maternal influences on oral microbiome development and implications for early childhood health: a systematic review.Infection and immunity · 2026Pooled it
- Systematic Review: Long-Read Sequencing in Algal Studies.International journal of molecular sciences · 2026Pooled it
- The mosquito gut microbiome andFrontiers in cellular and infection microbiology · 2026Pooled it
- Assessing the Impact ofNutrients · 2026Trial
- Full-length 16S rRNA nanopore sequencing enables species resolution ofGut microbes · 2026Article
- From gut to brain: data-driven evidence suggests causal contribution of gut-microbiota to major depressive disorder in humans.Gut microbes · 2026Article
- Early risk stratification of late-onset sepsis in very preterm infants by intestinal microbiota profiling: a multicenter case-control validation study.Gut microbes · 2026Article
- The JNK2-microbiome axis modulates gut barrier integrity through microbial acetate.Gut microbes · 2026Article
- Effects ofGut microbes · 2026Article
- Effects of feed intake-regulated nutritional compensation strategies on growth performance, blood indices, and rumen microbiota of Gangba sheep.Animal nutrition (Zhongguo xu mu shou yi xue hui) · 2026Article
- Species-specific microbial dynamics are associated with molecular compositional restructuring of free metabolites during Light-flavorFood chemistry. Molecular sciences · 2026Article
- Article
- Poly(3-hydroxybutyrate) production from thermally pretreated cheese whey by Stutzerimonas stutzeri BPSNITW100893: optimization, validation and characterization.Biodegradation · 2026Article
- Niche-specific immune and microbial signatures across the healthy upper respiratory tract mucosa.iScience · 2026Article
- Impact of extended fertilization on soil microbial diversity: a comparative full-length 16S rRNA amplicon analysis.Genomics & informatics · 2026Article
1,104 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
12 authors.
Funding
Abstract
The 16S rRNA gene has been a mainstay of sequence-based bacterial analysis for decades. However, high-throughput sequencing of the full gene has only recently become a realistic prospect. Here, we use in silico and sequence-based experiments to critically re-evaluate the potential of the 16S gene to provide taxonomic resolution at species and strain level. We demonstrate that targeting of 16S variable regions with short-read sequencing platforms cannot achieve the taxonomic resolution afforded by sequencing the entire (~1500 bp) gene. We further demonstrate that full-length sequencing platforms are sufficiently accurate to resolve subtle nucleotide substitutions (but not insertions/deletions) that exist between intragenomic copies of the 16S gene. In consequence, we argue that modern analysis approaches must necessarily account for intragenomic variation between 16S gene copies. In particular, we demonstrate that appropriate treatment of full-length 16S intragenomic copy variants has the potential to provide taxonomic resolution of bacterial communities at species and strain level.
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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.