ArticleGenome biology2012
A tool kit for quantifying eukaryotic rRNA gene sequences from human microbiome samples.
Article in Genome biology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 83 papers, 1 of them a synthesis 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.
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Who cites it
83 citing papers in PubMed, 1 synthesis or guideline pooled it, 141 citations in OpenAlex.
- Gut Mycobiome in Inflammatory Bowel Disease: A Systematic Review of Case-Control Studies.Inflammatory bowel diseases · 2025Pooled it
- Assessment of water quality and microbial contamination in Santa Marta's major rivers using conventional methods and next-generation sequencing.Environmental science and pollution research international · 2026Article
- Composition-on-composition regression analysis for multi-omics integration of metagenomic data.Bioinformatics (Oxford, England) · 2025Article
- Unraveling Fish Community Diversity and Structure in the Yellow Sea: Evidence from Environmental DNA Metabarcoding and Bottom Trawling.Animals : an open access journal from MDPI · 2025Article
- Together throughout the year: seasonal patterns of bacterial and eukaryotic microbial communities in a macrotidal estuary.Environmental microbiome · 2025Article
- Advances in Yeast Probiotic Production and Formulation for Preventative Health.Microorganisms · 2024Review
- Azole Combinations and Multi-Targeting Drugs That Synergistically InhibitJournal of fungi (Basel, Switzerland) · 2024Review
- Step-by-Step Metagenomics for Food Microbiome Analysis: A Detailed Review.Foods (Basel, Switzerland) · 2024Review
- Article
- VESPA: an optimized protocol for accurate metabarcoding-based characterization of vertebrate eukaryotic endosymbiont and parasite assemblages.Nature communications · 2024Article
- Differences in Soil Fungal Communities between Forested Reclamation and Forestry Sites in the Alberta Oil Sands Region.Journal of fungi (Basel, Switzerland) · 2023Article
- Distinct community structures of the fungal microbiome and respiratory health in adults with cystic fibrosis.Journal of cystic fibrosis : official journal of the European Cystic Fibrosis Society · 2023Article
- Spatial Patterns of Planktonic Fungi Indicate Their Potential Contributions to Biological Carbon Pump and Organic Matter Remineralization in the Water Column of South China Sea.Journal of fungi (Basel, Switzerland) · 2023Article
- Microbiome analysis in Lascaux Cave in relation to black stain alterations of rock surfaces and collembola.Environmental microbiology reports · 2023Article
- Recent developments in the production and utilization of photosynthetic microorganisms for food applications.Heliyon · 2023Review
- Microbiome Analysis of New, Insidious Cave Wall Alterations in the Apse of Lascaux Cave.Microorganisms · 2022Article
- Plant Microbiome Engineering: Hopes or Hypes.Biology · 2022Review
- Current Techniques to Study Beneficial Plant-Microbe Interactions.Microorganisms · 2022Review
- Metagenomic assembled plasmids of the human microbiome vary across disease cohorts.Scientific reports · 2022Article
- Genetic and phenotypic diversity of fecal Candida albicans strains in irritable bowel syndrome.Scientific reports · 2022Article
23 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
15 authors at 2 institutions in 1 country.
Funding
Abstract
Eukaryotic microorganisms are important but understudied components of the human microbiome. Here we present a pipeline for analysis of deep sequencing data on single cell eukaryotes. We designed a new 18S rRNA gene-specific PCR primer set and compared a published rRNA gene internal transcribed spacer (ITS) gene primer set. Amplicons were tested against 24 specimens from defined eukaryotes and eight well-characterized human stool samples. A software pipeline https://sourceforge.net/projects/brocc/ was developed for taxonomic attribution, validated against simulated data, and tested on pyrosequence data. This study provides a well-characterized tool kit for sequence-based enumeration of eukaryotic organisms in human microbiome samples.
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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.