ArticleApplied and environmental microbiology2011
Microarray analysis and barcoded pyrosequencing provide consistent microbial profiles depending on the source of human intestinal samples.
Article in Applied and environmental microbiology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 78 papers, 2 of them syntheses that pooled it.
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Who cites it
78 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Faecal Microbiota in Infants and Young Children with Functional Gastrointestinal Disorders: A Systematic Review.Nutrients · 2022Pooled it
- Meta-analyses of studies of the human microbiota.Genome research · 2013Pooled it
- Microbial shifts and signatures of long-term remission in ulcerative colitis after faecal microbiota transplantation.The ISME journal · 2017Trial
- Differential effects of FODMAPs (fermentable oligo-, di-, mono-saccharides and polyols) on small and large intestinal contents in healthy subjects shown by MRI.The American journal of gastroenterology · 2014Trial
- Modulation of the metabiome by rifaximin in patients with cirrhosis and minimal hepatic encephalopathy.PloS one · 2013Trial
- Intestinal microbiota in healthy adults: temporal analysis reveals individual and common core and relation to intestinal symptoms.PloS one · 2011Trial
- Article
- Exposure to a fungicide for a field-realistic duration does not alter bumble bee fecal microbiota structure.Applied and environmental microbiology · 2024Article
- Development of a reproducible small intestinal microbiota model and its integration into the SHIMEFrontiers in microbiology · 2022Article
- Bacterial Extracellular Vesicles in Gastrointestinal Tract Cancer: An Unexplored Territory.Cancers · 2021Review
- Pathogenomics of Streptococcus ilei sp. nov., a newly identified pathogen ubiquitous in human microbiome.Journal of microbiology (Seoul, Korea) · 2021Article
- Different co-occurring bacteria enhance or decrease the growth of the microalga Nannochloropsis sp. CCAP211/78.Microbial biotechnology · 2021Article
- Methods for exploring the faecal microbiome of premature infants: a review.Maternal health, neonatology and perinatology · 2021Review
- Diet Advice for Crohn's Disease: FODMAP and Beyond.Nutrients · 2020Review
- Effects of seasonality and previous logging on faecal helminth-microbiota associations in wild lemurs.Scientific reports · 2020Article
- Gut Microbiota between Environment and Genetic Background in Familial Mediterranean Fever (FMF).Genes · 2020Review
- Colonic Mucosal Microbiota and Association of Bacterial Taxa with the Expression of Host Antimicrobial Peptides in Pediatric Ulcerative Colitis.International journal of molecular sciences · 2020Article
- Characterization of dairy cow rumen bacterial and archaeal communities associated with grass silage and maize silage based diets.PloS one · 2020Article
- Effect of Daily Intake of Lactobacillus casei on Microbial Diversity and Dynamics in a Healthy Pediatric Population.Current microbiology · 2019Article
- Diversity of tryptophan halogenases in sponges of the genus Aplysina.FEMS microbiology ecology · 2019Article
18 more citing papers are in PubMed but not listed here.
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4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Large-scale and in-depth characterization of the intestinal microbiota necessitates application of high-throughput 16S rRNA gene-based technologies, such as barcoded pyrosequencing and phylogenetic microarray analysis. In this study, the two techniques were compared and contrasted for analysis of the bacterial composition in three fecal and three small intestinal samples from human individuals. As PCR remains a crucial step in sample preparation for both techniques, different forward primers were used for amplification to assess their impact on microbial profiling results. An average of 7,944 pyrosequences, spanning the V1 and V2 region of 16S rRNA genes, was obtained per sample. Although primer choice in barcoded pyrosequencing did not affect species richness and diversity estimates, detection of Actinobacteria strongly depended on the selected primer. Microbial profiles obtained by pyrosequencing and phylogenetic microarray analysis (HITChip) correlated strongly for fecal and ileal lumen samples but were less concordant for ileostomy effluent. Quantitative PCR was employed to investigate the deviations in profiling between pyrosequencing and HITChip analysis. Since cloning and sequencing of random 16S rRNA genes from ileostomy effluent confirmed the presence of novel intestinal phylotypes detected by pyrosequencing, especially those belonging to the Veillonella group, the divergence between pyrosequencing and the HITChip is likely due to the relatively low number of available 16S rRNA gene sequences of small intestinal origin in the DNA databases that were used for HITChip probe design. Overall, this study demonstrated that equivalent biological conclusions are obtained by high-throughput profiling of microbial communities, independent of technology or primer choice.
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