Comparative Analysis of Human Gut Microbiota by Barcoded Pyrosequencing

By Anders F. Andersson, Mathilda Lindberg, Hedvig E. Jakobsson, F. Bäckhed, P. Nyrén, L. Engstrand. PLoS ONE, 2008

1,017 citations recorded by the source corpus.

Humans host complex microbial communities believed to contribute to health maintenance and, when in imbalance, to the development of diseases. Determining the microbial composition in patients and healthy controls may thus provide novel therapeutic targets. For this purpose, high-throughput, cost-effective methods for microbiota characterization are needed. We have employed 454-pyrosequencing of a hyper-variable region of the 16S rRNA gene in combination with sample-specific barcode sequences which enables parallel in-depth analysis of hundreds of samples with limited sample processing. In silico modeling demonstrated that the method correctly describes microbial communities down to phylotypes below the genus level. Here we applied the technique to analyze microbial communities in throat, stomach and fecal samples. Our results demonstrate the applicability of barcoded pyrosequencing as a high-throughput method for comparative microbial ecology.

Subfields: Ecology, Food Science, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/50bf73633e9e8e57bc7d0367071e4edc4b431b86

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Citations in the corpus

Human oral, gut, and plaque microbiota in patients with atherosclerosis (2010, background): “However, because both genera also are common colonizers of the stomach and small intestine (28, 29), we cannot rule out that they may originate from these body sites.”
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Gut Microbiota is Altered in Patients with Alzheimer’s Disease (2018, neutral): “The V3-V4 region of the bacteria’s 16S ribosomal RNA (rRNA) gene was amplified by thermocycler PCR system (GeneAmp 9700, ABI, USA) with barcode-indexed primers (338F and 806R) according to previous protocols [14].”
Structural segregation of gut microbiota between colorectal cancer patients and healthy volunteers (2011, background): “With the development of high-throughput DNAsequencing technology and application of multivariate statistical tools, researchers are now able to do a ‘microbiome-wide association study’ to reveal microbial variations that are possibly linked to environmental changes such as the host health status, wi”
Environmental and Gut Bacteroidetes: The Food Connection (2011, background): “In the throat, Andersson et al. (2008) found that Bacteroidetes account for ∼20% of the reads using barcoding pyrosequencing, and identified Prevotella genus as the second most represented after Streptococcus.”
The Bacterial Community Composition of the Bovine Rumen Detected Using Pyrosequencing of 16S rRNA Genes (2012, methodology): “The V3–V5 regions were selected because of their high variability [2,17,39].”
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The Human Microbiome: at the interface of health and disease (2012, background): “pylori -negative individuals, gastric microbiota diversity is high; most of the prominent gastric phylotypes ( Streptococcus , Actinomyces, Prevotella and Gemella ) also are abundant in the oropharynx of these individual”
Human gut microbiota in obesity and after gastric bypass (2009, methodology): “Pyrosequencing has been used successfully to study the microbial community in animals (2), humans (13, 14), soils (15), and oceans (16).”
Short-Term Antibiotic Treatment Has Differing Long-Term Impacts on the Human Throat and Gut Microbiome (2010, methodology): “Details regarding primer design is 402 found in a previous publication [24].”
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