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Structure, function and diversity of the healthy human microbiome

Curtis Huttenhower, +253 more
- 14 Jun 2012 - 
- Vol. 486, Iss: 7402, pp 207-214
TLDR
The Human Microbiome Project Consortium reported the first results of their analysis of microbial communities from distinct, clinically relevant body habitats in a human cohort; the insights into the microbial communities of a healthy population lay foundations for future exploration of the epidemiology, ecology and translational applications of the human microbiome as discussed by the authors.
Abstract: 
The Human Microbiome Project Consortium reports the first results of their analysis of microbial communities from distinct, clinically relevant body habitats in a human cohort; the insights into the microbial communities of a healthy population lay foundations for future exploration of the epidemiology, ecology and translational applications of the human microbiome.

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Journal ArticleDOI

The Common Gut Microbe Eubacterium hallii also Contributes to Intestinal Propionate Formation

Christina Engels, +6 more
- 19 May 2016 - 
TL;DR: E. hallii is identified as a key species within the intestinal trophic chain with the potential to highly impact the metabolic balance as well as the gut microbiota/host homeostasis by the formation of different short chain fatty acids.
Journal ArticleDOI

Extensive strain-level copy number variation across human gut microbiome species

Sharon Greenblum, +3 more
- 12 Feb 2015 - 
TL;DR: A comprehensive large-scale analysis of intra-species copy-number variation in the gut microbiome is presented, introducing a rigorous computational pipeline for detecting such variation directly from shotgun metagenomic data and uncovering a large set of variable genes in numerous species.
Journal ArticleDOI

Clostridium difficile and the microbiota

Anna M. Seekatz, +1 more
- 01 Oct 2014 - 
TL;DR: These findings will improve current biotherapeutics for patients with CDI, particularly those with recurrent disease, and will help elucidate the role of the microbiota in disease development.
Journal ArticleDOI

Lack of detection of a human placenta microbiome in samples from preterm and term deliveries.

Jacob S. Leiby, +13 more
- 30 Oct 2018 - 
TL;DR: The findings do not support the existence of a consistent placental microbiome, in either placenta from term deliveries or spontaneous preterm births.
Journal ArticleDOI

MetAMOS: a modular and open source metagenomic assembly and analysis pipeline

Todd J. Treangen, +8 more
- 15 Jan 2013 - 
TL;DR: MetAMOS can aid in reducing assembly errors, commonly encountered when assembling metagenomic samples, and improves taxonomic assignment accuracy while also reducing computational cost.
References
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Journal ArticleDOI

QIIME allows analysis of high-throughput community sequencing data.

J. Gregory Caporaso, +27 more
- 11 Apr 2010 - 
TL;DR: An overview of the analysis pipeline and links to raw data and processed output from the runs with and without denoising are provided.
Journal ArticleDOI

A human gut microbial gene catalogue established by metagenomic sequencing

Junjie Qin, +52 more
- 04 Mar 2010 - 
TL;DR: The Illumina-based metagenomic sequencing, assembly and characterization of 3.3 million non-redundant microbial genes, derived from 576.7 gigabases of sequence, from faecal samples of 124 European individuals are described, indicating that the entire cohort harbours between 1,000 and 1,150 prevalent bacterial species and each individual at least 160 such species.
Journal ArticleDOI

A core gut microbiome in obese and lean twins

Peter J. Turnbaugh, +14 more
- 22 Jan 2009 - 
TL;DR: The faecal microbial communities of adult female monozygotic and dizygotic twin pairs concordant for leanness or obesity, and their mothers are characterized to address how host genotype, environmental exposure and host adiposity influence the gut microbiome.
Journal ArticleDOI

Faecalibacterium prausnitzii is an anti-inflammatory commensal bacterium identified by gut microbiota analysis of Crohn disease patients

Harry Sokol, +19 more
- 28 Oct 2008 - 
TL;DR: The results suggest that counterbalancing dysbiosis using F. prausnitzii as a probiotic is a promising strategy in CD treatment and exhibits anti-inflammatory effects on cellular and TNBS colitis models, partly due to secreted metabolites able to block NF-κB activation and IL-8 production.
Journal ArticleDOI

Vaginal microbiome of reproductive-age women

Jacques Ravel, +14 more
- 15 Mar 2011 - 
TL;DR: The inherent differences within and between women in different ethnic groups strongly argues for a more refined definition of the kinds of bacterial communities normally found in healthy women and the need to appreciate differences between individuals so they can be taken into account in risk assessment and disease diagnosis.
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A human gut microbial gene catalogue established by metagenomic sequencing

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QIIME allows analysis of high-throughput community sequencing data.

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A core gut microbiome in obese and lean twins

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