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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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Citations
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Journal ArticleDOI

DESMAN: a new tool for de novo extraction of strains from metagenomes

Christopher Quince, +8 more
- 21 Sep 2017 - 
TL;DR: This work validated DESMAN on a complex 50-species 210-genome 96-sample synthetic mock data set and then applied it to the Tara Oceans microbiome, proving its ability to resolve strain-level variation.
Journal ArticleDOI

Variation in Rural African Gut Microbiota Is Strongly Correlated with Colonization by Entamoeba and Subsistence

Elise R. Morton, +7 more
- 30 Nov 2015 - 
TL;DR: It is found that across populations, colonization by this protozoa can be predicted with 79% accuracy based on the composition of an individual's gut microbiota, and several of the taxa most important for distinguishing Entamoeba absence or presence are signature taxa for autoimmune disorders.
Journal ArticleDOI

The Human Gut Microbiome as a Transporter of Antibiotic Resistance Genes between Continents

Johan Bengtsson-Palme, +7 more
- 01 Oct 2015 - 
TL;DR: Explorative shotgun metagenomic sequencing of the intestinal microbiome of Swedish students returning from exchange programs in Central Africa or the Indian peninsula showed increased abundance of genes encoding resistance to widely used antibiotics.
Journal ArticleDOI

Critically ill patients demonstrate large interpersonal variation in intestinal microbiota dysregulation: a pilot study.

Jacqueline M. Lankelma, +7 more
- 01 Jan 2017 - 
TL;DR: The fecal microbiota composition in critically ill patients both with and without sepsis was characterized and the use of microbiota-derived markers for clinical outcome measurements in this setting was explored, including disappearance of bacterial genera with important functions in host metabolism.
Journal ArticleDOI

Reduced microbiome alpha diversity in young patients with ADHD

Alexander Prehn-Kristensen, +6 more
- 12 Jul 2018 - 
TL;DR: The gut microbiota of ADHD patients and controls was examined via next generation sequencing of 16S rDNA and a possible link of certain microbiota with ADHD was found, with Neisseria spec.
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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