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Open AccessJournal ArticleDOI

Structure, function and diversity of the healthy human microbiome

Curtis Huttenhower, +253 more
- 14 Jun 2012 - 
- Vol. 486, Iss: 7402, pp 207-214
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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

Gut Microbiota–Brain Axis as a Potential Modulator of Psychological Stress after Spinal Cord Injury

Samir Musleh-Vega, +2 more
- 01 Apr 2022 - 
TL;DR: The understanding of the mechanisms underlying the relationship between SCIs, gut dysbiosis and psychological stress could contribute to the development of novel therapeutic strategies to improve SCI patients’ quality of life.
Book ChapterDOI

Standardized Approaches for Assessing Metagenomic Contig Binning Performance from Barnes-Hut t-Stochastic Neighbor Embeddings

Julian Ceballos, +2 more
TL;DR: This work attempted to standardize performance evaluation using benchmark communities constructed according to the genome similarity metric Average Amino Acid identity, which allowed it to extend and deepen previous research on the unsupervised binning of metagenomic sequence fragments based on low-dimensional embeddings of pentamer frequency profiles.
Book ChapterDOI

Microbiome in the Critically Ill

Meredith Barrett, +1 more
TL;DR: The authors are just beginning to understand the role of the microbiome in health and disease, and can modify the microbiome with probiotics, although the science of doing so is still undeveloped.
Journal ArticleDOI

The lung microbiome in HIV-positive patients with active pulmonary tuberculosis

Veronica Ueckermann, +6 more
- 28 May 2022 - 
TL;DR: In this article , the authors describe the lung microbiome in patients with HIV and PTB co-infection and compare findings with an HIV-positive control cohort, with an associated loss of microbial diversity.
Journal ArticleDOI

Gut Check: In Vitro Diagnostics for Gut Microbiome Analysis

Diana R. Hernandez
- 01 Apr 2019 - 
TL;DR: Advances in gut microbiome research allow for the exploration of non-cultivatable species, but also the discovery of their relationships to health and disease, and it is likely that microbiological analysis of the gut will become an important baseline.
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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