Taxa-function robustness in microbial communities

Metagenomic covariation along densely sampled environmental gradients in the Red Sea

(2016) Luke R Thompson et al.   ISME Journal

Xenobiotic Metabolism and Gut Microbiomes

(2016) Anubhav Das et al.   PLoS One

Elucidating selection processes for antibiotic resistance in sewage treatment plants using metagenomics

(2016) Johan Bengtsson-Palme et al.   SCIENCE OF THE TOTAL ENVIRONMENT

Functional Redundancy-Induced Stability of Gut Microbiota Subjected to Disturbance

(2016) Andrés Moya et al.   TRENDS IN MICROBIOLOGY

Reduced diversity and altered composition of the gut microbiome in individuals with myalgic encephalomyelitis/chronic fatigue syndrome

(2016) Ludovic Giloteaux et al.   Microbiome

Temporal bacterial and metabolic development of the preterm gut reveals specific signatures in health and disease

(2016) Christopher J. Stewart et al.   Microbiome

Whole metagenome profiling reveals skin microbiome-dependent susceptibility to atopic dermatitis flare

(2016) Kern Rei Chng et al.   Nature Microbiology

Species–function relationships shape ecological properties of the human gut microbiome

(2016) Sara Vieira-Silva et al.   Nature Microbiology

Metabolic Model-Based Integration of Microbiome Taxonomic and Metabolomic Profiles Elucidates Mechanistic Links between Ecological and Metabolic Variation

(2016) Cecilia Noecker et al.   mSystems

The Antiviral Activity of Approved and Novel Drugs against HIV-1 Mutations Evaluated under the Consideration of Dose-Response Curve Slope

(2016) Shuai Chang et al.   PLoS One

Tax4Fun: predicting functional profiles from metagenomic 16S rRNA data: Fig. 1.

(2015) Kathrin P. Aßhauer et al.   BIOINFORMATICS

Extensive Strain-Level Copy-Number Variation across Human Gut Microbiome Species

(2015) Sharon Greenblum et al.   CELL

A review of morphine and morphine-6-glucuronide’s pharmacokinetic–pharmacodynamic relationships in experimental and clinical pain

(2015) Eva Sverrisdóttir et al.   EUROPEAN JOURNAL OF PHARMACEUTICAL SCIENCES

Geographical patterns of the standing and active human gut microbiome in health and IBD

(2015) Ateequr Rehman et al.   GUT

Meta-omics uncover temporal regulation of pathways across oral microbiome genera during in vitro sugar metabolism

(2015) Anna Edlund et al.   ISME Journal

Pharmacokinetic-Pharmacodynamic and Dose-Response Relationships of Antituberculosis Drugs: Recommendations and Standards for Industry and Academia

(2015) Tawanda Gumbo et al.   JOURNAL OF INFECTIOUS DISEASES

KEGG as a reference resource for gene and protein annotation

(2015) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Structure and function of the global ocean microbiome

(2015) S. Sunagawa et al.   SCIENCE

Metabolic Signatures of Bacterial Vaginosis

(2015) Sujatha Srinivasan et al.   mBio

MUSiCC: a marker genes based framework for metagenomic normalization and accurate profiling of gene abundances in the microbiome

(2015) Ohad Manor et al.   GENOME BIOLOGY

The Earth Microbiome project: successes and aspirations

(2014) Jack A Gilbert et al.   BMC BIOLOGY

What can we learn from fitness landscapes?

(2014) Daniel L Hartl   CURRENT OPINION IN MICROBIOLOGY

Antibiotic-induced shifts in the mouse gut microbiome and metabolome increase susceptibility to Clostridium difficile infection

(2014) Casey M. Theriot et al.   Nature Communications

Host lifestyle affects human microbiota on daily timescales

(2014) Lawrence A David et al.   GENOME BIOLOGY

Seasonal changes in microbial community structure and activity imply winter production is linked to summer hypoxia in a large lake

(2013) Steven W. Wilhelm et al.   FEMS MICROBIOLOGY ECOLOGY

Diet rapidly and reproducibly alters the human gut microbiome

(2013) Lawrence A. David et al.   NATURE

Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences

(2013) Morgan G I Langille et al.   NATURE BIOTECHNOLOGY

Gut Microbiomes of Malawian Twin Pairs Discordant for Kwashiorkor

(2013) M. I. Smith et al.   SCIENCE

Reconstructing the Genomic Content of Microbiome Taxa through Shotgun Metagenomic Deconvolution

(2013) Rogan Carr et al.   PLoS Computational Biology

Temporal shifts in the skin microbiome associated with disease flares and treatment in children with atopic dermatitis

(2012) H. H. Kong et al.   GENOME RESEARCH

Divergent metabolic outcomes arising from targeted manipulation of the gut microbiota in diet-induced obesity

(2012) Eileen F Murphy et al.   GUT

Structure, function and diversity of the healthy human microbiome

(2012)   NATURE

A Metagenomic Approach to Characterization of the Vaginal Microbiome Signature in Pregnancy

(2012) Kjersti Aagaard et al.   PLoS One

Multifunctionality and Diversity in Bacterial Biofilms

(2011) Hannes Peter et al.   PLoS One

Genetic Co-Occurrence Network across Sequenced Microbes

(2011) Pan-Jun Kim et al.   PLoS Computational Biology

A human gut microbial gene catalogue established by metagenomic sequencing

(2010) Junjie Qin et al.   NATURE

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Microbial community profiling for human microbiome projects: Tools, techniques, and challenges

(2009) M. Hamady et al.   GENOME RESEARCH

Exploring protein fitness landscapes by directed evolution

(2009) Philip A. Romero et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Rules of Engagement: Interspecies Interactions that Regulate Microbial Communities

(2008) Ainslie E.F. Little et al.   Annual Review of Microbiology

MULTIPLE FUNCTIONS INCREASE THE IMPORTANCE OF BIODIVERSITY FOR OVERALL ECOSYSTEM FUNCTIONING

(2008) Lars Gamfeldt et al.   ECOLOGY

Design principles of biochemical oscillators

(2008) Béla Novák et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY