Caloric restriction promotes functional changes involving short-chain fatty acid biosynthesis in the rat gut microbiota

One-year calorie restriction impacts gut microbial composition but not its metabolic performance in obese adolescents

(2017) Alicia Ruiz et al.   ENVIRONMENTAL MICROBIOLOGY

Short Term High Fat Diet Induces Obesity-Enhancing Changes in Mouse Gut Microbiota That are Partially Reversed by Cessation of the High Fat Diet

(2017) Yue Shang et al.   LIPIDS

MicrobiomeAnalyst: a web-based tool for comprehensive statistical, visual and meta-analysis of microbiome data

(2017) Achal Dhariwal et al.   NUCLEIC ACIDS RESEARCH

Caloric restriction delays early phases of carcinogenesis via effects on the tissue microenvironment

(2017) Erika Cadoni et al.   Oncotarget

Metaproteogenomics Reveals Taxonomic and Functional Changes between Cecal and Fecal Microbiota in Mouse

(2017) Alessandro Tanca et al.   Frontiers in Microbiology

Effect of a long-term high-protein diet on survival, obesity development, and gut microbiota in mice

(2016) Pia Kiilerich et al.   AMERICAN JOURNAL OF PHYSIOLOGY-ENDOCRINOLOGY AND METABOLISM

Influence of osmotic stress on the profile and gene expression of surface layer proteins in Lactobacillus acidophilus ATCC 4356

(2016) María Mercedes Palomino et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Time-course microarray analysis for identifying candidate genes involved in obesity-associated pathological changes in the mouse colon

(2016) Yun Jung Bae et al.   Genes and Nutrition

S-layer proteins from Lactobacillus sp . inhibit bacterial infection by blockage of DC-SIGN cell receptor

(2016) Mariano Prado Acosta et al.   INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES

Metabolomics Insights into the Modulatory Effects of Long-Term Low Calorie Intake in Mice

(2016) Junfang Wu et al.   JOURNAL OF PROTEOME RESEARCH

Acetate mediates a microbiome–brain–β-cell axis to promote metabolic syndrome

(2016) Rachel J. Perry et al.   NATURE

Diet–microbiota interactions as moderators of human metabolism

(2016) Justin L. Sonnenburg et al.   NATURE

Effects of different diets on intestinal microbiota and nonalcoholic fatty liver disease development

(2016) Jian-Ping Liu et al.   WORLD JOURNAL OF GASTROENTEROLOGY

MEGAN Community Edition - Interactive Exploration and Analysis of Large-Scale Microbiome Sequencing Data

(2016) Daniel H. Huson et al.   PLoS Computational Biology

The impact of sequence database choice on metaproteomic results in gut microbiota studies

(2016) Alessandro Tanca et al.   Microbiome

Time-course microarray analysis for identifying candidate genes involved in obesity-associated pathological changes in the mouse colon

(2016) Yun Jung Bae et al.   Genes and Nutrition

Keratins Are Altered in Intestinal Disease-Related Stress Responses

(2016) Terhi Helenius et al.   Cells

Promoting Health and Longevity through Diet: From Model Organisms to Humans

(2015) Luigi Fontana et al.   CELL

KEGG as a reference resource for gene and protein annotation

(2015) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

ClustVis: a web tool for visualizing clustering of multivariate data using Principal Component Analysis and heatmap

(2015) Tauno Metsalu et al.   NUCLEIC ACIDS RESEARCH

2016 update of the PRIDE database and its related tools

(2015) Juan Antonio Vizcaíno et al.   NUCLEIC ACIDS RESEARCH

Enrichment or depletion? The impact of stool pretreatment on metaproteomic characterization of the human gut microbiota

(2015) Alessandro Tanca et al.   PROTEOMICS

The role of flagella in Clostridium difficile pathogenicity

(2015) Emma Stevenson et al.   TRENDS IN MICROBIOLOGY

Acetate Dependence of Tumors

(2014) Sarah A. Comerford et al.   CELL

Effects of targeted delivery of propionate to the human colon on appetite regulation, body weight maintenance and adiposity in overweight adults

(2014) Edward S Chambers et al.   GUT

Fast and sensitive protein alignment using DIAMOND

(2014) Benjamin Buchfink et al.   NATURE METHODS

The Flagellin FliC of Clostridium difficile Is Responsible for Pleiotropic Gene Regulation during In Vivo Infection

(2014) Amira Barketi-Klai et al.   PLoS One

The Impact of Diet and Lifestyle on Gut Microbiota and Human Health

(2014) Michael Conlon et al.   Nutrients

A straightforward and efficient analytical pipeline for metaproteome characterization

(2014) Alessandro Tanca et al.   Microbiome

New insight into the structure, reaction mechanism, and biological functions of neutral ceramidase

(2013) Makoto Ito et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR AND CELL BIOLOGY OF LIPIDS

High-Fat Diet Induces Dynamic Metabolic Alterations in Multiple Biological Matrices of Rats

(2013) Yanpeng An et al.   JOURNAL OF PROTEOME RESEARCH

Metaproteomics of our microbiome — Developing insight in function and activity in man and model systems

(2013) Carolin A. Kolmeder et al.   Journal of Proteomics

Diet rapidly and reproducibly alters the human gut microbiome

(2013) Lawrence A. David et al.   NATURE

Count-based differential expression analysis of RNA sequencing data using R and Bioconductor

(2013) Simon Anders et al.   Nature Protocols

Comparison of detergent-based sample preparation workflows for LTQ-Orbitrap analysis of theEscherichia coliproteome

(2013) Alessandro Tanca et al.   PROTEOMICS

Differences in gut microbiota composition between obese and lean children: a cross-sectional study

(2013) Liene Bervoets et al.   Gut Pathogens

1H NMR-based metabolite profiling of diet-induced obesity in a mouse mode

(2012) Jee-Youn Jung et al.   BMB Reports

Microbiota from the distal guts of lean and obese adolescents exhibit partial functional redundancy besides clear differences in community structure

(2012) Manuel Ferrer et al.   ENVIRONMENTAL MICROBIOLOGY

How glycan metabolism shapes the human gut microbiota

(2012) Nicole M. Koropatkin et al.   NATURE REVIEWS MICROBIOLOGY

The influence of diet on the gut microbiota

(2012) Karen P. Scott et al.   PHARMACOLOGICAL RESEARCH

Dietary Restriction during Development Enlarges Intestinal and Hypodermal Lipid Droplets in Caenorhabditis elegans

(2012) Daniela Palgunow et al.   PLoS One

Caloric Restriction and Antiaging Effects

(2011) Lan Xiang et al.   ANNALS OF NUTRITION AND METABOLISM

The Microbiome and Butyrate Regulate Energy Metabolism and Autophagy in the Mammalian Colon

(2011) Dallas R. Donohoe et al.   Cell Metabolism

Linking Long-Term Dietary Patterns with Gut Microbial Enterotypes

(2011) G. D. Wu et al.   SCIENCE

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

Universal sample preparation method for proteome analysis

(2009) Jacek R Wiśniewski et al.   NATURE METHODS

Microbiota and SCFA in Lean and Overweight Healthy Subjects

(2009) Andreas Schwiertz et al.   Obesity