Composition and diversity of mucosa-associated microbiota along the entire length of the pig gastrointestinal tract; dietary influences

The microbiome and innate immunity

(2016) Christoph A. Thaiss et al.   NATURE

Low calorie sweeteners and gut microbiota

(2016) Kristian Daly et al.   PHYSIOLOGY & BEHAVIOR

Reduction of Thermotolerant Campylobacter Species on Broiler Carcasses following Physical Decontamination at Slaughter

(2016) LOUISE BOYSEN et al.   JOURNAL OF FOOD PROTECTION

Biogeography of the Intestinal Mucosal and Lumenal Microbiome in the Rhesus Macaque

(2015) Koji Yasuda et al.   Cell Host & Microbe

The Role of Microbiota on the Gut Immunology

(2015) Yang Won Min et al.   CLINICAL THERAPEUTICS

Motility in the epsilon-proteobacteria

(2015) Morgan Beeby   CURRENT OPINION IN MICROBIOLOGY

Bacterial sensing underlies artificial sweetener-induced growth of gutLactobacillus

(2015) Kristian Daly et al.   ENVIRONMENTAL MICROBIOLOGY

Species shift and multidrug resistance ofCampylobacterfrom chicken and swine, China, 2008–14

(2015) Yang Wang et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Gut/brain axis and the microbiota

(2015) Emeran A. Mayer et al.   JOURNAL OF CLINICAL INVESTIGATION

Prevalence of Campylobacter spp. in Retail Chicken, Turkey, Pork, and Beef Meat in Poland between 2009 and 2013

(2015) DOROTA KORSAK et al.   JOURNAL OF FOOD PROTECTION

Microbiota and the gut–brain axis

(2015) John Bienenstock et al.   NUTRITION REVIEWS

The Dynamic Distribution of Porcine Microbiota across Different Ages and Gastrointestinal Tract Segments

(2015) Wenjing Zhao et al.   PLoS One

MPAgenomics: an R package for multi-patient analysis of genomic markers

(2014) Quentin Grimonprez et al.   BMC BIOINFORMATICS

Correlation Between Intraluminal Oxygen Gradient and Radial Partitioning of Intestinal Microbiota

(2014) Lindsey Albenberg et al.   GASTROENTEROLOGY

Bacteria, phages and pigs: the effects of in-feed antibiotics on the microbiome at different gut locations

(2014) Torey Looft et al.   ISME Journal

Hibernation alters the diversity and composition of mucosa-associated bacteria while enhancing antimicrobial defence in the gut of 13-lined ground squirrels

(2014) Kimberly A. Dill-McFarland et al.   MOLECULAR ECOLOGY

Mucosa-Associated Bacterial Microbiome of the Gastrointestinal Tract of Weaned Pigs and Dynamics Linked to Dietary Calcium-Phosphorus

(2014) Evelyne Mann et al.   PLoS One

Intestinal events and nutritional dynamics predispose Clostridium perfringens virulence in broilers1

(2014) Edwin T. Moran   POULTRY SCIENCE

Interaction between Campylobacter and intestinal epithelial cells leads to a different proinflammatory response in human and porcine host

(2014) Carmen Aguilar et al.   VETERINARY IMMUNOLOGY AND IMMUNOPATHOLOGY

Prevalence of Campylobacter spp. relative to other enteric pathogens in grow-finish pigs with diarrhea

(2013) Eric Burrough et al.   ANAEROBE

Aquacultured Rainbow Trout (Oncorhynchus mykiss) Possess a Large Core Intestinal Microbiota That Is Resistant to Variation in Diet and Rearing Density

(2013) S. Wong et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Divergent Mechanisms of Interaction of Helicobacter pylori and Campylobacter jejuni with Mucus and Mucins

(2013) Julie Ann Naughton et al.   INFECTION AND IMMUNITY

The core faecal bacterial microbiome of Irish Thoroughbred racehorses

(2013) M.M. O' Donnell et al.   LETTERS IN APPLIED MICROBIOLOGY

phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data

(2013) Paul J. McMurdie et al.   PLoS One

The human small intestinal microbiota is driven by rapid uptake and conversion of simple carbohydrates

(2012) Erwin G Zoetendal et al.   ISME Journal

Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms

(2012) J Gregory Caporaso et al.   ISME Journal

Genotypes and Antibiotic Resistances of Campylobacter jejuni and Campylobacter coli Isolates from Domestic and Travel-Associated Human Cases

(2011) Lilian Niederer et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

FLASH: fast length adjustment of short reads to improve genome assemblies

(2011) T. Magoc et al.   BIOINFORMATICS

Evidence for a core gut microbiota in the zebrafish

(2011) Guus Roeselers et al.   ISME Journal

Paneth cells, antimicrobial peptides and maintenance of intestinal homeostasis

(2011) Charles L. Bevins et al.   NATURE REVIEWS MICROBIOLOGY

Mucin dynamics and enteric pathogens

(2011) Michael A. McGuckin et al.   NATURE REVIEWS MICROBIOLOGY

Bacterial biogeography of the human digestive tract

(2011) Jennifer C. Stearns et al.   Scientific Reports

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Breathing life into pathogens: the influence of oxygen on bacterial virulence and host responses in the gastrointestinal tract

(2010) Benoit Marteyn et al.   CELLULAR MICROBIOLOGY

Acquisition, Evolution and Maintenance of the Normal Gut Microbiota

(2010) G.T. Macfarlane et al.   DIGESTIVE DISEASES

Spatial organization of intestinal microbiota in the mouse ascending colon

(2010) Gerardo M Nava et al.   ISME Journal

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

PyNAST: a flexible tool for aligning sequences to a template alignment

(2009) J. G. Caporaso et al.   BIOINFORMATICS

Better living through microbial action: the benefits of the mammalian gastrointestinal microbiota on the host

(2009) Thomas D. Leser et al.   ENVIRONMENTAL MICROBIOLOGY

Towards the human intestinal microbiota phylogenetic core

(2009) Julien Tap et al.   ENVIRONMENTAL MICROBIOLOGY

FastTree: Computing Large Minimum Evolution Trees with Profiles instead of a Distance Matrix

(2009) M. N. Price et al.   MOLECULAR BIOLOGY AND EVOLUTION

Statistical Methods for Detecting Differentially Abundant Features in Clinical Metagenomic Samples

(2009) James Robert White et al.   PLoS Computational Biology

Effects of sweeteners on individual feed intake characteristics and performance in group-housed weanling pigs1

(2008) A. Sterk et al.   JOURNAL OF ANIMAL SCIENCE

A core gut microbiome in obese and lean twins

(2008) Peter J. Turnbaugh et al.   NATURE

The Ribosomal Database Project: improved alignments and new tools for rRNA analysis

(2008) J. R. Cole et al.   NUCLEIC ACIDS RESEARCH

The inner of the two Muc2 mucin-dependent mucus layers in colon is devoid of bacteria

(2008) M. E. V. Johansson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA