Colonization and Succession within the Human Gut Microbiome by Archaea, Bacteria, and Microeukaryotes during the First Year of Life

Parkinson's disease and Parkinson's disease medications have distinct signatures of the gut microbiome

(2017) Erin M. Hill-Burns et al.   MOVEMENT DISORDERS

At what age does the risk for adverse maternal and infant outcomes increase? Nationwide register-based study on first births in Finland in 2005-2014

(2016) Reija Klemetti et al.   ACTA OBSTETRICIA ET GYNECOLOGICA SCANDINAVICA

The mode of delivery affects the diversity and colonization pattern of the gut microbiota during the first year of infants' life: a systematic review

(2016) Erigene Rutayisire et al.   BMC GASTROENTEROLOGY

Got worms? Perinatal exposure to helminths prevents persistent immune sensitization and cognitive dysfunction induced by early-life infection

(2016) Lauren L. Williamson et al.   BRAIN BEHAVIOR AND IMMUNITY

The human gut microbiome in health: establishment and resilience of microbiota over a lifetime

(2016) Kacy Greenhalgh et al.   ENVIRONMENTAL MICROBIOLOGY

An integrated metagenomics pipeline for strain profiling reveals novel patterns of bacterial transmission and biogeography

(2016) Stephen Nayfach et al.   GENOME RESEARCH

Looking for a Signal in the Noise: Revisiting Obesity and the Microbiome

(2016) Marc A. Sze et al.   mBio

Diversity of Pico- to Mesoplankton along the 2000 km Salinity Gradient of the Baltic Sea

(2016) Yue O. O. Hu et al.   Frontiers in Microbiology

Impact of the Chromatin Remodeling Factor CHD1 on Gut Microbiome Composition of Drosophila melanogaster

(2016) Johanna Sebald et al.   PLoS One

Dynamics and Stabilization of the Human Gut Microbiome during the First Year of Life

(2015) Fredrik Bäckhed et al.   Cell Host & Microbe

Gut microorganisms as promising targets for the management of type 2 diabetes

(2015) Nathalie M. Delzenne et al.   DIABETOLOGIA

Why Is Initial Bacterial Colonization of the Intestine Important to Infantsʼ and Childrenʼs Health?

(2015) Pearl D. Houghteling et al.   JOURNAL OF PEDIATRIC GASTROENTEROLOGY AND NUTRITION

The human gut mycobiome: pitfalls and potentials--a mycologists perspective

(2015) M. J. Suhr et al.   MYCOLOGIA

Obesity changes the human gut mycobiome

(2015) M. Mar Rodríguez et al.   Scientific Reports

16S rRNA gene-based profiling of the human infant gut microbiota is strongly influenced by sample processing and PCR primer choice

(2015) Alan W. Walker et al.   Microbiome

Deriving accurate microbiota profiles from human samples with low bacterial content through post-sequencing processing of Illumina MiSeq data

(2015) Jake Jervis-Bardy et al.   Microbiome

First-Pass Meconium Samples from Healthy Term Vaginally-Delivered Neonates: An Analysis of the Microbiota

(2015) Richard Hansen et al.   PLoS One

DegePrime, a Program for Degenerate Primer Design for Broad-Taxonomic-Range PCR in Microbial Ecology Studies

(2014) Luisa W. Hugerth et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Reagent and laboratory contamination can critically impact sequence-based microbiome analyses

(2014) Susannah J Salter et al.   BMC BIOLOGY

Altering the Intestinal Microbiota during a Critical Developmental Window Has Lasting Metabolic Consequences

(2014) Laura M. Cox et al.   CELL

Richness and diversity of mammalian fungal communities shape innate and adaptive immunity in health and disease

(2014) Lisa Rizzetto et al.   EUROPEAN JOURNAL OF IMMUNOLOGY

The microbial eukaryoteBlastocystisis a prevalent and diverse member of the healthy human gut microbiota

(2014) Pauline D. Scanlan et al.   FEMS MICROBIOLOGY ECOLOGY

Prenatal exposure to antibiotics, cesarean section and risk of childhood obesity

(2014) N T Mueller et al.   INTERNATIONAL JOURNAL OF OBESITY

Meconium Microbiome Analysis Identifies Bacteria Correlated with Premature Birth

(2014) Alexandria N. Ardissone et al.   PLoS One

Systematic Design of 18S rRNA Gene Primers for Determining Eukaryotic Diversity in Microbial Consortia

(2014) Luisa W. Hugerth et al.   PLoS One

Patterned progression of bacterial populations in the premature infant gut

(2014) P. S. La Rosa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Varying gestational age patterns in cesarean delivery: an international comparison

(2014) Marie Delnord et al.   BMC Pregnancy and Childbirth

Maternal obesity and its relation with the cesarean section: A hospital based cross sectional study in Iraq

(2014) Waqar Al-Kubaisy et al.   BMC Pregnancy and Childbirth

The Intestinal Microbiome in Early Life: Health and Disease

(2014) Marie-Claire Arrieta et al.   Frontiers in Immunology

LotuS: an efficient and user-friendly OTU processing pipeline

(2014) Falk Hildebrand et al.   Microbiome

Development of a Dual-Index Sequencing Strategy and Curation Pipeline for Analyzing Amplicon Sequence Data on the MiSeq Illumina Sequencing Platform

(2013) James J. Kozich et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The individual-specific and diverse nature of the preterm infant microbiota

(2013) Eoin Barrett et al.   Archives of Disease in Childhood-Fetal and Neonatal Edition

The Gut Microbiotassay: a high-throughput qPCR approach combinable with next generation sequencing to study gut microbial diversity

(2013) Marie Hermann-Bank et al.   BMC GENOMICS

Low gut microbiota diversity in early infancy precedes asthma at school age

(2013) T. R. Abrahamsson et al.   CLINICAL AND EXPERIMENTAL ALLERGY

Decreased gut microbiota diversity, delayed Bacteroidetes colonisation and reduced Th1 responses in infants delivered by Caesarean section

(2013) Hedvig E Jakobsson et al.   GUT

Waiting for the human intestinal Eukaryotome

(2013) Lee O'Brien Andersen et al.   ISME Journal

Archaea on Human Skin

(2013) Alexander J. Probst et al.   PLoS One

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

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

Fungi of the Murine Gut: Episodic Variation and Proliferation during Antibiotic Treatment

(2013) Serena Dollive et al.   PLoS One

A Guide to Enterotypes across the Human Body: Meta-Analysis of Microbial Community Structures in Human Microbiome Datasets

(2013) Omry Koren et al.   PLoS Computational Biology

Cohabiting family members share microbiota with one another and with their dogs

(2013) Se Jin Song et al.   eLife

The human milk microbiome changes over lactation and is shaped by maternal weight and mode of delivery

(2012) Raul Cabrera-Rubio et al.   AMERICAN JOURNAL OF CLINICAL NUTRITION

Methanogenic archaea in subgingival sites: a review

(2012) Tung Nguyen-Hieu et al.   APMIS

Meconium microbiota types dominated by lactic acid or enteric bacteria are differentially associated with maternal eczema and respiratory problems in infants

(2012) M. J. Gosalbes et al.   CLINICAL AND EXPERIMENTAL ALLERGY

Transfer of Intestinal Microbiota From Lean Donors Increases Insulin Sensitivity in Individuals With Metabolic Syndrome

(2012) Anne Vrieze et al.   GASTROENTEROLOGY

The principal fucosylated oligosaccharides of human milk exhibit prebiotic properties on cultured infant microbiota

(2012) Zhuo-Teng Yu et al.   GLYCOBIOLOGY

Molecular typing of fecal eukaryotic microbiota of human infants and their respective mothers

(2012) Prashant K Pandey et al.   JOURNAL OF BIOSCIENCES

The worm returns

(2012) Joel V. Weinstock   NATURE

Human gut microbiome viewed across age and geography

(2012) Tanya Yatsunenko et al.   NATURE

The Protist Ribosomal Reference database (PR2): a catalog of unicellular eukaryote Small Sub-Unit rRNA sequences with curated taxonomy

(2012) Laure Guillou et al.   NUCLEIC ACIDS RESEARCH

Patterns of Early Gut Colonization Shape Future Immune Responses of the Host

(2012) Camilla Hartmann Friis Hansen et al.   PLoS One

Molecular Detection of Eukaryotes in a Single Human Stool Sample from Senegal

(2012) Ibrahim Hamad et al.   PLoS One

Microbial Exposure During Early Life Has Persistent Effects on Natural Killer T Cell Function

(2012) T. Olszak et al.   SCIENCE

Which sequencing depth is sufficient to describe patterns in bacterial α- and β-diversity?

(2012) Daniel Lundin et al.   Environmental Microbiology Reports

Effect of Breast and Formula Feeding on Gut Microbiota Shaping in Newborns

(2012) Federica Guaraldi et al.   Frontiers in Cellular and Infection Microbiology

Establishment and development of intestinal microbiota in preterm neonates

(2011) Silvia Arboleya et al.   FEMS MICROBIOLOGY ECOLOGY

Transitions in bacterial communities along the 2000 km salinity gradient of the Baltic Sea

(2011) Daniel PR Herlemann et al.   ISME Journal

Low diversity of the gut microbiota in infants with atopic eczema

(2011) Thomas R. Abrahamsson et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Improvement of phylum- and class-specific primers for real-time PCR quantification of bacterial taxa

(2011) Tristano Bacchetti De Gregoris et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Determinants of the human infant intestinal microbiota after the introduction of first complementary foods in infant samples from five European centres

(2011) M. Fallani et al.   MICROBIOLOGY-SGM

Barcoded Pyrosequencing Reveals That Consumption of Galactooligosaccharides Results in a Highly Specific Bifidogenic Response in Humans

(2011) Lauren M. G. Davis et al.   PLoS One

Pan-genome of the dominant human gut-associated archaeon, Methanobrevibacter smithii, studied in twins

(2011) E. E. Hansen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Role of Methane in Intestinal Diseases

(2010) Davide Roccarina et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

The Epidemiology of Obesity

(2010) Dang M. Nguyen et al.   GASTROENTEROLOGY CLINICS OF NORTH AMERICA

Breast- v. formula-feeding: impacts on the digestive tract and immediate and long-term health effects

(2010) Isabelle Le Huërou-Luron et al.   NUTRITION RESEARCH REVIEWS

Human milk glycobiome and its impact on the infant gastrointestinal microbiota

(2010) A. M. Zivkovic et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Succession of microbial consortia in the developing infant gut microbiome

(2010) J. E. Koenig et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Delivery mode shapes the acquisition and structure of the initial microbiota across multiple body habitats in newborns

(2010) M. G. Dominguez-Bello et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Changes in gut microbiota control inflammation in obese mice through a mechanism involving GLP-2-driven improvement of gut permeability

(2009) P. D. Cani et al.   GUT

The development of intestinal lymphoid tissues at the interface of self and microbiota

(2009) G Eberl et al.   Mucosal Immunology

Vertical and Horizontal Transmission of Candida albicans in Very Low Birth Weight Infants Using DNA Fingerprinting Techniques

(2009) Joseph M. Bliss et al.   PEDIATRIC INFECTIOUS DISEASE JOURNAL

High Prevalence of Methanobrevibacter smithii and Methanosphaera stadtmanae Detected in the Human Gut Using an Improved DNA Detection Protocol

(2009) Bédis Dridi et al.   PLoS One

Antibiotic-Induced Perturbations of the Intestinal Microbiota Alter Host Susceptibility to Enteric Infection

(2008) I. Sekirov et al.   INFECTION AND IMMUNITY

Micro-eukaryotic diversity of the human distal gut microbiota: qualitative assessment using culture-dependent and -independent analysis of faeces

(2008) Pauline D Scanlan et al.   ISME Journal

Methanogenic archaea: ecologically relevant differences in energy conservation

(2008) Rudolf K. Thauer et al.   NATURE REVIEWS MICROBIOLOGY

Is meconium from healthy newborns actually sterile?

(2008) Esther Jiménez et al.   RESEARCH IN MICROBIOLOGY

Fungi and inflammatory bowel diseases: Alterations of composition and diversity

(2008) Stephan J. Ott et al.   SCANDINAVIAN JOURNAL OF GASTROENTEROLOGY