Diversity, stability and resilience of the human gut microbiota.

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Immunoglobulin A coating identifies colitogenic bacteria in inflammatory bowel disease. Cell (2014) 4.25

Role of the microbiota in immunity and inflammation. Cell (2014) 3.43

Diet-induced extinctions in the gut microbiota compound over generations. Nature (2016) 3.13

Sequencing ancient calcified dental plaque shows changes in oral microbiota with dietary shifts of the Neolithic and Industrial revolutions. Nat Genet (2013) 3.03

Antibiotic treatment expands the resistance reservoir and ecological network of the phage metagenome. Nature (2013) 3.02

Stool consistency is strongly associated with gut microbiota richness and composition, enterotypes and bacterial growth rates. Gut (2015) 2.99

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Type VI secretion system effectors: poisons with a purpose. Nat Rev Microbiol (2014) 2.43

Meta-analyses of studies of the human microbiota. Genome Res (2013) 2.35

The composition and stability of the vaginal microbiota of normal pregnant women is different from that of non-pregnant women. Microbiome (2014) 2.24

Culturing of 'unculturable' human microbiota reveals novel taxa and extensive sporulation. Nature (2016) 2.17

Ecological modeling from time-series inference: insight into dynamics and stability of intestinal microbiota. PLoS Comput Biol (2013) 2.16

Systems genetics approaches to understand complex traits. Nat Rev Genet (2013) 1.97

Inflammation-associated enterotypes, host genotype, cage and inter-individual effects drive gut microbiota variation in common laboratory mice. Genome Biol (2013) 1.97

Increasing homogeneity in global food supplies and the implications for food security. Proc Natl Acad Sci U S A (2014) 1.95

The intestinal microbiome in early life: health and disease. Front Immunol (2014) 1.90

Patterns and processes of microbial community assembly. Microbiol Mol Biol Rev (2013) 1.80

Robustness of gut microbiota of healthy adults in response to probiotic intervention revealed by high-throughput pyrosequencing. DNA Res (2013) 1.78

Evolutionary consequences of intra-patient phage predation on microbial populations. Elife (2014) 1.78

Alterations in the gut microbiota associated with HIV-1 infection. Cell Host Microbe (2013) 1.66

Sewage reflects the microbiomes of human populations. MBio (2015) 1.64

Compartmentalized and systemic control of tissue immunity by commensals. Nat Immunol (2013) 1.60

The inconstant gut microbiota of Drosophila species revealed by 16S rRNA gene analysis. ISME J (2013) 1.58

Resident viruses and their interactions with the immune system. Nat Immunol (2013) 1.58

The contributory role of gut microbiota in cardiovascular disease. J Clin Invest (2014) 1.57

Crosstalk between Microbiota-Derived Short-Chain Fatty Acids and Intestinal Epithelial HIF Augments Tissue Barrier Function. Cell Host Microbe (2015) 1.54

Exploring host-microbiota interactions in animal models and humans. Genes Dev (2013) 1.51

Interspecies interactions determine the impact of the gut microbiota on nutrient allocation in Drosophila melanogaster. Appl Environ Microbiol (2013) 1.48

Quantitative divergence of the bacterial root microbiota in Arabidopsis thaliana relatives. Proc Natl Acad Sci U S A (2013) 1.47

Microbial genomic analysis reveals the essential role of inflammation in bacteria-induced colorectal cancer. Nat Commun (2014) 1.47

Conducting a microbiome study. Cell (2014) 1.46

Intestinal Dysbiosis, Barrier Dysfunction, and Bacterial Translocation Account for CKD-Related Systemic Inflammation. J Am Soc Nephrol (2016) 1.42

Changes in bacterial community composition of Escherichia coli O157:H7 super-shedder cattle occur in the lower intestine. PLoS One (2017) 1.40

Interplay between microbial d-amino acids and host d-amino acid oxidase modifies murine mucosal defence and gut microbiota. Nat Microbiol (2016) 1.40

The impact of diet and lifestyle on gut microbiota and human health. Nutrients (2014) 1.40

Metabolic resource allocation in individual microbes determines ecosystem interactions and spatial dynamics. Cell Rep (2014) 1.39

Snapshot on a Pilot Metagenomic Study for the Appraisal of Gut Microbial Diversity in Mice, Cat, and Man. Gastroenterol Res Pract (2016) 1.39

Stool microbiota and vaccine responses of infants. Pediatrics (2014) 1.37

Helminth colonization is associated with increased diversity of the gut microbiota. PLoS Negl Trop Dis (2014) 1.35

The first 1000 cultured species of the human gastrointestinal microbiota. FEMS Microbiol Rev (2014) 1.34

Diet and feeding pattern affect the diurnal dynamics of the gut microbiome. Cell Metab (2014) 1.34

The gut microbiome in health and in disease. Curr Opin Gastroenterol (2015) 1.33

The composition of the gut microbiota throughout life, with an emphasis on early life. Microb Ecol Health Dis (2015) 1.33

Diet and the intestinal microbiome: associations, functions, and implications for health and disease. Gastroenterology (2014) 1.33

Diversity in gut bacterial community of school-age children in Asia. Sci Rep (2015) 1.33

The gut microbial endocrine organ: bacterially derived signals driving cardiometabolic diseases. Annu Rev Med (2015) 1.33

Long-term temporal analysis of the human fecal microbiota revealed a stable core of dominant bacterial species. PLoS One (2013) 1.31

A type VI secretion-related pathway in Bacteroidetes mediates interbacterial antagonism. Cell Host Microbe (2014) 1.30

Modification of intestinal microbiota and its consequences for innate immune response in the pathogenesis of campylobacteriosis. Clin Dev Immunol (2013) 1.29

A single genus in the gut microbiome reflects host preference and specificity. ISME J (2014) 1.28

Comparative meta-RNA-seq of the vaginal microbiota and differential expression by Lactobacillus iners in health and dysbiosis. Microbiome (2013) 1.28

The microbiome: stress, health and disease. Mamm Genome (2013) 1.24

Parallel exploitation of diverse host nutrients enhances Salmonella virulence. PLoS Pathog (2013) 1.24

Antibiotics, birth mode, and diet shape microbiome maturation during early life. Sci Transl Med (2016) 1.23

Reparative inflammation takes charge of tissue regeneration. Nature (2016) 1.21

Dietary effects on human gut microbiome diversity. Br J Nutr (2014) 1.21

Inflammation and Nutritional Science for Programs/Policies and Interpretation of Research Evidence (INSPIRE). J Nutr (2015) 1.20

Intestinal microbiota in health and disease: role of bifidobacteria in gut homeostasis. World J Gastroenterol (2014) 1.19

Regulation of the immune system by the resident intestinal bacteria. Gastroenterology (2014) 1.19

Evaluating variation in human gut microbiota profiles due to DNA extraction method and inter-subject differences. Front Microbiol (2015) 1.17

Sewage reflects the distribution of human faecal Lachnospiraceae. Environ Microbiol (2013) 1.17

Antimicrobial peptides and gut microbiota in homeostasis and pathology. EMBO Mol Med (2013) 1.17

Expansion of urease- and uricase-containing, indole- and p-cresol-forming and contraction of short-chain fatty acid-producing intestinal microbiota in ESRD. Am J Nephrol (2014) 1.16

Breast-fed and bottle-fed infant rhesus macaques develop distinct gut microbiotas and immune systems. Sci Transl Med (2014) 1.16

Alterations of the human gut microbiome in multiple sclerosis. Nat Commun (2016) 1.15

Carnitine metabolism to trimethylamine by an unusual Rieske-type oxygenase from human microbiota. Proc Natl Acad Sci U S A (2014) 1.13

Average genome size estimation improves comparative metagenomics and sheds light on the functional ecology of the human microbiome. Genome Biol (2015) 1.13

Cocoa polyphenols and inflammatory markers of cardiovascular disease. Nutrients (2014) 1.12

A gnotobiotic mouse model demonstrates that dietary fiber protects against colorectal tumorigenesis in a microbiota- and butyrate-dependent manner. Cancer Discov (2014) 1.10

Getting started with microbiome analysis: sample acquisition to bioinformatics. Curr Protoc Hum Genet (2014) 1.09

Gastrointestinal malignancy and the microbiome. Gastroenterology (2014) 1.07

Universality of human microbial dynamics. Nature (2016) 1.07

Blastocystis is associated with decrease of fecal microbiota protective bacteria: comparative analysis between patients with irritable bowel syndrome and control subjects. PLoS One (2014) 1.06

The Gordian Knot of dysbiosis, obesity and NAFLD. Nat Rev Gastroenterol Hepatol (2013) 1.06

Breaking down the barriers: the gut microbiome, intestinal permeability and stress-related psychiatric disorders. Front Cell Neurosci (2015) 1.06

Dysbiosis in inflammatory bowel diseases: the oxygen hypothesis. ISME J (2013) 1.06

Experimental approaches for defining functional roles of microbes in the human gut. Annu Rev Microbiol (2013) 1.06

In vivo function and comparative genomic analyses of the Drosophila gut microbiota identify candidate symbiosis factors. Front Microbiol (2014) 1.05

The prevalence of species and strains in the human microbiome: a resource for experimental efforts. PLoS One (2014) 1.05

Probiotic use decreases intestinal inflammation and increases bone density in healthy male but not female mice. J Cell Physiol (2013) 1.04

Characteristics of fecal and mucosa-associated microbiota in Chinese patients with inflammatory bowel disease. Medicine (Baltimore) (2014) 1.03

Low-dose aspartame consumption differentially affects gut microbiota-host metabolic interactions in the diet-induced obese rat. PLoS One (2014) 1.03

Role of antilipopolysaccharide antibodies in serum bactericidal activity against Salmonella enterica serovar Typhimurium in healthy adults and children in the United States. Clin Vaccine Immunol (2013) 1.03

The dynamic distribution of porcine microbiota across different ages and gastrointestinal tract segments. PLoS One (2015) 1.03

Resistant starch diet induces change in the swine microbiome and a predominance of beneficial bacterial populations. Microbiome (2015) 1.01

The oral microbiome and the immunobiology of periodontal disease and caries. Immunol Lett (2014) 1.01

Evaluation of serum-derived bovine immunoglobulin protein isolate in subjects with diarrhea-predominant irritable bowel syndrome. Clin Med Insights Gastroenterol (2013) 1.01

Genomics: A gut prediction. Nature (2013) 1.01

Targeting the microbiota to address diet-induced obesity: a time dependent challenge. PLoS One (2013) 1.01

Global research priorities for infections that affect the nervous system. Nature (2015) 1.01

Immune homeostasis, dysbiosis and therapeutic modulation of the gut microbiota. Clin Exp Immunol (2015) 1.00

Gut microbiota signatures predict host and microbiota responses to dietary interventions in obese individuals. PLoS One (2014) 1.00

Microbial activities and intestinal homeostasis: A delicate balance between health and disease. Cell Mol Gastroenterol Hepatol (2015) 1.00

The dormant blood microbiome in chronic, inflammatory diseases. FEMS Microbiol Rev (2015) 0.99

Diagnostic metagenomics: potential applications to bacterial, viral and parasitic infections. Parasitology (2014) 0.99

Changes in vaginal microbiota following antimicrobial and probiotic therapy. Microb Ecol Health Dis (2015) 0.99

Functional dynamics of the gut microbiome in elderly people during probiotic consumption. MBio (2015) 0.99

A core gut microbiome in obese and lean twins. Nature (2008) 52.30

Diversity of the human intestinal microbial flora. Science (2005) 49.64

An obesity-associated gut microbiome with increased capacity for energy harvest. Nature (2006) 44.35

A human gut microbial gene catalogue established by metagenomic sequencing. Nature (2010) 43.63

Microbial ecology: human gut microbes associated with obesity. Nature (2006) 36.98

Structure, function and diversity of the healthy human microbiome. Nature (2012) 30.40

Bacterial community variation in human body habitats across space and time. Science (2009) 24.84

Enterotypes of the human gut microbiome. Nature (2011) 24.36

Molecular-phylogenetic characterization of microbial community imbalances in human inflammatory bowel diseases. Proc Natl Acad Sci U S A (2007) 20.60

Human gut microbiome viewed across age and geography. Nature (2012) 19.31

Development of the human infant intestinal microbiota. PLoS Biol (2007) 18.91

Linking long-term dietary patterns with gut microbial enterotypes. Science (2011) 17.30

Impact of diet in shaping gut microbiota revealed by a comparative study in children from Europe and rural Africa. Proc Natl Acad Sci U S A (2010) 15.22

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A human genome diversity cell line panel. Science (2002) 14.11

Diet-induced obesity is linked to marked but reversible alterations in the mouse distal gut microbiome. Cell Host Microbe (2008) 11.97

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Succession of microbial consortia in the developing infant gut microbiome. Proc Natl Acad Sci U S A (2010) 9.57

Glycan foraging in vivo by an intestine-adapted bacterial symbiont. Science (2005) 9.08

Diet drives convergence in gut microbiome functions across mammalian phylogeny and within humans. Science (2011) 8.88

Incomplete recovery and individualized responses of the human distal gut microbiota to repeated antibiotic perturbation. Proc Natl Acad Sci U S A (2010) 8.56

A catalog of reference genomes from the human microbiome. Science (2010) 8.10

Human nutrition, the gut microbiome and the immune system. Nature (2011) 7.77

Deep-sea oil plume enriches indigenous oil-degrading bacteria. Science (2010) 6.73

Moving pictures of the human microbiome. Genome Biol (2011) 6.72

Decreased diversity of the fecal Microbiome in recurrent Clostridium difficile-associated diarrhea. J Infect Dis (2008) 6.21

Viruses in the faecal microbiota of monozygotic twins and their mothers. Nature (2010) 5.92

Microbial exposure during early life has persistent effects on natural killer T cell function. Science (2012) 5.90

Bifidobacteria can protect from enteropathogenic infection through production of acetate. Nature (2011) 5.83

A pyrosequencing study in twins shows that gastrointestinal microbial profiles vary with inflammatory bowel disease phenotypes. Gastroenterology (2010) 5.29

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Extensive personal human gut microbiota culture collections characterized and manipulated in gnotobiotic mice. Proc Natl Acad Sci U S A (2011) 4.85

Changes in the composition of the human fecal microbiome after bacteriotherapy for recurrent Clostridium difficile-associated diarrhea. J Clin Gastroenterol (2010) 4.52

Antibiotic-associated diarrhea accompanied by large-scale alterations in the composition of the fecal microbiota. J Clin Microbiol (2004) 4.46

The impact of a consortium of fermented milk strains on the gut microbiome of gnotobiotic mice and monozygotic twins. Sci Transl Med (2011) 4.24

Systematic review of intestinal microbiota transplantation (fecal bacteriotherapy) for recurrent Clostridium difficile infection. Clin Infect Dis (2011) 4.09

Long-term ecological impacts of antibiotic administration on the human intestinal microbiota. ISME J (2007) 3.92

Through ageing, and beyond: gut microbiota and inflammatory status in seniors and centenarians. PLoS One (2010) 3.64

Competition for light causes plant biodiversity loss after eutrophication. Science (2009) 3.50

Short-term antibiotic treatment has differing long-term impacts on the human throat and gut microbiome. PLoS One (2010) 3.45

Shotgun metaproteomics of the human distal gut microbiota. ISME J (2008) 3.43

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The microbial ecology of the large bowel of breast-fed and formula-fed infants during the first year of life. J Med Microbiol (1982) 3.04

Pharmacometabonomic identification of a significant host-microbiome metabolic interaction affecting human drug metabolism. Proc Natl Acad Sci U S A (2009) 3.01

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Like will to like: abundances of closely related species can predict susceptibility to intestinal colonization by pathogenic and commensal bacteria. PLoS Pathog (2010) 2.79

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Dynamic autoinoculation and the microbial ecology of a deep water hydrocarbon irruption. Proc Natl Acad Sci U S A (2012) 1.78

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