Greengenes, a Chimera-Checked 16S rRNA Gene Database and Workbench Compatible with ARB

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PHYLIP ( PHYLogeny Inference Package)

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The RDP-II (Ribosomal Database Project)

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The Genetic Core of the Universal AncestorPreprint

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High-Density Microarray of Small-Subunit Ribosomal DNA Probes

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Evolutionary relationships among sulfur- and iron-oxidizing eubacteria

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Bacterial Community Dynamics across a Floristic Gradient in a Temperate Upland Grassland Ecosystem

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Comprehensive aligned sequence construction for automated design of effective probes (CASCADE-P) using 16S rDNA

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Development of a high-volume aerosol collection system for the identification of air-borne micro-organisms

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Rapid quantification and taxonomic classification of environmental DNA from both prokaryotic and eukaryotic origins using a microarray

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Application of a Newly Developed ARB Software-Integrated Tool for In Silico Terminal Restriction Fragment Length Polymorphism Analysis Reveals the Dominance of a Novel pmoA Cluster in a Forest Soil

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DNA microarray detection of nitrifying bacterial 16S rRNA in wastewater treatment plant samples

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PROBEmer: a web-based software tool for selecting optimal DNA oligos

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Oligonucleotide microarray for identification ofEnterococcusspecies

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The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

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FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

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Diet rapidly and reproducibly alters the human gut microbiome

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Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies.

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

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A core gut microbiome in obese and lean twins

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A Rapid Bootstrap Algorithm for the RAxML Web Servers

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

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Gut microbiome modulates response to anti-PD-1 immunotherapy in melanoma patients

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Molecular-phylogenetic characterization of microbial community imbalances in human inflammatory bowel diseases

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Gut Microbiota from Twins Discordant for Obesity Modulate Metabolism in Mice

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Evolution of mammals and their gut microbes

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The Human Oral Microbiome

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

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Microbial diversity drives multifunctionality in terrestrial ecosystems

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The human tumor microbiome is composed of tumor type–specific intracellular bacteria

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The pervasive effects of an antibiotic on the human gut microbiota, as revealed by deep 16S rRNA sequencing

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Artificial sweeteners induce glucose intolerance by altering the gut microbiota

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Population-based metagenomics analysis reveals markers for gut microbiome composition and diversity

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Analysis of composition of microbiomes: a novel method for studying microbial composition

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Gut microbiota dysbiosis contributes to the development of hypertension

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Fecal microbiota transplant promotes response in immunotherapy-refractory melanoma patients

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Distinct soil microbial diversity under long-term organic and conventional farming

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Microbiome-derived inosine modulates response to checkpoint inhibitor immunotherapy

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Human oral, gut, and plaque microbiota in patients with atherosclerosis

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The gut microbiota in IBD

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Moving pictures of the human microbiome

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Antimicrobials from human skin commensal bacteria protect against <i>Staphylococcus aureus</i> and are deficient in atopic dermatitis

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New evidences on the altered gut microbiota in autism spectrum disorders

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Maturation of the infant microbiome community structure and function across multiple body sites and in relation to mode of delivery

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Tumor-resident intracellular microbiota promotes metastatic colonization in breast cancer

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Characterization of the gut microbiome using 16S or shotgun metagenomics

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Host lifestyle affects human microbiota on daily timescales

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Reduction of Abeta amyloid pathology in APPPS1 transgenic mice in the absence of gut microbiota

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The effects of intestinal tract bacterial diversity on mortality following allogeneic hematopoietic stem cell transplantation

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Early life antibiotic‐driven changes in microbiota enhance susceptibility to allergic asthma

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Seasonal cycling in the gut microbiome of the Hadza hunter-gatherers of Tanzania

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Meta‐analyses of human gut microbes associated with obesity and IBD

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Improving the coverage of the cyanobacterial phylum using diversity driven genome sequencing

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Probiotic Bifidobacterium longum NCC3001 reduces depression scores and alters brain activity: a pilot study in patients with irritable bowel syndrome

Pinto-Sanchez, M. I., Hall, G. B., Ghajar, K., Nardelli, A., Bolino, C., Lau, J. T., Martin, F.-P., Cominetti, O., Welsh, C., Rieder, A., et al. (2017) · Gastroenterology · doi:10.1053/j.gastro.2017.05.003 · Cited by 821 · see citing works

Muc5b is required for airway defence

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The Gut Microbiome Contributes to a Substantial Proportion of the Variation in Blood Lipids

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Intestinal Blautia Is Associated with Reduced Death from Graft-versus-Host Disease

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Gut microbiome–derived metabolites modulate intestinal epithelial cell damage and mitigate graft-versus-host disease

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Bifidobacteria or Fiber Protects against Diet-Induced Microbiota-Mediated Colonic Mucus Deterioration

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Stool substitute transplant therapy for the eradication of Clostridium difficile infection: ‘RePOOPulating’ the gut

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Bacterial Communities in Women with Bacterial Vaginosis: High Resolution Phylogenetic Analyses Reveal Relationships of Microbiota to Clinical Criteria

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Dietary Fiber Confers Protection Against Flu by Shaping Ly6c Patrolling Monocyte Hematopoiesis and CD8 T Cell Metabolism

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Gut microbial metabolites limit the frequency of autoimmune T cells and protect against type 1 diabetes

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Dietary Polyphenols Promote Growth of the Gut Bacterium <i>Akkermansia muciniphila</i> and Attenuate High-Fat Diet–Induced Metabolic Syndrome

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Gastric microbial community profiling reveals a dysbiotic cancer-associated microbiota

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Gastrointestinal microbiome signatures of pediatric patients with irritable bowel syndrome

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Bacterial diversity in the oral cavity of 10 healthy individuals

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Subsistence strategies in traditional societies distinguish gut microbiomes

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Increased GVHD-related mortality with broad-spectrum antibiotic use after allogeneic hematopoietic stem cell transplantation in human patients and mice

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Diet-Microbiota Interactions Mediate Global Epigenetic Programming in Multiple Host Tissues

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Exercise Prevents Weight Gain and Alters the Gut Microbiota in a Mouse Model of High Fat Diet-Induced Obesity

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Microbiota of Human Breast Tissue

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Microbiotas from Humans with Inflammatory Bowel Disease Alter the Balance of Gut Th17 and RORγt+ Regulatory T Cells and Exacerbate Colitis in Mice

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Microbiota disbiosis is associated with colorectal cancer

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Microbial Dysbiosis Is Associated with Human Breast Cancer

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Higher Fecal Short-Chain Fatty Acid Levels Are Associated with Gut Microbiome Dysbiosis, Obesity, Hypertension and Cardiometabolic Disease Risk Factors

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Characterising the bacterial microbiota across the gastrointestinal tracts of dairy cattle: membership and potential function

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Transplantation of fecal microbiota from patients with irritable bowel syndrome alters gut function and behavior in recipient mice

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Analysis of Gut Microbiota in Patients with Parkinson’s Disease

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Metagenomic approaches for defining the pathogenesis of inflammatory bowel diseases

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Land-use history has a stronger impact on soil microbial community composition than aboveground vegetation and soil properties

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Chapter 12: Human Microbiome Analysis

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Association of host genome with intestinal microbial composition in a large healthy cohort

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High-Throughput Sequencing and Metagenomics: Moving Forward in the Culture-Independent Analysis of Food Microbial Ecology

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Dysbiosis Signature of Fecal Microbiota in Colorectal Cancer Patients

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Next-generation sequencing: insights to advance clinical investigations of the microbiome

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Randomised clinical trial: gut microbiome biomarkers are associated with clinical response to a low <scp>FODMAP</scp> diet in children with the irritable bowel syndrome

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Regulation of life span by the gut microbiota in the short-lived African turquoise killifish

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Low-Dose Penicillin in Early Life Induces Long-Term Changes in Murine Gut Microbiota, Brain Cytokines and Behavior

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The gut microbial profile in patients with primary sclerosing cholangitis is distinct from patients with ulcerative colitis without biliary disease and healthy controls

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Alterations in Gut Microbiome Composition and Barrier Function Are Associated with Reproductive and Metabolic Defects in Women with Polycystic Ovary Syndrome (PCOS): A Pilot Study

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The rumen microbial metagenome associated with high methane production in cattle

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Methane yield phenotypes linked to differential gene expression in the sheep rumen microbiome

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Microbiome and metabolic disease: revisiting the bacterial phylum Bacteroidetes

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A heritable subset of the core rumen microbiome dictates dairy cow productivity and emissions

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Members of the human gut microbiota involved in recovery from Vibrio cholerae infection

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Lactose drives <i>Enterococcus</i> expansion to promote graft-versus-host disease

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Intestinal microbiota is altered in patients with colon cancer and modified by probiotic intervention

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Metatranscriptomics of the Human Oral Microbiome during Health and Disease

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Membership and behavior of ultra-low-diversity pathogen communities present in the gut of humans during prolonged critical illness

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Butyrate Protects Mice from Clostridium difficile-Induced Colitis through an HIF-1-Dependent Mechanism

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C9orf72 suppresses systemic and neural inflammation induced by gut bacteria

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Antibiotic Treatment of <i>Clostridium difficile</i> Carrier Mice Triggers a Supershedder State, Spore-Mediated Transmission, and Severe Disease in Immunocompromised Hosts

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Meta-Analysis Reveals Reproducible Gut Microbiome Alterations in Response to a High-Fat Diet

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A Taxonomic Signature of Obesity in the Microbiome? Getting to the Guts of the Matter

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Cooperating Commensals Restore Colonization Resistance to Vancomycin-Resistant Enterococcus faecium

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Probiotic Administration Attenuates Myocardial Hypertrophy and Heart Failure After Myocardial Infarction in the Rat

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Comparative analyses of the bacterial microbiota of the human nostril and oropharynx

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16S rRNA Next Generation Sequencing Analysis Shows Bacteria in Alzheimer’s Post-Mortem Brain

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Distinct distal gut microbiome diversity and composition in healthy children from Bangladesh and the United States

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Metagenomic approaches in microbial ecology: an update on whole-genome and marker gene sequencing analyses

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Sex-specific effects of microbiome perturbations on cerebral Aβ amyloidosis and microglia phenotypes

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All animals are equal, but some animals are more equal than others

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High-level classification of the Fungi and a tool for evolutionary ecological analyses

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Protist classification and the kingdoms of organisms

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Species diversity, updated classification and divergence times of the phylum Mucoromycota

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