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Consistent alterations of human fecal microbes after transplanted to germ-free mice

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Decreased Bacterial Diversity Characterizes the Altered Gut Microbiota in Patients With Psoriatic Arthritis, Resembling Dysbiosis in Inflammatory Bowel Disease

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Evidence of the Immune Relevance of Prevotella copri, a Gut Microbe, in Patients With Rheumatoid Arthritis

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Adherent-invasive Escherichia coli in inflammatory bowel disease

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Altered gut microbiota and microbial biomarkers associated with chronic kidney disease

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Mouse models for human intestinal microbiota research: a critical evaluation

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The Ruminococci: key symbionts of the gut ecosystem

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In vitro activities of tinidazole and metronidazole against Clostridium difficile, Prevotella bivia and Bacteroides fragilis

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Bypass graft infection and bacteremia caused by Anaerostipes caccae : First report of human infection caused by a recently described gut anaerobe

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The Impact of the Gut Microbiota on Human Health: An Integrative View

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Gut Immune Maturation Depends on Colonization with a Host-Specific Microbiota

inferredcites →https://doi.org/10.1016/j.cell.2014.03.011openalex-snapshot

Role of the Microbiota in Immunity and Inflammation

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Human Genetics Shape the Gut Microbiome

inferredcites →https://doi.org/10.1016/j.cell.2018.02.044openalex-snapshot

The Human Gut Microbiome: From Association to Modulation

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Diet-Induced Obesity Is Linked to Marked but Reversible Alterations in the Mouse Distal Gut Microbiome

inferredcites →https://doi.org/10.1016/j.chom.2014.11.005openalex-snapshot

The Gut Commensal Bacteroides thetaiotaomicron Exacerbates Enteric Infection through Modification of the Metabolic Landscape

inferredcites →https://doi.org/10.1016/j.chom.2016.04.014openalex-snapshot

Human Microbiota-Associated Mice: A Model with Challenges

inferredcites →https://doi.org/10.1016/j.chom.2016.12.006openalex-snapshot

Prior Dietary Practices and Connections to a Human Gut Microbial Metacommunity Alter Responses to Diet Interventions

inferredcites →https://doi.org/10.1016/j.clnu.2014.06.001openalex-snapshot

Inulin-type fructans modulate intestinal Bifidobacterium species populations and decrease fecal short-chain fatty acids in obese women

inferredcites →https://doi.org/10.1016/j.cmet.2015.10.001openalex-snapshot

Dietary Fiber-Induced Improvement in Glucose Metabolism Is Associated with Increased Abundance of Prevotella

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Colorectal neoplasm in cases of Clostridium septicum and Streptococcus gallolyticus subsp. gallolyticus bacteraemia

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Bifidobacterium pseudocatenulatum is associated with atopic eczema: A nested case-control study investigating the fecal microbiota of infants

inferredcites →https://doi.org/10.1016/j.jcmgh.2016.11.008openalex-snapshot

Distinct Microbiome-Neuroimmune Signatures Correlate With Functional Abdominal Pain in Children With Autism Spectrum Disorder

inferredcites →https://doi.org/10.1016/j.jff.2015.06.040openalex-snapshot

Interindividual variability in the human metabolism of ellagic acid: Contribution of Gordonibacter to urolithin production

inferredcites →https://doi.org/10.1016/j.jgar.2015.12.002openalex-snapshot

Clinical epidemiology of vancomycin-resistant Enterococcus gallinarum and Enterococcus casseliflavus bloodstream infections

inferredcites →https://doi.org/10.1016/j.nmni.2014.12.004openalex-snapshot

Butyricimonas virosa: the first clinical case of bacteraemia

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Butyricimonas virosa bacteraemia and bowel disease: case report and review

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The infant gut bacterial microbiota and risk of pediatric asthma and allergic diseases

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Understanding the Mechanisms of Efficacy of Fecal Microbiota Transplantation in the Treatment of Clostridium Difficile Infection: The Potential Role of Bilemetabolising Enzymes

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Gut microbes linked to arthritis

inferredcites →https://doi.org/10.1038/emm.2017.282openalex-snapshot

Akkermansia muciniphila-derived extracellular vesicles influence gut permeability through the regulation of tight junctions

inferredcites →https://doi.org/10.1038/ijo.2017.220openalex-snapshot

Pre-treatment microbial Prevotella-to-Bacteroides ratio, determines body fat loss success during a 6-month randomized controlled diet intervention

inferredcites →https://doi.org/10.1038/ijo.2017.281openalex-snapshot

Body size phenotypes comprehensively assess cardiometabolic risk and refine the association between obesity and gut microbiota

inferredcites →https://doi.org/10.1038/ijo.2018.1openalex-snapshot

Erratum: Pre-treatment microbial Prevotella-to-Bacteroides ratio, determines body fat loss success during a 6-month randomized controlled diet intervention

inferredcites →https://doi.org/10.1038/ismej.2016.151openalex-snapshot

Environmental spread of microbes impacts the development of metabolic phenotypes in mice transplanted with microbial communities from humans

inferredcites →https://doi.org/10.1038/ismej.2016.176openalex-snapshot

Faecalibacterium prausnitzii : from microbiology to diagnostics and prognostics

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A core gut microbiome in obese and lean twins

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Bifidobacteria can protect from enteropathogenic infection through production of acetate

inferredcites →https://doi.org/10.1038/nature09944openalex-snapshot

Enterotypes of the human gut microbiome

inferredcites →https://doi.org/10.1038/nature10209openalex-snapshot

Genetics and pathogenesis of inflammatory bowel disease

inferredcites →https://doi.org/10.1038/nature11450openalex-snapshot

A metagenome-wide association study of gut microbiota in type 2 diabetes

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Functional interactions between the gut microbiota and host metabolism

inferredcites →https://doi.org/10.1038/nature12506openalex-snapshot

Richness of human gut microbiome correlates with metabolic markers

inferredcites →https://doi.org/10.1038/nature12820openalex-snapshot

Diet rapidly and reproducibly alters the human gut microbiome

inferredcites →https://doi.org/10.1038/nature13568openalex-snapshot

Alterations of the human gut microbiome in liver cirrhosis

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

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Dietary modulation of the microbiome affects autoinflammatory disease

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Development of the gut microbiota and mucosal IgA responses in twins and gnotobiotic mice

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Human gut microbes impact host serum metabolome and insulin sensitivity

inferredcites →https://doi.org/10.1038/nature18847openalex-snapshot

The microbiome and innate immunity

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The microbiota in adaptive immune homeostasis and disease

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Strains, functions and dynamics in the expanded Human Microbiome Project

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Gut bacteria link to immunotherapy sparks interest

inferredcites →https://doi.org/10.1038/ncomms7440openalex-snapshot

Analysis of intestinal microbiota in hybrid house mice reveals evolutionary divergence in a vertebrate hologenome

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Genome-wide association analysis identifies variation in vitamin D receptor and other host factors influencing the gut microbiota

inferredcites →https://doi.org/10.1038/nm.4077openalex-snapshot

Activation of Bacteroides fragilis toxin by a novel bacterial protease contributes to anaerobic sepsis in mice

inferredcites →https://doi.org/10.1038/nm.4236openalex-snapshot

A purified membrane protein from Akkermansia muciniphila or the pasteurized bacterium improves metabolism in obese and diabetic mice

inferredcites →https://doi.org/10.1038/nm.4345openalex-snapshot

Metformin alters the gut microbiome of individuals with treatment-naive type 2 diabetes, contributing to the therapeutic effects of the drug

inferredcites →https://doi.org/10.1038/nmeth.f.303openalex-snapshot

QIIME allows analysis of high-throughput community sequencing data

inferredcites →https://doi.org/10.1038/nrgastro.2011.3openalex-snapshot

The role of bacteria and pattern-recognition receptors in Crohn's disease

inferredcites →https://doi.org/10.1038/nrmicro.2016.171openalex-snapshot

Collateral damage: insights into bacterial mechanisms that predispose host cells to cancer

inferredcites →https://doi.org/10.1038/nrrheum.2013.187openalex-snapshot

Prevotella copri associated with new-onset untreated RA

inferredcites →https://doi.org/10.1038/s41366-018-0187-xopenalex-snapshot

Konjaku flour reduces obesity in mice by modulating the composition of the gut microbiota

inferredcites →https://doi.org/10.1038/s41435-018-0024-1openalex-snapshot

Akkermansia muciniphila is permissive to arthritis in the K/BxN mouse model of arthritis

inferredcites →https://doi.org/10.1038/s41564-017-0072-8openalex-snapshot

Enterotypes in the landscape of gut microbial community composition

inferredcites →https://doi.org/10.1038/s41598-017-05264-6openalex-snapshot

Outer membrane vesicles secreted by pathogenic and nonpathogenic Bacteroides fragilis represent different metabolic activities

inferredcites →https://doi.org/10.1038/s41598-018-19941-7openalex-snapshot

Variations among Streptococcus gallolyticus subsp. gallolyticus strains in connection with colorectal cancer

inferredcites →https://doi.org/10.1038/s41598-018-24342-xopenalex-snapshot

Fecal microbiota transplantation reverses antibiotic and chemotherapy-induced gut dysbiosis in mice

inferredcites →https://doi.org/10.1038/s41598-018-25300-3openalex-snapshot

Transplantation of human microbiota into conventional mice durably reshapes the gut microbiota

inferredcites →https://doi.org/10.1038/sj.cgt.7700122openalex-snapshot

Bifidobacterium longum as a delivery system for cancer gene therapy: Selective localization and growth in hypoxic tumors

inferredcites →https://doi.org/10.1038/srep16643openalex-snapshot

Akkermansia muciniphila inversely correlates with the onset of inflammation, altered adipose tissue metabolism and metabolic disorders during obesity in mice

inferredcites →https://doi.org/10.1038/srep18507openalex-snapshot

Faecalibacterium prausnitzii A2-165 has a high capacity to induce IL-10 in human and murine dendritic cells and modulates T cell responses

inferredcites →https://doi.org/10.1038/srep19399openalex-snapshot

Anti-nociceptive effect of Faecalibacterium prausnitzii in non-inflammatory IBS-like models

inferredcites →https://doi.org/10.1038/srep29401openalex-snapshot

A novel strain of Bacteroides fragilis enhances phagocytosis and polarises M1 macrophages

inferredcites →https://doi.org/10.1053/j.gastro.2004.03.054openalex-snapshot

Enhanced Escherichia coli adherence and invasion in Crohn’s disease and colon cancer 1 1The authors thank Professor T. K. Korhonen (Division of General Microbiology, University of Helsinki, Finland), who kindly donated Escherichia coli IH11165; Professor J.-F. Colombel (Laboratoire de Recherche…

inferredcites →https://doi.org/10.1053/j.gastro.2004.04.061openalex-snapshot

High prevalence of adherent-invasive Escherichia coli associated with ileal mucosa in Crohn’s disease

inferredcites →https://doi.org/10.1056/nejm200006293422601openalex-snapshot

The Risk of the Hemolytic–Uremic Syndrome after Antibiotic Treatment ofEscherichia coliO157:H7 Infections

inferredcites →https://doi.org/10.1093/bioinformatics/btu170openalex-snapshot

Trimmomatic: a flexible trimmer for Illumina sequence data

inferredcites →https://doi.org/10.1093/bioinformatics/btx517openalex-snapshot

MAPseq: highly efficient k-mer search with confidence estimates, for rRNA sequence analysis

inferredcites →https://doi.org/10.1093/cid/cir609openalex-snapshot

Clinical Importance of Streptococcus gallolyticus Infection Among Colorectal Cancer Patients: Systematic Review and Meta-analysis

inferredcites →https://doi.org/10.1093/ibd/izz130openalex-snapshot

Treatment-Specific Composition of the Gut Microbiota Is Associated With Disease Remission in a Pediatric Crohn’s Disease Cohort

inferredcites →https://doi.org/10.1093/ilar/ilv019openalex-snapshot

Intestinal Microbiota in Animal Models of Inflammatory Diseases

inferredcites →https://doi.org/10.1093/nar/gkx967openalex-snapshot

EBI Metagenomics in 2017: enriching the analysis of microbial communities, from sequence reads to assemblies

inferredcites →https://doi.org/10.1101/cshperspect.a010041openalex-snapshot

Host Specificity of Bacterial Pathogens

inferredcites →https://doi.org/10.1111/1462-2920.13152openalex-snapshot

Cellulose degradation in the human gut: Ruminococcus champanellensis expands the cellulosome paradigm

inferredcites →https://doi.org/10.1111/j.1365-2036.2011.04633.xopenalex-snapshot

Randomised clinical trial: Bifidobacterium bifidum MIMBb75 significantly alleviates irritable bowel syndrome and improves quality of life -- a double-blind, placebo-controlled study

inferredcites →https://doi.org/10.1111/j.1399-3038.2009.00958.xopenalex-snapshot

Effect of probiotic mix (Bifidobacterium bifidum, Bifidobacterium lactis, Lactobacillus acidophilus) in the primary prevention of eczema: a double‐blind, randomized, placebo‐controlled trial

inferredcites →https://doi.org/10.1111/jgh.14281openalex-snapshot

Parasutterella, in association with irritable bowel syndrome and intestinal chronic inflammation

inferredcites →https://doi.org/10.1126/science.1195568openalex-snapshot

Has the Microbiota Played a Critical Role in the Evolution of the Adaptive Immune System?

inferredcites →https://doi.org/10.1126/science.1208344openalex-snapshot

Linking Long-Term Dietary Patterns with Gut Microbial Enterotypes

inferredcites →https://doi.org/10.1126/science.1220961openalex-snapshot

Acute Gastrointestinal Infection Induces Long-Lived Microbiota-Specific T Cell Responses

inferredcites →https://doi.org/10.1126/science.1224820openalex-snapshot

Intestinal Inflammation Targets Cancer-Inducing Activity of the Microbiota

inferredcites →https://doi.org/10.1126/science.aac4255openalex-snapshot

Commensal Bifidobacterium promotes antitumor immunity and facilitates anti–PD-L1 efficacy

inferredcites →https://doi.org/10.1126/science.aad1329openalex-snapshot

Anticancer immunotherapy by CTLA-4 blockade relies on the gut microbiota

inferredcites →https://doi.org/10.1126/science.aan4236openalex-snapshot

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

inferredcites →https://doi.org/10.1126/science.aao3290openalex-snapshot

The commensal microbiome is associated with anti–PD-1 efficacy in metastatic melanoma patients

inferredcites →https://doi.org/10.1126/scitranslmed.3000322openalex-snapshot

The Effect of Diet on the Human Gut Microbiome: A Metagenomic Analysis in Humanized Gnotobiotic Mice

inferredcites →https://doi.org/10.1128/aem.01541-09openalex-snapshot

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

inferredcites →https://doi.org/10.1128/cdli.9.1.54-59.2002openalex-snapshot

Bacteroides ovatusas the Predominant Commensal Intestinal Microbe Causing a Systemic Antibody Response in Inflammatory Bowel Disease

inferredcites →https://doi.org/10.1128/cmr.00008-07openalex-snapshot

Bacteroides : the Good, the Bad, and the Nitty-Gritty

inferredcites →https://doi.org/10.1128/cmr.00019-07openalex-snapshot

Complicated Catheter-Associated Urinary Tract Infections Due to Escherichia coli and Proteus mirabilis

inferredcites →https://doi.org/10.1128/jcm.00150-17openalex-snapshot

Bifidobacterium Bacteremia: Clinical Characteristics and a Genomic Approach To Assess Pathogenicity

inferredcites →https://doi.org/10.1128/jcm.03128-13openalex-snapshot

Four Cases of Bacteremia Caused by Oscillibacter ruminantium, a Newly Described Species

inferredcites →https://doi.org/10.1128/jcm.41.6.2752-2754.2003openalex-snapshot

Desulfovibrio desulfuricans Bacteremia and Review of Human Desulfovibrio Infections

inferredcites →https://doi.org/10.1128/mbio.00893-14openalex-snapshot

Recovery of the Gut Microbiome following Fecal Microbiota Transplantation

inferredcites →https://doi.org/10.1136/gutjnl-2014-308778openalex-snapshot

Akkermansia muciniphila and improved metabolic health during a dietary intervention in obesity: relationship with gut microbiome richness and ecology

inferredcites →https://doi.org/10.1146/annurev-pathol-012615-044152openalex-snapshot

Genetics and Pathogenesis of Inflammatory Bowel Disease

inferredcites →https://doi.org/10.1155/2008/829101openalex-snapshot

Insights into the Roles of Gut Microbes in Obesity

inferredcites →https://doi.org/10.1159/000441768openalex-snapshot

Reduced Abundance of Butyrate-Producing Bacteria Species in the Fecal Microbial Community in Crohn's Disease

inferredcites →https://doi.org/10.1186/1471-2105-15-s9-s10openalex-snapshot

CASPER: context-aware scheme for paired-end reads from high-throughput amplicon sequencing

inferredcites →https://doi.org/10.1186/1471-230x-10-110openalex-snapshot

Effect of a multispecies probiotic supplement on quantity of irritable bowel syndrome-related intestinal microbial phylotypes

inferredcites →https://doi.org/10.1186/1748-717x-5-31openalex-snapshot

Randomized controlled trial of live lactobacillus acidophilus plus bifidobacterium bifidum in prophylaxis of diarrhea during radiotherapy in cervical cancer patients

inferredcites →https://doi.org/10.1186/s13099-018-0230-4openalex-snapshot

Involvement of gut microbiome in human health and disease: brief overview, knowledge gaps and research opportunities

inferredcites →https://doi.org/10.1186/s40168-017-0242-1openalex-snapshot

New evidences on the altered gut microbiota in autism spectrum disorders

inferredcites →https://doi.org/10.1186/s40168-017-0306-2openalex-snapshot

Stable engraftment of human microbiota into mice with a single oral gavage following antibiotic conditioning

inferredcites →https://doi.org/10.1186/s40168-018-0450-3openalex-snapshot

Similarity of the dog and human gut microbiomes in gene content and response to diet

inferredcites →https://doi.org/10.1242/dmm.017400openalex-snapshot

How informative is the mouse for human gut microbiota research?

inferredcites →https://doi.org/10.1371/journal.pone.0041079openalex-snapshot

Bacteroides uniformis CECT 7771 Ameliorates Metabolic and Immunological Dysfunction in Mice with High-Fat-Diet Induced Obesity

inferredcites →https://doi.org/10.1371/journal.pone.0126976openalex-snapshot

Bifidobacterium pseudocatenulatum CECT 7765 Reduces Obesity-Associated Inflammation by Restoring the Lymphocyte-Macrophage Balance and Gut Microbiota Structure in High-Fat Diet-Fed Mice

inferredcites →https://doi.org/10.1371/journal.pone.0134382openalex-snapshot

Microbial Population Differentials between Mucosal and Submucosal Intestinal Tissues in Advanced Crohn's Disease of the Ileum

inferredcites →https://doi.org/10.1371/journal.pone.0153746openalex-snapshot

Bifidobacteria Abundance-Featured Gut Microbiota Compositional Change in Patients with Behcet’s Disease

inferredcites →https://doi.org/10.1371/journal.pone.0200305openalex-snapshot

Pregestational overweight and obesity are associated with differences in gut microbiota composition and systemic inflammation in the third trimester

inferredcites →https://doi.org/10.2217/imt-2017-0090openalex-snapshot

Is Gut Microbiome A Predictive Marker to Response to Immune Checkpoint Inhibitors?

inferredcites →https://doi.org/10.3389/fcimb.2018.00281openalex-snapshot

Alterations in the Abundance and Co-occurrence of Akkermansia muciniphila and Faecalibacterium prausnitzii in the Colonic Mucosa of Inflammatory Bowel Disease Subjects

inferredcites →https://doi.org/10.3389/fimmu.2017.01166openalex-snapshot

Human Gut Symbiont Roseburia hominis Promotes and Regulates Innate Immunity

inferredcites →https://doi.org/10.3389/fmicb.2016.00925openalex-snapshot

Bifidobacteria and Their Role as Members of the Human Gut Microbiota

inferredcites →https://doi.org/10.3389/fmicb.2017.01765openalex-snapshot

Next-Generation Beneficial Microbes: The Case of Akkermansia muciniphila

inferredcites →https://doi.org/10.3389/fphys.2018.00729openalex-snapshot

Responses of Intestinal Mucosal Barrier Functions of Rats to Simulated Weightlessness

inferredcites →https://doi.org/10.3402/mehd.v26.26191openalex-snapshot

Dysbiosis of the gut microbiota in disease

inferredcites →https://doi.org/10.3748/wjg.v16.i36.4532openalex-snapshot

Association of symptoms with gastrointestinal microbiota in irritable bowel syndrome

inferredcites →https://doi.org/10.3892/mmr.2018.8833openalex-snapshot

Roseburia intestinalis inhibits interleukin‑17 excretion and promotes regulatory T cells differentiation in colitis

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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Nano-omics and nanomedicine target microbial carcinogenesis: Tumor microenvironment reprograming to clinical translation

inferred← citeshttps://doi.org/10.1016/j.ijmm.2021.151472openalex-snapshot

Modulation of inflammatory responses by gastrointestinal Prevotella spp. – From associations to functional studies

inferred← citeshttps://doi.org/10.1038/s42003-020-01477-0openalex-snapshot

Differential longitudinal establishment of human fecal bacterial communities in germ-free porcine and murine models

inferred← citeshttps://doi.org/10.1080/19490976.2022.2107386openalex-snapshot

Approaches to discern if microbiome associations reflect causation in metabolic and immune disorders

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Mice with a humanized immune system are resilient to transplantation of human microbiota

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