(Q34714359)

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Colonization resistance and microbial ecophysiology: using gnotobiotic mouse models and single-cell technology to explore the intestinal jungle.

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1 March 2020

Colonization resistance and microbial ecophysiology: using gnotobiotic mouse models and single-cell technology to explore the intestinal jungle (English)

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1 March 2020

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1 March 2020

Bärbel Stecher

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FEMS Microbiology Reviews

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Europe PubMed Central

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1 March 2020

Microbial diversity and the genetic nature of microbial species

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

PCR-induced sequence artifacts and bias: insights from comparison of two 16S rRNA clone libraries constructed from the same sample.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Googling food webs: can an eigenvector measure species' importance for coextinctions?

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Single-cell identification in microbial communities by improved fluorescence in situ hybridization techniques.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Enterotypes of the human gut microbiome

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Two distinct alpha-L-fucosidases from Bifidobacterium bifidum are essential for the utilization of fucosylated milk oligosaccharides and glycoconjugates.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Induction of colonic regulatory T cells by indigenous Clostridium species

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Enterococcus faecalis induces inflammatory bowel disease in interleukin-10 knockout mice

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Evolution of genetic diversity using networks: the human gut microbiome as a case study

1 reference

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21 January 2018

What is the role of the metabolic activity of the gut microbiota in inflammatory bowel disease? Probing for answers with stable isotopes

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Enteric salmonellosis disrupts the microbial ecology of the murine gastrointestinal tract

1 reference

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21 January 2018

Adherent-invasive Escherichia coli and Crohnʼs disease

1 reference

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21 January 2018

Human intestinal microbiota: characterization of a simplified and stable gnotobiotic rat model.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

A straightforward DOPE (double labeling of oligonucleotide probes)-FISH (fluorescence in situ hybridization) method for simultaneous multicolor detection of six microbial populations

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Monitoring abundance and expression of "Dehalococcoides" species chloroethene-reductive dehalogenases in a tetrachloroethene-dechlorinating flow column

1 reference

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21 January 2018

Microbes inside--from diversity to function: the case of Akkermansia

1 reference

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21 January 2018

Sulfatases and a radical S-adenosyl-L-methionine (AdoMet) enzyme are key for mucosal foraging and fitness of the prominent human gut symbiont, Bacteroides thetaiotaomicron.

1 reference

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21 January 2018

Commensal microbiota and myelin autoantigen cooperate to trigger autoimmune demyelination.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Novel murine infection models provide deep insights into the "ménage à trois" of Campylobacter jejuni, microbiota and host innate immunity

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The indigenous gastrointestinal microflora

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Muc2 protects against lethal infectious colitis by disassociating pathogenic and commensal bacteria from the colonic mucosa

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Barcoded primers used in multiplex amplicon pyrosequencing bias amplification

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Phylotype-level 16S rRNA analysis reveals new bacterial indicators of health state in acute murine colitis

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Host-compound foraging by intestinal microbiota revealed by single-cell stable isotope probing

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Carbohydrate utilization by enterohaemorrhagic Escherichia coli O157:H7 in bovine intestinal content

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Analysis of the large bowel microbiota of colitic mice using PCR/DGGE.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Time to include the gut microbiota in the hygienic standardisation of laboratory rodents

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Microbiota, disease, and back to health: a metastable journey

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Lymphoid tissue genesis induced by commensals through NOD1 regulates intestinal homeostasis.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Interaction between the intestinal microbiota and host in Clostridium difficile colonization resistance

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Going against the grain: chemotaxis and infection in Vibrio cholerae

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Interactions of intestinal epithelial cells with bacteria and immune cells: methods to characterize microflora and functional consequences

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Moving pictures of the human microbiome

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Contributions of the microbial hydrogen economy to colonic homeostasis.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Colicin biology

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The merging of community ecology and phylogenetic biology

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Carbon nutrition of Escherichia coli in the mouse intestine

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Interaction between H2-producing and non-H2-producing cellulolytic bacteria from the human colon

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The human microbiome: at the interface of health and disease

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Pathobionts of the gastrointestinal microbiota and inflammatory disease

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Gut immune maturation depends on colonization with a host-specific microbiota

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The phylogeny of the genus Clostridium: proposal of five new genera and eleven new species combinations.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Structure, function and diversity of the healthy human microbiome

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Very long O-antigen chains enhance fitness during Salmonella-induced colitis by increasing bile resistance

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Exoproducts of the Escherichia coli strain H22 inhibiting some enteric pathogens both in vitro and in vivo.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

What is the extent of prokaryotic diversity?

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

daime, a novel image analysis program for microbial ecology and biofilm research

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Associations between species and groups of sites: indices and statistical inference.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Characterization of the gastrointestinal microbiota in health and inflammatory bowel disease.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Raman spectroscopic study of bacterial endospores.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Trade-off between bile resistance and nutritional competence drives Escherichia coli diversification in the mouse gut.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Phylogenetic stains: ribosomal RNA-based probes for the identification of single cells

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Akkermansia muciniphila gen. nov., sp. nov., a human intestinal mucin-degrading bacterium.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The Mucin degrader Akkermansia muciniphila is an abundant resident of the human intestinal tract

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

An ecological and evolutionary perspective on human-microbe mutualism and disease

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Stable isotopes in obesity research

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Iron depletion and repletion with ferrous sulfate or electrolytic iron modifies the composition and metabolic activity of the gut microbiota in rats

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Cultivable bacterial diversity from the human colon

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Identification of glucose-fermenting bacteria present in an in vitro model of the human intestine by RNA-stable isotope probing.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

NLRP6 inflammasome regulates colonic microbial ecology and risk for colitis

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The microbiota mediates pathogen clearance from the gut lumen after non-typhoidal Salmonella diarrhea

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Comparison of carbon nutrition for pathogenic and commensal Escherichia coli strains in the mouse intestine

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Creating and characterizing communities of human gut microbes in gnotobiotic mice

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Microbial co-occurrence relationships in the human microbiome

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

How close is close: 16S rRNA sequence identity may not be sufficient to guarantee species identity

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The large-scale organization of the bacterial network of ecological co-occurrence interactions.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Competitive and cooperative metabolic interactions in bacterial communities.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The fatal enteric cholera infection in the guinea pig, achieved by inhibition of normal enteric flora

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Inferring correlation networks from genomic survey data

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Selectivity in mammalian extinction risk and threat types: a new measure of phylogenetic signal strength in binary traits

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Bifidobacteria can protect from enteropathogenic infection through production of acetate

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Phylogenetic analysis of Salmonella, Shigella, and Escherichia coli strains on the basis of the gyrB gene sequence

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Butyrate specifically down-regulates salmonella pathogenicity island 1 gene expression.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Inferring dynamic signatures of microbes in complex host ecosystems

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The Kennedy pathway-De novo synthesis of phosphatidylethanolamine and phosphatidylcholine

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Zinc competition among the intestinal microbiota

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Neutrophil elastase alters the murine gut microbiota resulting in enhanced Salmonella colonization

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Dissecting the genetic components of adaptation of Escherichia coli to the mouse gut.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Temporal changes in the frequency of colicinogeny in Escherichia coli from house mice

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Gaining insight into microbial physiology in the large intestine: a special role for stable isotopes.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Metagenomic systems biology of the human gut microbiome reveals topological shifts associated with obesity and inflammatory bowel disease

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Generalized models reveal stabilizing factors in food webs

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The StcE protease contributes to intimate adherence of enterohemorrhagic Escherichia coli O157:H7 to host cells

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Reduction of fumarate, mesaconate and crotonate by Mfr, a novel oxygen-regulated periplasmic reductase in Campylobacter jejuni.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Mouse background strain profoundly influences Paneth cell function and intestinal microbial composition

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Raman microspectroscopy reveals long-term extracellular activity of Chlamydiae

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Functional analysis of colonic bacterial metabolism: relevant to health?

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Role of mucus layers in gut infection and inflammation

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

A mouse model for S. typhimurium-induced enterocolitis

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Extensive set of 16S rRNA-based probes for detection of bacteria in human feces

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The Pic protease of enteroaggregative Escherichia coli promotes intestinal colonization and growth in the presence of mucin

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Noninvasive measurement of anatomic structure and intraluminal oxygenation in the gastrointestinal tract of living mice with spatial and spectral EPR imaging

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Adaptation and preadaptation of Salmonella enterica to Bile.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Using ecological diversity measures with bacterial communities.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

A molecular sensor that allows a gut commensal to control its nutrient foundation in a competitive ecosystem

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

How host-microbial interactions shape the nutrient environment of the mammalian intestine

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Interactions between the microbiota and the immune system

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Detection of denitrification genes by in situ rolling circle amplification-fluorescence in situ hybridization to link metabolic potential with identity inside bacterial cells.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Mucin degradation in human colon ecosystems. Evidence for the existence and role of bacterial subpopulations producing glycosidases as extracellular enzymes

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Mucin degradation in human colon ecosystems. Isolation and properties of fecal strains that degrade ABH blood group antigens and oligosaccharides from mucin glycoproteins

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Influence of ampicillin, clindamycin, and metronidazole on faecal excretion of short-chain fatty acids in healthy subjects

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Raman microscopic analysis of single microbial cells.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Raman-FISH: combining stable-isotope Raman spectroscopy and fluorescence in situ hybridization for the single cell analysis of identity and function.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Rapid Raman imaging of stable, functionalized nanoshells in mammalian cell cultures

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Non-sulfate-reducing, syntrophic bacteria affiliated with desulfotomaculum cluster I are widely distributed in methanogenic environments

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

A novel 13C-urea breath test device for the diagnosis of Helicobacter pylori infection: continuous online measurements allow for faster test results with high accuracy

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Colonization resistance against Pseudomonas aeruginosa in gnotobiotic mice.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Segmented filamentous bacteria take the stage

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Induction of intestinal Th17 cells by segmented filamentous bacteria

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The two mucus layers of colon are organized by the MUC2 mucin, whereas the outer layer is a legislator of host-microbial interactions

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Anaerobic respiration of Escherichia coli in the mouse intestine

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Fecal transplant against relapsing Clostridium difficile-associated diarrhea in 32 patients

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Regulated virulence controls the ability of a pathogen to compete with the gut microbiota.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Novel bifidobacterial glycosidases acting on sugar chains of mucin glycoproteins

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Probing metabolic pathways with isotopic tracers: insights from mammalian metabolic physiology

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

α-N-acetylgalactosaminidase from infant-associated bifidobacteria belonging to novel glycoside hydrolase family 129 is implicated in alternative mucin degradation pathway

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Succession of microbial consortia in the developing infant gut microbiome

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Lineage-dependent ecological coherence in bacteria

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Quantitative fluorescence in situ hybridization of microbial communities in the rumens of cattle fed different diets

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

'Normalization' of germfree mice with anaerobically cultured caecal flora of 'normal' mice.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

How glycan metabolism shapes the human gut microbiota

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Linking phylogenetic identities of bacteria to starch fermentation in an in vitro model of the large intestine by RNA-based stable isotope probing.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Isolation and characterization of bacteriocin-producing bacteria from the intestinal microbiota of elderly Irish subjects.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Review article: faecal transplantation therapy for gastrointestinal disease

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Host transmission of Salmonella enterica serovar Typhimurium is controlled by virulence factors and indigenous intestinal microbiota

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Targeted restoration of the intestinal microbiota with a simple, defined bacteriotherapy resolves relapsing Clostridium difficile disease in mice

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Design and validation of 16S rRNA probes to enumerate members of the Clostridium leptum subgroup in human faecal microbiota.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Separation of bacteria of the Clostridium leptum subgroup from the human colonic microbiota by fluorescence-activated cell sorting or group-specific PCR using 16S rRNA gene oligonucleotides

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

New in vitro colonic fermentation model for Salmonella infection in the child gut.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Mouse intestine selects nonmotile flhDC mutants of Escherichia coli MG1655 with increased colonizing ability and better utilization of carbon sources

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The streptomycin-treated mouse intestine selects Escherichia coli envZ missense mutants that interact with dense and diverse intestinal microbiota

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

High-resolution quantitative imaging of mammalian and bacterial cells using stable isotope mass spectrometry

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Proinflammatory T-cell responses to gut microbiota promote experimental autoimmune encephalomyelitis

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Motility and chemotaxis in Campylobacter and Helicobacter .

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Evolution of mammals and their gut microbes

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Simultaneous analysis of microbial identity and function using NanoSIMS.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Inflammatory bowel diseases phenotype, C. difficile and NOD2 genotype are associated with shifts in human ileum associated microbial composition

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Single cell Raman spectroscopy for cell sorting and imaging.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Rules of engagement: interspecies interactions that regulate microbial communities

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Zinc sequestration by the neutrophil protein calprotectin enhances Salmonella growth in the inflamed gut.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Phage-mediated acquisition of a type III secreted effector protein boosts growth of salmonella by nitrate respiration

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Phylogenetic niche conservatism, phylogenetic signal and the relationship between phylogenetic relatedness and ecological similarity among species

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

probeBase--an online resource for rRNA-targeted oligonucleotide probes: new features 2007.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

probeCheck--a central resource for evaluating oligonucleotide probe coverage and specificity

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Species divergence and the measurement of microbial diversity

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Diversity, stability and resilience of the human gut microbiota

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

ARB: a software environment for sequence data

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Innate and adaptive immunity in host-microbiota mutualism

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Nitrite concentration influences the population structure of Nitrospira-like bacteria

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Application of a suite of 16S rRNA-specific oligonucleotide probes designed to investigate bacteria of the phylum cytophaga-flavobacter-bacteroides in the natural environment.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Carbohydrate-active enzymes from pigmented Bacilli: a genomic approach to assess carbohydrate utilization and degradation

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Modulation of Shigella virulence in response to available oxygen in vivo

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Phylogenetic conservatism of functional traits in microorganisms

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Mucin dynamics and enteric pathogens.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Glycolytic and gluconeogenic growth of Escherichia coli O157:H7 (EDL933) and E. coli K-12 (MG1655) in the mouse intestine

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

An Escherichia coli MG1655 lipopolysaccharide deep-rough core mutant grows and survives in mouse cecal mucus but fails to colonize the mouse large intestine

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

'Bac' to the future: bioengineering lantibiotics for designer purposes.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

16S rRNA gene sequence-based analysis of clostridia related to conversion of germfree mice to the normal state.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

GeneFISH--an in situ technique for linking gene presence and cell identity in environmental microorganisms

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Strain-resolved community genomic analysis of gut microbial colonization in a premature infant

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

MICs of mutacin B-Ny266, nisin A, vancomycin, and oxacillin against bacterial pathogens

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Salmonella gut invasion involves TTSS-2-dependent epithelial traversal, basolateral exit, and uptake by epithelium-sampling lamina propria phagocytes.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

A single-cell view on the ecophysiology of anaerobic phototrophic bacteria

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Detecting metabolic activities in single cells, with emphasis on nanoSIMS.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Colonization of the mouse intestine with Escherichia coli

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Thaumarchaeotes abundant in refinery nitrifying sludges express amoA but are not obligate autotrophic ammonia oxidizers

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Characterization of a gene cluster for sialoglycoconjugate utilization in Bacteroides fragilis.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Pic, an autotransporter protein secreted by different pathogens in the Enterobacteriaceae family, is a potent mucus secretagogue

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Who eats what, where and when? Isotope-labelling experiments are coming of age.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Host-gut microbiota metabolic interactions

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Duodenal infusion of donor feces for recurrent Clostridium difficile

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Diversification of the gut symbiont Lactobacillus reuteri as a result of host-driven evolution.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The gut flora as a forgotten organ

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Methods for unveiling cryptic microbial partnerships in nature

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Second-generation recombination-based in vivo expression technology for large-scale screening for Vibrio cholerae genes induced during infection of the mouse small intestine

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Fucose sensing regulates bacterial intestinal colonization

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Commensal bacteria, traditional and opportunistic pathogens, dysbiosis and bacterial killing in inflammatory bowel diseases

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Inferring the historical patterns of biological evolution

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The genome of Akkermansia muciniphila, a dedicated intestinal mucin degrader, and its use in exploring intestinal metagenomes

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Advances and perspectives in in vitro human gut fermentation modeling

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

A crypt-specific core microbiota resides in the mouse colon

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Simultaneous fluorescence in situ hybridization of mRNA and rRNA in environmental bacteria

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

NanoSIP: NanoSIMS applications for microbial biology.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Growth of Campylobacter jejuni on nitrate and nitrite: electron transport to NapA and NrfA via NrfH and distinct roles for NrfA and the globin Cgb in protection against nitrosative stress

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Microbial butyrate and its role for barrier function in the gastrointestinal tract.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Production rates and metabolism of short-chain fatty acids in the colon and whole body using stable isotopes.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The alternative electron acceptor tetrathionate supports B12-dependent anaerobic growth of Salmonella enterica serovar typhimurium on ethanolamine or 1,2-propanediol

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

A human gut microbial gene catalogue established by metagenomic sequencing

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

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

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Lipocalin-2 resistance confers an advantage to Salmonella enterica serotype Typhimurium for growth and survival in the inflamed intestine

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Multivariate analyses in microbial ecology

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Thuricin CD, a posttranslationally modified bacteriocin with a narrow spectrum of activity against Clostridium difficile.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Effect of broad- and narrow-spectrum antimicrobials on Clostridium difficile and microbial diversity in a model of the distal colon.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Suppression of Clostridium difficile in the gastrointestinal tracts of germfree mice inoculated with a murine isolate from the family Lachnospiraceae

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Detecting novel associations in large data sets

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

A novel mechanism for desulfation of mucin: identification and cloning of a mucin-desulfating glycosidase (sulfoglycosidase) from Prevotella strain RS2

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Evaluation of the ability of Bifidobacterium longum to metabolize human intestinal mucus.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Enteric defensins are essential regulators of intestinal microbial ecology

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Colonization for the prevention of Clostridium difficile disease in hamsters

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

A humanized gnotobiotic mouse model of host-archaeal-bacterial mutualism

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Microbial ecology of the gastrointestinal tract

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

THE DEVELOPMENT OF THE BACTERIAL FLORA IN THE GASTROINTESTINAL TRACT OF MICE.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Co-localized or randomly distributed? Pair cross correlation of in vivo grown subgingival biofilm bacteria quantified by digital image analysis

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

16S-23S rDNA intergenic spacer and 23S rDNA of anaerobic ammonium-oxidizing bacteria: implications for phylogeny and in situ detection.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Abundant and diverse fungal microbiota in the murine intestine

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Time series community genomics analysis reveals rapid shifts in bacterial species, strains, and phage during infant gut colonization

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

A genome-wide analysis of promoter-mediated phenotypic noise in Escherichia coli

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Haemagglutinin/protease expression and mucin gel penetration in El Tor biotype Vibrio cholerae

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Use of axenic animals in studying the adaptation of mammals to their commensal intestinal microbiota

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Glycan foraging in vivo by an intestine-adapted bacterial symbiont

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Genomic and metabolic studies of the impact of probiotics on a model gut symbiont and host

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Bacteria-host communication: the language of hormones

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The role of microbiota in infectious disease

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Mechanisms controlling pathogen colonization of the gut.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Flagella and chemotaxis are required for efficient induction of Salmonella enterica serovar Typhimurium colitis in streptomycin-pretreated mice

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Comparison of Salmonella enterica serovar Typhimurium colitis in germfree mice and mice pretreated with streptomycin

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Motility allows S. Typhimurium to benefit from the mucosal defence

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Like will to like: abundances of closely related species can predict susceptibility to intestinal colonization by pathogenic and commensal bacteria

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Gut inflammation can boost horizontal gene transfer between pathogenic and commensal Enterobacteriaceae

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Salmonella-induced mucosal lectin RegIIIβ kills competing gut microbiota

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Single cell genomics: an individual look at microbes

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Aberrant expansion of segmented filamentous bacteria in IgA-deficient gut

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Spatial organization of bacterial flora in normal and inflamed intestine: a fluorescence in situ hybridization study in mice

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Comparative study of the intestinal mucus barrier in normal and inflamed colon.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Viscosity gradient within the mucus layer determines the mucosal barrier function and the spatial organization of the intestinal microbiota.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

TagA is a secreted protease of Vibrio cholerae that specifically cleaves mucin glycoproteins

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Methods for the assessment of small-bowel and colonic transit

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Resource partitioning in relation to cohabitation of Lactobacillus species in the mouse forestomach

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Intestinal domination and the risk of bacteremia in patients undergoing allogeneic hematopoietic stem cell transplantation

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Aerotaxis and other energy-sensing behavior in bacteria

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The population genetics of commensal Escherichia coli

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Intestinal inflammation allows Salmonella to use ethanolamine to compete with the microbiota

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Unicellular cyanobacterium symbiotic with a single-celled eukaryotic alga

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Convergent temporal dynamics of the human infant gut microbiota.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

An obesity-associated gut microbiome with increased capacity for energy harvest

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The human microbiome project

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

A core gut microbiome in obese and lean twins

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Genome analysis of Bifidobacterium bifidum PRL2010 reveals metabolic pathways for host-derived glycan foraging

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Genetic strategies for mucin metabolism in Bifidobacterium bifidum PRL2010: an example of possible human-microbe co-evolution

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Antibiotics, microbiota, and immune defense

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The antibacterial lectin RegIIIgamma promotes the spatial segregation of microbiota and host in the intestine

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Systems-level analysis of microbial community organization through combinatorial labeling and spectral imaging

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

CLASI-FISH: principles of combinatorial labeling and spectral imaging

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Butyrate-producing Clostridium cluster XIVa species specifically colonize mucins in an in vitro gut model

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Role of gut microbiota in the control of energy and carbohydrate metabolism

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Role of the intestinal microbiome in health and disease: from correlation to causation

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Single-cell ecophysiology of microbes as revealed by Raman microspectroscopy or secondary ion mass spectrometry imaging

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

New trends in fluorescence in situ hybridization for identification and functional analyses of microbes

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

The Planctomycetes, Verrucomicrobia, Chlamydiae and sister phyla comprise a superphylum with biotechnological and medical relevance

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Bifidobacterial α-galactosidase with unique carbohydrate-binding module specifically acts on blood group B antigen

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Phylogenetic balance and ecological evenness

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Genomic approaches to studying the human microbiota

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

A breathtaking feat: to compete with the gut microbiota, Salmonella drives its host to provide a respiratory electron acceptor

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Gut inflammation provides a respiratory electron acceptor for Salmonella

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Host-derived nitrate boosts growth of E. coli in the inflamed gut

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Sex and virulence in Escherichia coli: an evolutionary perspective

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Comparative evaluation of establishing a human gut microbial community within rodent models

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Prevotella enzymes involved in mucin oligosaccharide degradation and evidence for a small operon of genes expressed during growth on mucin.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Cloning of a mucin-desulfating sulfatase gene from Prevotella strain RS2 and its expression using a Bacteroides recombinant system

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Generation and analysis of a mouse intestinal metatranscriptome through Illumina based RNA-sequencing

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Human gut microbiome viewed across age and geography

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Structural insight into the bacterial mucinase StcE essential to adhesion and immune evasion during enterohemorrhagic E. coli infection

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Ruminococcus bromii is a keystone species for the degradation of resistant starch in the human colon.

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

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

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Costs and Benefits of High Mutation Rates: Adaptive Evolution of Bacteria in the Mouse Gut

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Separating the determinants of phylogenetic community structure

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Host-Mediated Inflammation Disrupts the Intestinal Microbiota and Promotes the Overgrowth of Enterobacteriaceae

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

Preservation of Mucus in Histological Sections, Immunostaining of Mucins in Fixed Tissue, and Localization of Bacteria with FISH

1 reference

https://api.crossref.org/works/10.1111%2F1574-6976.12024

21 January 2018

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