Microbial genomic analysis reveals the essential role of inflammation in bacteria-induced colorectal cancer (Q34137586)

31 July 2017

title

Microbial genomic analysis reveals the essential role of inflammation in bacteria-induced colorectal cancer (English)

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31 July 2017

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Janelle C Arthur

1

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31 July 2017

Raad Z Gharaibeh

2

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31 July 2017

Marcus Mühlbauer

3

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31 July 2017

Ernesto Perez-Chanona

4

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31 July 2017

Joshua M Uronis

5

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31 July 2017

Jonathan McCafferty

6

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31 July 2017

Anthony A Fodor

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31 July 2017

Christian Jobin

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31 July 2017

language of work or name

English

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publication date

3 September 2014

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31 July 2017

published in

Nature Communications

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31 July 2017

volume

5

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31 July 2017

page(s)

4724

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Prokka: rapid prokaryotic genome annotation

31 July 2017

cites work

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Intestinal microbial ecology and environmental factors affecting necrotizing enterocolitis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

RNA-seq differential expression studies: more sequence or more replication?

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

The gut microbiome modulates colon tumorigenesis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Inflammation-induced cancer: crosstalk between tumours, immune cells and microorganisms

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Fusobacterium nucleatum promotes colorectal carcinogenesis by modulating E-cadherin/β-catenin signaling via its FadA adhesin

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Colonic mucosa-associated diffusely adherent afaC Escherichia coli expressing lpfA and pks are increased in inflammatory bowel disease and colon cancer.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Stochastic changes over time and not founder effects drive cage effects in microbial community assembly in a mouse model.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Computational analysis of bacterial RNA-Seq data

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

The complex interplay between inflammation, the microbiota and colorectal cancer

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

High prevalence of mucosa-associated E. coli producing cyclomodulin and genotoxin in colon cancer

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Bacteria penetrate the normally impenetrable inner colon mucus layer in both murine colitis models and patients with ulcerative colitis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

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

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

NOD2-mediated dysbiosis predisposes mice to transmissible colitis and colorectal cancer.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Gut microbiota composition and activity in relation to host metabolic phenotype and disease risk

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Second messenger regulation of biofilm formation: breakthroughs in understanding c-di-GMP effector systems

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Dysfunction of the intestinal microbiome in inflammatory bowel disease and treatment

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Diversity, stability and resilience of the human gut microbiota

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Intestinal inflammation targets cancer-inducing activity of the microbiota.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Transient inability to manage proteobacteria promotes chronic gut inflammation in TLR5-deficient mice

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Scaling metagenome sequence assembly with probabilistic de Bruijn graphs

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Familial transmission rather than defective innate immunity shapes the distinct intestinal microbiota of TLR-deficient mice.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Fast gapped-read alignment with Bowtie 2

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Ecological succession of bacterial communities during conventionalization of germ-free mice

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Fusobacterium nucleatum infection is prevalent in human colorectal carcinoma

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

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

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

FLASH: fast length adjustment of short reads to improve genome assemblies

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Chronic intestinal inflammation induces stress-response genes in commensal Escherichia coli.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

UCHIME improves sensitivity and speed of chimera detection

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Scaffolding a Caenorhabditis nematode genome with RNA-seq

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Enterobacteriaceae act in concert with the gut microbiota to induce spontaneous and maternally transmitted colitis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Molecular characterization of mucosal adherent bacteria and associations with colorectal adenomas

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Succession of microbial consortia in the developing infant gut microbiome

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Escherichia coli induces DNA damage in vivo and triggers genomic instability in mammalian cells

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Genetic structure and distribution of the colibactin genomic island among members of the family Enterobacteriaceae.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Modulation of the intestinal microbiota alters colitis-associated colorectal cancer susceptibility

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

GAGE: generally applicable gene set enrichment for pathway analysis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

The roles of two-component systems in virulence of pathogenic Escherichia coli and Shigella spp.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

The two-component network and the general stress sigma factor RpoS (sigma S) in Escherichia coli

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

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

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Escherichia coli induces DNA double-strand breaks in eukaryotic cells.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Bacterial small-molecule signaling pathways

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Enhanced Escherichia coli adherence and invasion in Crohn's disease and colon cancer

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

IFNgamma and lymphocytes prevent primary tumour development and shape tumour immunogenicity

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

The microbiome and cancer

28 July 2018

1 reference

Fusobacterium nucleatum potentiates intestinal tumorigenesis and modulates the tumor-immune microenvironment

21 January 2018

1 reference

Genotoxicity of Escherichia coli Nissle 1917 strain cannot be dissociated from its probiotic activity

21 January 2018

1 reference

Pathview: an R/Bioconductor package for pathway-based data integration and visualization

21 January 2018

1 reference

Antigen-Presenting Cell Production of IL-10 Inhibits T-Helper 1 and 17 Cell Responses and Suppresses Colitis in Mice

21 January 2018

1 reference

Induction of inducible nitric oxide synthase: a protective mechanism in colitis-induced adenocarcinoma.

21 January 2018

1 reference

Variable phenotypes of enterocolitis in interleukin 10-deficient mice monoassociated with two different commensal bacteria.

21 January 2018

1 reference

QIIME allows analysis of high-throughput community sequencing data

21 January 2018

1 reference

Expression analysis of the colibactin gene cluster coding for a novel polyketide in Escherichia coli.

21 January 2018

1 reference

Metagenomic microbial community profiling using unique clade-specific marker genes

21 January 2018

1 reference

DOOR 2.0: presenting operons and their functions through dynamic and integrated views.

21 January 2018

1 reference

Mild gut inflammation modulates the proteome of intestinal Escherichia coli.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Genome sequencing in microfabricated high-density picolitre reactors

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

CD4( )CD25( ) regulatory lymphocytes require interleukin 10 to interrupt colon carcinogenesis in mice

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4155410

Association between intraepithelial Escherichia coli and colorectal cancer

28 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25182170

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Presence of adherent Escherichia coli strains in ileal mucosa of patients with Crohn's disease

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25182170

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Interleukin 10-deficient mice exhibit defective colonic Muc2 synthesis before and after induction of colitis by commensal bacteria

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25182170

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1038/NCOMMS5724

1 reference

Dimensions Publication ID

31 July 2017

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0 references

1 reference

31 July 2017

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