Journal Article

Integrated Metagenomics/Metaproteomics Reveals Human Host-Microbiota Signatures of Crohn's Disease

Pan, Chongle, Fraser, Claire M., Darzi, Youssef, Mongodin, Emmanuel F., Erickson, Alison R., Lamendella, Regina, Jansson, Janet K., Tysk, Curt, Halfvarson, Jonas, Henrissat, Bernard, Cantarel, Brandi L., Verberkmoes, Nathan C., Hettich, Robert L., Shah, Manesh, Raes, Jeroen

2012

Overview

Crohn's disease (CD) is an inflammatory bowel disease of complex etiology, although dysbiosis of the gut microbiota has been implicated in chronic immune-mediated inflammation associated with CD. Here we combined shotgun metagenomic and metaproteomic approaches to identify potential functional signatures of CD in stool samples from six twin pairs that were either healthy, or that had CD in the ileum (ICD) or colon (CCD). Integration of these omics approaches revealed several genes, proteins, and pathways that primarily differentiated ICD from healthy subjects, including depletion of many proteins in ICD. In addition, the ICD phenotype was associated with alterations in bacterial carbohydrate metabolism, bacterial-host interactions, as well as human host-secreted enzymes. This eco-systems biology approach underscores the link between the gut microbiota and functional alterations in the pathophysiology of Crohn's disease and aids in identification of novel diagnostic targets and disease specific biomarkers.

• Publisher: Public Library of Science,Public Library of Science (PLoS)
• Subject: Acids / Acquired immune deficiency syndrome / AIDS / Bacteria / Bacteria - genetics / Bacteria - metabolism / Bioengineering / Bioindicators / Bioinformatics / Biology / Biomarkers / Carbohydrate metabolism / Carbohydrates / Cluster Analysis / Colon / Crohn Disease - metabolism / Crohn Disease - microbiology / Crohn's Disease / Crohns disease / Development and progression / Diagnostic systems / Dysbacteriosis / Earth science / Etiology / Female / Gastroenterology / Gastrointestinal diseases / Gastrointestinal Tract - metabolism / Gastrointestinal Tract - microbiology / Genomes / Humans / Ileum / Ileum - metabolism / Ileum - microbiology / Ileum - pathology / Inflammation / Inflammatory bowel disease / Inflammatory bowel diseases / Internal medicine / Intestinal microflora / Intestinal Mucosa - metabolism / Intestinal Mucosa - microbiology / Intestinal Mucosa - pathology / Intestine / Laboratories / Male / Mass spectrometry / Medicin / Medicine / Metabolic Networks and Pathways / Metabolism / Metagenome / Metagenomics / Microbiota / Microbiota (Symbiotic organisms) / Proteins / Proteome / Proteomics / Scientific imaging / Shotguns / Signatures / Studies / Target recognition / Twins, Monozygotic