Integrated metagenomics/metaproteomics reveals human host-microbiota signatures of Crohn's disease
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...
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| Veröffentlicht in: | PloS one 2012-11, Vol.7 (11), p.e49138-e49138 |
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| creator | Erickson, Alison R Cantarel, Brandi L Lamendella, Regina Darzi, Youssef Mongodin, Emmanuel F Pan, Chongle Shah, Manesh Halfvarson, Jonas Tysk, Curt Henrissat, Bernard Raes, Jeroen Verberkmoes, Nathan C Fraser, Claire M Hettich, Robert L Jansson, Janet K |
| description | 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. |
| doi_str_mv | 10.1371/journal.pone.0049138 |
| format | Article |
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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.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0049138</identifier><identifier>PMID: 23209564</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><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</subject><ispartof>PloS one, 2012-11, Vol.7 (11), p.e49138-e49138</ispartof><rights>COPYRIGHT 2012 Public Library of Science</rights><rights>2012. 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(ORNL), Oak Ridge, TN (United States)</creatorcontrib><title>Integrated metagenomics/metaproteomics reveals human host-microbiota signatures of Crohn's disease</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>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.</description><subject>Acids</subject><subject>Acquired immune deficiency syndrome</subject><subject>AIDS</subject><subject>Bacteria</subject><subject>Bacteria - genetics</subject><subject>Bacteria - metabolism</subject><subject>Bioengineering</subject><subject>Bioindicators</subject><subject>Bioinformatics</subject><subject>Biology</subject><subject>Biomarkers</subject><subject>Carbohydrate metabolism</subject><subject>Carbohydrates</subject><subject>Cluster Analysis</subject><subject>Colon</subject><subject>Crohn Disease - metabolism</subject><subject>Crohn Disease - microbiology</subject><subject>Crohn's Disease</subject><subject>Crohns disease</subject><subject>Development and progression</subject><subject>Diagnostic 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Academic</collection><collection>OSTI.GOV</collection><collection>PubMed Central (Full Participant titles)</collection><collection>SWEPUB Örebro universitet full text</collection><collection>SwePub</collection><collection>SwePub Articles</collection><collection>SWEPUB Freely available online</collection><collection>SWEPUB Örebro universitet</collection><collection>SwePub Articles full text</collection><collection>DOAJ Directory of Open Access Journals</collection><jtitle>PloS one</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Erickson, Alison R</au><au>Cantarel, Brandi L</au><au>Lamendella, Regina</au><au>Darzi, Youssef</au><au>Mongodin, Emmanuel F</au><au>Pan, Chongle</au><au>Shah, Manesh</au><au>Halfvarson, Jonas</au><au>Tysk, Curt</au><au>Henrissat, Bernard</au><au>Raes, Jeroen</au><au>Verberkmoes, Nathan C</au><au>Fraser, Claire M</au><au>Hettich, Robert L</au><au>Jansson, Janet K</au><aucorp>Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)</aucorp><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Integrated metagenomics/metaproteomics reveals human host-microbiota signatures of Crohn's disease</atitle><jtitle>PloS one</jtitle><addtitle>PLoS One</addtitle><date>2012-11-28</date><risdate>2012</risdate><volume>7</volume><issue>11</issue><spage>e49138</spage><epage>e49138</epage><pages>e49138-e49138</pages><issn>1932-6203</issn><eissn>1932-6203</eissn><abstract>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.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>23209564</pmid><doi>10.1371/journal.pone.0049138</doi><tpages>e49138</tpages><oa>free_for_read</oa></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 1932-6203 |
| ispartof | PloS one, 2012-11, Vol.7 (11), p.e49138-e49138 |
| issn | 1932-6203 1932-6203 |
| language | eng |
| recordid | cdi_plos_journals_1350901848 |
| source | Public Library of Science (PLoS) Journals Open Access; MEDLINE; DOAJ Directory of Open Access Journals; EZB-FREE-00999 freely available EZB journals; PubMed Central; SWEPUB Freely available online; Free Full-Text Journals in Chemistry |
| subjects | 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 |
| title | Integrated metagenomics/metaproteomics reveals human host-microbiota signatures of Crohn's disease |
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