{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,18]],"date-time":"2026-09-18T17:01:36Z","timestamp":1789750896947,"version":"4.0.1"},"reference-count":52,"publisher":"Oxford University Press (OUP)","issue":"10","license":[{"start":{"date-parts":[[2012,5,24]],"date-time":"2012-05-24T00:00:00Z","timestamp":1337817600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/pages\/standard-publication-reuse-rights"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2012,10,1]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>Differences in the composition of the gut microbial community have been associated with diseases such as obesity, Crohn\u2019s disease, ulcerative colitis and colorectal cancer (CRC). We used 454 titanium pyrosequencing of the V1\u2013V2 region of the 16S rRNA gene to characterize adherent bacterial communities in mucosal biopsy samples from 33 subjects with adenomas and 38 subjects without adenomas (controls). Biopsy samples from subjects with adenomas had greater numbers of bacteria from 87 taxa than controls; only 5 taxa were more abundant in control samples. The magnitude of the differences in the distal gut microbiota between patients with adenomas and controls was more pronounced than that of any other clinical parameters including obesity, diet or family history of CRC. This suggests that sequence analysis of the microbiota could be used to identify patients at risk for developing adenomas.<\/jats:p>","DOI":"10.1038\/ismej.2012.43","type":"journal-article","created":{"date-parts":[[2012,5,24]],"date-time":"2012-05-24T14:55:29Z","timestamp":1337871329000},"page":"1858-1868","source":"Crossref","is-referenced-by-count":192,"title":["Increased rectal microbial richness is associated with the presence of colorectal adenomas in humans"],"prefix":"10.1093","volume":"6","author":[{"given":"Nina","family":"Sanapareddy","sequence":"first","affiliation":[{"name":"Department of Bioinformatics and Genomics, University of North Carolina , Charlotte, NC , USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ryan M","family":"Legge","sequence":"additional","affiliation":[{"name":"Department of Food Science and Technology, University of Nebraska , Lincoln, NE , USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Biljana","family":"Jovov","sequence":"additional","affiliation":[{"name":"Center for Gastrointestinal Biology and Disease, University of North Carolina at Chapel Hill , Chapel Hill, NC , USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Amber","family":"McCoy","sequence":"additional","affiliation":[{"name":"Center for Gastrointestinal Biology and Disease, University of North Carolina at Chapel Hill , Chapel Hill, NC , USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lauren","family":"Burcal","sequence":"additional","affiliation":[{"name":"Center for Gastrointestinal Biology and Disease, University of North Carolina at Chapel Hill , Chapel Hill, NC , USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Felix","family":"Araujo-Perez","sequence":"additional","affiliation":[{"name":"Center for Gastrointestinal Biology and Disease, University of North Carolina at Chapel Hill , Chapel Hill, NC , USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Thomas A","family":"Randall","sequence":"additional","affiliation":[{"name":"Center for Bioinformatics, University of North Carolina at Chapel Hill , Chapel Hill, NC , USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Joseph","family":"Galanko","sequence":"additional","affiliation":[{"name":"Center for Gastrointestinal Biology and Disease, University of North Carolina at Chapel Hill , Chapel Hill, NC , USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Andrew","family":"Benson","sequence":"additional","affiliation":[{"name":"Department of Food Science and Technology, University of Nebraska , Lincoln, NE , USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Robert S","family":"Sandler","sequence":"additional","affiliation":[{"name":"Center for Gastrointestinal Biology and Disease, University of North Carolina at Chapel Hill , Chapel Hill, NC , USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"John F","family":"Rawls","sequence":"additional","affiliation":[{"name":"Department of Cell and Molecular Physiology, University of North Carolina at Chapel Hill , Chapel Hill, NC , USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zaid","family":"Abdo","sequence":"additional","affiliation":[{"name":"Department of Mathematics and Statistics, University of Idaho , Moscow, ID , USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Anthony A","family":"Fodor","sequence":"additional","affiliation":[{"name":"Department of Bioinformatics and Genomics, University of North Carolina , Charlotte, NC , USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Temitope O","family":"Keku","sequence":"additional","affiliation":[{"name":"Center for Gastrointestinal Biology and Disease, University of North Carolina at Chapel Hill , Chapel Hill, NC , USA"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2012,5,24]]},"reference":[{"key":"2024020118254527700_CR1","first-page":"389","article-title":"The association of Helicobacter pylori infection with low levels of urea and pH in the gastric juices","volume":"24","author":"Abbolito","year":"1992","journal-title":"Ital J Gastroenterol"},{"key":"2024020118254527700_CR2","doi-asserted-by":"publisher","first-page":"15718","DOI":"10.1073\/pnas.0407076101","article-title":"The gut microbiota as an environmental factor that regulates fat storage","volume":"101","author":"Backhed","year":"2004","journal-title":"Proc Natl Acad Sci USA"},{"key":"2024020118254527700_CR3","doi-asserted-by":"crossref","first-page":"12","DOI":"10.1111\/j.2517-6161.1995.tb02031.x","article-title":"A Practical and Powerful Approach to Multiple Testing","volume":"57","author":"Benjamini","year":"1995","journal-title":"J Roy Stat Soc B"},{"key":"2024020118254527700_CR4","first-page":"1049","article-title":"Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family","volume":"52","author":"Bernardet","year":"2002","journal-title":"Int J Syst Evol Microbiol"},{"key":"2024020118254527700_CR5","doi-asserted-by":"publisher","first-page":"12","DOI":"10.1042\/bst0280012","article-title":"Diet and colorectal cancer prevention","volume":"28","author":"Bingham","year":"2000","journal-title":"Biochem Soc Trans"},{"key":"2024020118254527700_CR6","doi-asserted-by":"publisher","first-page":"5107","DOI":"10.2741\/3589","article-title":"The gut microbiota ecology: a new opportunity for the treatment of metabolic diseases?","volume":"14","author":"Burcelin","year":"2009","journal-title":"Front Biosci"},{"key":"2024020118254527700_CR7","doi-asserted-by":"publisher","first-page":"2970","DOI":"10.1158\/1055-9965.EPI-08-0571","article-title":"Infectious agents and colorectal cancer: a review of Helicobacter pylori, Streptococcus bovis, JC virus, and human papillomavirus","volume":"17","author":"Burnett-Hartman","year":"2008","journal-title":"Cancer Epidemiol Biomarkers Prev"},{"key":"2024020118254527700_CR8","doi-asserted-by":"publisher","first-page":"737","DOI":"10.1016\/j.coph.2009.06.016","article-title":"Interplay between obesity and associated metabolic disorders: new insights into the gut microbiota","volume":"9","author":"Cani","year":"2009","journal-title":"Curr Opin Pharmacol"},{"key":"2024020118254527700_CR9","doi-asserted-by":"publisher","first-page":"299","DOI":"10.1101\/gr.126516.111","article-title":"Fusobacterium nucleatum infection is prevalent in human colorectal carcinoma","volume":"22","author":"Castellarin","year":"2012","journal-title":"Genome Res"},{"key":"2024020118254527700_CR10","doi-asserted-by":"publisher","first-page":"1081","DOI":"10.1016\/S0006-3495(97)78140-2","article-title":"Helicobacter pylori survival in gastric mucosa by generation of a pH gradient","volume":"73","author":"Chen","year":"1997","journal-title":"Biophys J"},{"key":"2024020118254527700_CR11","doi-asserted-by":"publisher","first-page":"1093","DOI":"10.1093\/bioinformatics\/17.12.1093","article-title":"DNA sequence quality trimming and vector removal","volume":"17","author":"Chou","year":"2001","journal-title":"Bioinformatics"},{"key":"2024020118254527700_CR12","doi-asserted-by":"publisher","first-page":"1694","DOI":"10.1126\/science.1177486","article-title":"Bacterial community variation in human body habitats across space and time","volume":"326","author":"Costello","year":"2009","journal-title":"Science"},{"key":"2024020118254527700_CR13","doi-asserted-by":"publisher","first-page":"5810","DOI":"10.1128\/AEM.70.10.5810-5817.2004","article-title":"Lactate-utilizing bacteria, isolated from human feces, that produce butyrate as a major fermentation product","volume":"70","author":"Duncan","year":"2004","journal-title":"Appl Environ Microbiol"},{"key":"2024020118254527700_CR14","doi-asserted-by":"publisher","first-page":"1635","DOI":"10.1126\/science.1110591","article-title":"Diversity of the human intestinal microbial flora","volume":"308","author":"Eckburg","year":"2005","journal-title":"Science"},{"key":"2024020118254527700_CR15","doi-asserted-by":"publisher","first-page":"1401","DOI":"10.1093\/jn\/125.6.1401","article-title":"Dietary modulation of the human colonic microbiota: introducing the concept of prebiotics","volume":"125","author":"Gibson","year":"1995","journal-title":"J Nutr"},{"key":"2024020118254527700_CR16","doi-asserted-by":"publisher","first-page":"1355","DOI":"10.1126\/science.1124234","article-title":"Metagenomic analysis of the human distal gut microbiome","volume":"312","author":"Gill","year":"2006","journal-title":"Science"},{"key":"2024020118254527700_CR17","doi-asserted-by":"publisher","first-page":"1043","DOI":"10.1101\/gr.075549.107","article-title":"A diversity profile of the human skin microbiota","volume":"18","author":"Grice","year":"2008","journal-title":"Genome Res"},{"key":"2024020118254527700_CR18","doi-asserted-by":"publisher","first-page":"494","DOI":"10.1101\/gr.112730.110","article-title":"Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons","volume":"21","author":"Haas","year":"2011","journal-title":"Genome Res"},{"key":"2024020118254527700_CR19","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1016\/j.femsle.2005.01.029","article-title":"Sporadic colorectal cancer--role of the commensal microbiota","volume":"244","author":"Hope","year":"2005","journal-title":"FEMS Microbiol Lett"},{"key":"2024020118254527700_CR20","doi-asserted-by":"publisher","first-page":"586","DOI":"10.1177\/153537020422900702","article-title":"Commensal bacteria, redox stress, and colorectal cancer: mechanisms and models","volume":"229","author":"Huycke","year":"2004","journal-title":"Exp Biol Med (Maywood)"},{"key":"2024020118254527700_CR21","doi-asserted-by":"publisher","first-page":"277","DOI":"10.3322\/caac.20073","article-title":"Cancer statistics, 2010","volume":"60","author":"Jemal","year":"2010","journal-title":"CA Cancer J Clin"},{"key":"2024020118254527700_CR22","doi-asserted-by":"publisher","first-page":"2076","DOI":"10.1158\/1055-9965.EPI-05-0239","article-title":"Insulin resistance, apoptosis, and colorectal adenoma risk","volume":"14","author":"Keku","year":"2005","journal-title":"Cancer Epidemiol Biomarkers Prev"},{"key":"2024020118254527700_CR23","doi-asserted-by":"publisher","first-page":"292","DOI":"10.1101\/gr.126573.111","article-title":"Genomic analysis identifies association of Fusobacterium with colorectal carcinoma","volume":"22","author":"Kostic","year":"2012","journal-title":"Genome Res"},{"key":"2024020118254527700_CR24","doi-asserted-by":"publisher","first-page":"118","DOI":"10.1111\/j.1462-2920.2009.02051.x","article-title":"Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates","volume":"12","author":"Kunin","year":"2010","journal-title":"Environ Microbiol"},{"key":"2024020118254527700_CR25","first-page":"483","article-title":"Recent developments in colorectal cancer","volume":"31","author":"Lance","year":"1997","journal-title":"J R Coll Physicians Lond"},{"key":"2024020118254527700_CR26","doi-asserted-by":"publisher","first-page":"e9085","DOI":"10.1371\/journal.pone.0009085","article-title":"Gut microbiota in human adults with type 2 diabetes differs from non-diabetic adults","volume":"5","author":"Larsen","year":"2010","journal-title":"PLoS One"},{"key":"2024020118254527700_CR27","doi-asserted-by":"publisher","first-page":"733","DOI":"10.1038\/nrg2825","article-title":"Tackling the widespread and critical impact of batch effects in high-throughput data","volume":"11","author":"Leek","year":"2010","journal-title":"Nat Rev Genet"},{"key":"2024020118254527700_CR28","doi-asserted-by":"publisher","first-page":"11070","DOI":"10.1073\/pnas.0504978102","article-title":"Obesity alters gut microbial ecology","volume":"102","author":"Ley","year":"2005","journal-title":"Proc Natl Acad Sci USA"},{"key":"2024020118254527700_CR29","doi-asserted-by":"publisher","first-page":"1022","DOI":"10.1038\/4441022a","article-title":"Microbial ecology: human gut microbes associated with obesity","volume":"444","author":"Ley","year":"2006","journal-title":"Nature"},{"key":"2024020118254527700_CR30","doi-asserted-by":"publisher","first-page":"402","DOI":"10.1006\/meth.2001.1262","article-title":"Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method","volume":"25","author":"Livak","year":"2001","journal-title":"Methods"},{"key":"2024020118254527700_CR31","doi-asserted-by":"publisher","first-page":"3358","DOI":"10.1128\/JCM.01093-09","article-title":"Implanted-port-catheter-related sepsis caused by Acidovorax avenae and methicillin-sensitive Staphylococcus aureus","volume":"47","author":"Malkan","year":"2009","journal-title":"J Clin Microbiol"},{"key":"2024020118254527700_CR32","doi-asserted-by":"publisher","first-page":"e20447","DOI":"10.1371\/journal.pone.0020447","article-title":"Towards the human colorectal cancer microbiome","volume":"6","author":"Marchesi","year":"2011","journal-title":"PLoS One"},{"key":"2024020118254527700_CR33","doi-asserted-by":"publisher","first-page":"376","DOI":"10.1038\/nature03959","article-title":"Genome sequencing in microfabricated high-density picolitre reactors","volume":"437","author":"Margulies","year":"2005","journal-title":"Nature"},{"key":"2024020118254527700_CR34","doi-asserted-by":"crossref","first-page":"3202","DOI":"10.1128\/aem.61.9.3202-3207.1995","article-title":"Intestinal floras of populations that have a high risk of colon cancer","volume":"61","author":"Moore","year":"1995","journal-title":"Appl Environ Microbiol"},{"key":"2024020118254527700_CR35","doi-asserted-by":"publisher","first-page":"856","DOI":"10.1373\/clinchem.2008.107565","article-title":"Metagenomic pyrosequencing and microbial identification","volume":"55","author":"Petrosino","year":"2009","journal-title":"Clin Chem"},{"key":"2024020118254527700_CR36","doi-asserted-by":"crossref","first-page":"164","DOI":"10.1002\/0470090480.ch12","article-title":"Animal models of intestinal inflammation: clues to the pathogenesis of inflammatory bowel disease","volume":"263","author":"Powrie","year":"2004","journal-title":"Novartis Found Symp"},{"key":"2024020118254527700_CR37","first-page":"1","article-title":"Role of the innate immune system and host-commensal mutualism","volume":"308","author":"Rakoff-Nahoum","year":"2006","journal-title":"Curr Top Microbiol Immunol"},{"key":"2024020118254527700_CR38","doi-asserted-by":"publisher","first-page":"229","DOI":"10.1016\/j.cell.2004.07.002","article-title":"Recognition of commensal microflora by toll-like receptors is required for intestinal homeostasis","volume":"118","author":"Rakoff-Nahoum","year":"2004","journal-title":"Cell"},{"key":"2024020118254527700_CR39","doi-asserted-by":"publisher","first-page":"107","DOI":"10.1146\/annurev.mi.31.100177.000543","article-title":"Microbial ecology of the gastrointestinal tract","volume":"31","author":"Savage","year":"1977","journal-title":"Annu Rev Microbiol"},{"key":"2024020118254527700_CR40","doi-asserted-by":"publisher","first-page":"789","DOI":"10.1111\/j.1462-2920.2007.01503.x","article-title":"Culture-independent analysis of the gut microbiota in colorectal cancer and polyposis","volume":"10","author":"Scanlan","year":"2008","journal-title":"Environ Microbiol"},{"key":"2024020118254527700_CR41","doi-asserted-by":"publisher","first-page":"138","DOI":"10.4161\/gmic.1.3.12360","article-title":"Molecular characterization of mucosal adherent bacteria and associations with colorectal adenomas","volume":"1","author":"Shen","year":"2010","journal-title":"Gut Microbes"},{"key":"2024020118254527700_CR42","doi-asserted-by":"publisher","first-page":"e16393","DOI":"10.1371\/journal.pone.0016393","article-title":"Microbial dysbiosis in colorectal cancer (CRC) patients","volume":"6","author":"Sobhani","year":"2011","journal-title":"PLoS One"},{"key":"2024020118254527700_CR43","doi-asserted-by":"publisher","first-page":"525","DOI":"10.1111\/j.1364-3703.2008.00477.x","article-title":"Expression of a bacterial flagellin gene triggers plant immune responses and confers disease resistance in transgenic rice plants","volume":"9","author":"Takakura","year":"2008","journal-title":"Mol Plant Pathol"},{"key":"2024020118254527700_CR44","doi-asserted-by":"publisher","first-page":"422","DOI":"10.1094\/MPMI.2003.16.5.422","article-title":"Flagellin from an incompatible strain of Acidovorax avenae mediates H2O2 generation accompanying hypersensitive cell death and expression of PAL, Cht-1, and PBZ1, but not of Lox in rice","volume":"16","author":"Tanaka","year":"2003","journal-title":"Mol Plant Microbe Interact"},{"key":"2024020118254527700_CR45","doi-asserted-by":"publisher","first-page":"139","DOI":"10.1590\/S0004-27302009000200004","article-title":"Translational research into gut microbiota: new horizons in obesity treatment","volume":"53","author":"Tsukumo","year":"2009","journal-title":"Arq Bras Endocrinol Metabol"},{"key":"2024020118254527700_CR46","doi-asserted-by":"publisher","first-page":"4153","DOI":"10.1113\/jphysiol.2009.174136","article-title":"The core gut microbiome, energy balance and obesity","volume":"587","author":"Turnbaugh","year":"2009","journal-title":"J Physiol"},{"key":"2024020118254527700_CR47","doi-asserted-by":"publisher","first-page":"480","DOI":"10.1038\/nature07540","article-title":"A core gut microbiome in obese and lean twins","volume":"457","author":"Turnbaugh","year":"2009","journal-title":"Nature"},{"key":"2024020118254527700_CR48","doi-asserted-by":"publisher","first-page":"1027","DOI":"10.1038\/nature05414","article-title":"An obesity-associated gut microbiome with increased capacity for energy harvest","volume":"444","author":"Turnbaugh","year":"2006","journal-title":"Nature"},{"key":"2024020118254527700_CR49","doi-asserted-by":"publisher","first-page":"5261","DOI":"10.1128\/AEM.00062-07","article-title":"Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy","volume":"73","author":"Wang","year":"2007","journal-title":"Appl Environ Microbiol"},{"key":"2024020118254527700_CR50","doi-asserted-by":"publisher","first-page":"653","DOI":"10.1002\/ibd.20783","article-title":"Twin studies reveal specific imbalances in the mucosa-associated microbiota of patients with ileal Crohn's disease","volume":"15","author":"Willing","year":"2009","journal-title":"Inflamm Bowel Dis"},{"key":"2024020118254527700_CR51","doi-asserted-by":"publisher","first-page":"2365","DOI":"10.1073\/pnas.0812600106","article-title":"Human gut microbiota in obesity and after gastric bypass","volume":"106","author":"Zhang","year":"2009","journal-title":"Proc Natl Acad Sci USA"},{"key":"2024020118254527700_CR52","doi-asserted-by":"publisher","first-page":"75","DOI":"10.1111\/j.1523-5378.2006.00381.x","article-title":"Helicobacter pylori infection and colorectal cancer risk: a meta-analysis","volume":"11","author":"Zumkeller","year":"2006","journal-title":"Helicobacter"}],"container-title":["The ISME Journal"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/www.nature.com\/articles\/ismej201243.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/www.nature.com\/articles\/ismej201243","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/academic.oup.com\/ismej\/article-pdf\/6\/10\/1858\/56399397\/41396_2012_article_bfismej201243.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"http:\/\/www.nature.com\/articles\/ismej201243.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"},{"URL":"https:\/\/academic.oup.com\/ismej\/article-pdf\/6\/10\/1858\/56399397\/41396_2012_article_bfismej201243.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,4,24]],"date-time":"2024-04-24T19:40:28Z","timestamp":1713987628000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/ismej\/article\/6\/10\/1858\/7587745"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2012,5,24]]},"references-count":52,"journal-issue":{"issue":"10","published-print":{"date-parts":[[2012,10,1]]}},"URL":"https:\/\/doi.org\/10.1038\/ismej.2012.43","relation":{},"ISSN":["1751-7362","1751-7370"],"issn-type":[{"value":"1751-7362","type":"print"},{"value":"1751-7370","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2012,10]]},"published":{"date-parts":[[2012,5,24]]}}}