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United States Department of Agriculture

Agricultural Research Service

Research Project: CLINICAL NUTRITION IN CHILDREN

Location: Children's Nutrition Research Center

Title: Gastrointestinal microbiome signatures of pediatric patients with irritable bowel syndrome

Author
item Saulnier, Delphine
item Riehle, Kevin
item Mistretta, Toni–ann
item Diaz, Maria–alejandra
item Mandal, Debasmita
item Raza, Sabeen
item Weidler, Erica
item Qin, Xiang
item Coarfa, Cristian
item Milosavljevic, Aleksandar
item Petrosino, Joseph
item Highlander, Sarah
item Gibbs, Richard
item Lynch, Susan
item Shulman, Robert
item Versalovic, James

Submitted to: Gastroenterology
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 6/24/2011
Publication Date: 11/1/2011
Citation: Saulnier, D.M., Riehle, K., Mistretta, T., Diaz, M., Mandal, D., Raza, S., Weidler, E.M., Qin, X., Coarfa, C., Milosavljevic, A., Petrosino, J.F., Highlander, S., Gibbs, R., Lynch, S.V., Shulman, R.J., Versalovic, J. 2011. Gastrointestinal microbiome signatures of pediatric patients with irritable bowel syndrome. Gastroenterology. 141(5):1782-1791.

Interpretive Summary: The bacteria in our intestines interact with us to promote our health by helping us digest food and keeping our immune system healthy. However, in some cases, they can cause problems. In this study we discover that certain bacteria in the intestines can be associated with constipation or belly pain. These findings are important as we look for approaches to address these issues.

Technical Abstract: The intestinal microbiomes of healthy children and pediatric patients with irritable bowel syndrome (IBS) are not well defined. Studies in adults have indicated that the gastrointestinal microbiota could be involved in IBS. We analyzed 71 samples from 22 children with IBS (pediatric Rome III criteria) and 22 healthy children, ages 7-12 years, by 16S ribosomal RNA gene sequencing, with an average of 54,287 reads/stool sample (average 454 read length = 503 bases). Data were analyzed using phylogenetic-based clustering (Unifrac), or an operational taxonomic unit (OTU) approach using a supervised machine learning tool (randomForest). Most samples were also hybridized to a microarray that can detect 8741 bacterial taxa (16S rRNA PhyloChip). Microbiomes associated with pediatric IBS were characterized by a significantly greater percentage of the class '-proteobacteria (0.07% vs 0.89% of total bacteria, respectively; P < .05); 1 prominent component of this group was Haemophilus parainfluenzae. Differences highlighted by 454 sequencing were confirmed by high-resolution PhyloChip analysis. Using supervised learning techniques, we were able to classify different subtypes of IBS with a success rate of 98.5%, using limited sets of discriminant bacterial species. A novel Ruminococcus-like microbe was associated with IBS, indicating the potential utility of microbe discovery for gastrointestinal disorders. A greater frequency of pain correlated with an increased abundance of several bacterial taxa from the genus Alistipes. Using 16S metagenomics by PhyloChip DNA hybridization and deep 454 pyrosequencing, we associated specific microbiome signatures with pediatric IBS. These findings indicate the important association between gastrointestinal microbes and IBS in children; these approaches might be used in diagnosis of functional bowel disorders in pediatric patients.

Last Modified: 09/25/2017
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