Summary of Study ST000495

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench,, where it has been assigned Project ID PR000372. The data can be accessed directly via it's Project DOI: 10.21228/M8ZP5C This work is supported by NIH grant, U2C- DK119886.


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Study IDST000495
Study TitleMetabolomic profiles along the gastrointestinal tract of the healthy dog
Study SummaryIntroduction: The fecal microbiome is relevant to the health and disease of many species. The importance of the fecal metabolome has more recently been appreciated, but our knowledge of the microbiome and metabolome at other sites along the gastrointestinal tract remains deficient. Objective: To analyze the gastrointestinal microbiome and metabolome of healthy domestic dogs at four anatomical sites. Methods: Samples of the duodenal, ileal, colonic, and rectal contents were collected from six adult dogs after humane euthanasia for an unrelated study. The microbiota were characterized using Illumina sequencing of 16S rRNA genes. The metabolome was characterized by mass spectrometry-based methods. Results: Prevalent phyla throughout the samples were Proteobacteria, Firmicutes, Fusobacteria, and Bacteroidetes, consistent with previous findings in dogs and other species. A total of 530 unique metabolites were detected; 199 of these were identified as previously named compounds, but 141 of them had at least one significantly different site-pair comparison. Noteworthy examples include amino acids, which decreased from the small to large intestine; pyruvate, which was at peak concentrations in the ileum; and several phenol-containing carboxylic acid compounds that increased in the large intestine. Conclusion: The microbiome and metabolome vary significantly at different sites along the canine gastrointestinal tract.
University of California, Davis
DepartmentGenome and Biomedical Sciences Facility
LaboratoryWCMC Metabolomics Core
Last NameFiehn
First NameOliver
Address1315 Genome and Biomedical Sciences Facility, 451 Health Sciences Drive, Davis, CA 95616
Phone(530) 754-8258
Submit Date2016-10-17
Num Groups4
Total Subjects24
Num Males4
Num Females2
Raw Data AvailableYes
Raw Data File Type(s)cdf
Analysis Type DetailGC-MS
Release Date2016-12-22
Release Version1
Oliver Fiehn Oliver Fiehn application/zip

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Collection ID:CO000510
Collection Summary:Animals were euthanized for an unrelated study. Within 1-3 hours after euthanasia, a ventral midline approach was used to access the gastrointestinal tract. A longitudinal incision was made through the serosal surface at each site sampled to expose a length of the lumen. Disposable plastic spatulae were used to collect intestinal contents from each site. Duodenal samples were collected aborally to the cranial flexure. The ileum was identified by the antimesenteric artery. The colon was identified by location in situ and samples were collected from the transverse or descending colon. Rectal contents were collected from as caudally as possible while still sampling through the abdominal incision.
Sample Type:Other (digesta/intestinal contents)
Collection Frequency:Once
Collection Duration:Once
Volumeoramount Collected:Five aliquots of 50-100mg
Storage Conditions:-80°C
Collection Vials:2 mL screw cap polypropylene vials
Storage Vials:2 mL screw cap polypropylene vials
Collection Tube Temp:room temp