Summary of Study ST000083

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 PR000075. The data can be accessed directly via it's Project DOI: 10.21228/M86K5H This work is supported by NIH grant, U2C- DK119886.


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Study IDST000083
Study TitleA Multi-Omic View of Host-Pathogen-Commensal Interplay in Salmonella-Mediated Intestinal Infection
Study TypeTimecourse of Infection
Study SummaryThe potential for commensal microorganisms indigenous to a host (the ‘microbiome’ or ‘microbiota’) to alter infection outcome by influencing host-pathogen interplay is largely unknown. We used a multi-omics ‘‘systems’’ approach, incorporating proteomics, metabolomics, glycomics, and metagenomics, to explore the molecular interplay between the murine host, the pathogen Salmonella enterica serovar Typhimurium (S. Typhimurium), and commensal gut microorganisms during intestinal infection with S. Typhimurium. We find proteomic evidence that S. Typhimurium thrives within the infected 129/SvJ mouse gut without antibiotic pre-treatment, inducing inflammation and disrupting the intestinal microbiome (e.g., suppressing Bacteroidetes and Firmicutes while promoting growth of Salmonella and Enterococcus). Alteration of the host microbiome population structure was highly correlated with gut environmental changes, including the accumulation of metabolites normally consumed by commensal microbiota. Finally, the less characterized phase of S. Typhimurium’s lifecycle was investigated, and both proteomic and glycomic evidence suggests S. Typhimurium may take advantage of increased fucose moieties to metabolize fucose while growing in the gut. The application of multiple omics measurements to Salmonella-induced intestinal inflammation provides insights into complex molecular strategies employed during pathogenesis between host, pathogen, and the microbiome.
Pacific Northwest National Laboratory
DepartmentBiological Separation and Mass Spectrometry
Last NameMetz
First NameThomas
Submit Date2014-06-25
Num Groups4
Total Subjects30
Raw Data AvailableYes
Raw Data File Type(s)cdf, d
Uploaded File Size268 M
Analysis Type DetailGC-MS
Release Date2014-07-30
Release Version1
Thomas Metz Thomas Metz application/zip

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Collection ID:CO000085
Collection Summary:Feces collected and frozen at seven time points post infection and one time point pre-infection
Collection Protocol Comments:On the day prior to infection (day -1), and at seven time points post-infection, mice from one cage were transferred to a clean cage and fecal samples produced at that time were collected, pooled, and immediately frozen at -80° C. Samples were collected on days -1, 1, 3, 6, 10, 14, 21, and 28.
Sample Type:Feces
Collection Method:Fecal matter collection
Collection Location:mice from one cage were transferred to a clean cage and fecal samples produced
Collection Frequency:days -1, 1, 3, 6, 10, 14, 21, and 28 relative to day of infection (day 0)
Collection Time:days -1, 1, 3, 6, 10, 14, 21, and 28 relative to day of infection (day 0)
Volumeoramount Collected:four to 25 fecal pellets per pooled sample
Storage Conditions:frozen at -80° C