Summary of study ST001299

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR000880. The data can be accessed directly via it's Project DOI: 10.21228/M8XX1Z This work is supported by NIH grant, U2C- DK119886.

See: https://www.metabolomicsworkbench.org/about/howtocite.php

This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

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Study IDST001299
Study TitleMetatranscriptomic Analysis of the Mouse Gut Microbiome Response to the Persistent Organic Pollutant 2,3,7,8-Tetrachlorodibenzofuran
Study SummaryPersistent organic pollutants (POPs) are important environmental chemicals and continued study of their mechanism of action remains a high priority. POPs, such as 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD), 2,3,7,8-tetrachlorodibenzofuran (TCDF), and polychlorinated biphenyls (PCBs), are widespread environmental contaminants that are agonists for the aryl hydrocarbon receptor (AHR). Activation of the AHR modulates the gut microbiome community structure and function, host immunity, and the host metabolome. In the current study, male C57BL6/J mice were exposed, via the diet, to 5 ug/kg body weight (BW) TCDF or 24 ug/kg BW of TCDF every day for 5 days. The functional and structural changes imparted by TCDF exposure to the gut microbiome and host metabolome were explored via 16S rRNA gene amplicon sequencing, metabolomics, and bacterial metatranscriptomics. Significant changes included increases in lipopolysaccharide (LPS) biosynthesis gene expression after exposure to 24 ug/kg BW of TCDF. Increases in LPS biosynthesis were confirmed with metabolomics and LPS assays using serum obtained from TCDF-treated mice. Significant increases in gene expression within aspartate and glutamate metabolism were noted after exposure to 24 ug/kg BW of TCDF. Together, these results suggest that after exposure to 24 ug/kg BW of TCDF, the gut microbiome increases the production of LPS and glutamate to promote localized gut inflammation, potentially using glutamate as a stress response.
Institute
Pennsylvania State University
Last NameNichols
First NameRobert
Address917 Old Boalsburg Road, State College, Pennsylvania, 16801, USA
Emailrgn5011@psu.edu
Phone7247662694
Submit Date2020-01-06
Raw Data AvailableYes
Raw Data File Type(s).raw
Analysis Type DetailLC-MS
Release Date2020-03-03
Release Version1
Robert Nichols Robert Nichols
https://dx.doi.org/10.21228/M8XX1Z
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:


Project:

Project ID:PR000880
Project DOI:doi: 10.21228/M8XX1Z
Project Title:Metatranscriptomic Analysis of the Mouse Gut Microbiome Response to the Persistent Organic Pollutant 2,3,7,8-Tetrachlorodibenzofuran
Project Summary:Persistent organic pollutants (POPs) are important environmental chemicals and continued study of their mechanism of action remains a high priority. POPs, such as 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD), 2,3,7,8-tetrachlorodibenzofuran (TCDF), and polychlorinated biphenyls (PCBs), are widespread environmental contaminants that are agonists for the aryl hydrocarbon receptor (AHR). Activation of the AHR modulates the gut microbiome community structure and function, host immunity, and the host metabolome. In the current study, male C57BL6/J mice were exposed, via the diet, to 5 ug/kg body weight (BW) TCDF or 24 ug/kg BW of TCDF every day for 5 days. The functional and structural changes imparted by TCDF exposure to the gut microbiome and host metabolome were explored via 16S rRNA gene amplicon sequencing, metabolomics, and bacterial metatranscriptomics. Significant changes included increases in lipopolysaccharide (LPS) biosynthesis gene expression after exposure to 24 ug/kg BW of TCDF. Increases in LPS biosynthesis were confirmed with metabolomics and LPS assays using serum obtained from TCDF-treated mice. Significant increases in gene expression within aspartate and glutamate metabolism were noted after exposure to 24 ug/kg BW of TCDF. Together, these results suggest that after exposure to 24 ug/kg BW of TCDF, the gut microbiome increases the production of LPS and glutamate to promote localized gut inflammation, potentially using glutamate as a stress response.
Institute:Pennsylvania State University
Last Name:Nichols
First Name:Robert
Address:917 Old Boalsburg Road, State College, Pennsylvania, 16801, USA
Email:rgn5011@psu.edu
Phone:7247662694

Subject:

Subject ID:SU001373
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090

Factors:

Subject type: Mammal; Subject species: Mus musculus (Factor headings shown in green)

mb_sample_id local_sample_id Treatment
SA094223C2Control
SA094224C1Control
SA094225C5Control
SA094226C6Control
SA094227C3Control
SA094228C4Control
SA094229H3High Dose TCDF
SA094230H1High Dose TCDF
SA094231H4High Dose TCDF
SA094232H2High Dose TCDF
SA094233H6High Dose TCDF
SA094234H5High Dose TCDF
SA094235L4Low Dose TCDF
SA094236L1Low Dose TCDF
SA094237L2Low Dose TCDF
SA094238L3Low Dose TCDF
SA094239L5Low Dose TCDF
SA094240L6Low Dose TCDF
Showing results 1 to 18 of 18

Collection:

Collection ID:CO001368
Collection Summary:Cecal contents were extracted and then sub sampled for analysis. 100mgs of cecal contents were then used for extraction.
Sample Type:Cecum

Treatment:

Treatment ID:TR001388
Treatment Summary:Mice were treated with either 5 ug/kg of TCDF or 24 ug/kg of TCDF or untreated dough pills

Sample Preparation:

Sampleprep ID:SP001381
Sampleprep Summary:See attached Sample prep doc (GC_Sample_Prep.doc)

Combined analysis:

Analysis ID AN002163
Analysis type MS
Chromatography type Reversed phase
Chromatography system Thermo Dionex Ultimate 3000
Column Hydro-RP C18 column
MS Type ESI
MS instrument type Orbitrap
MS instrument name Thermo Q Exactive Plus Orbitrap
Ion Mode POSITIVE
Units ppm

Chromatography:

Chromatography ID:CH001581
Instrument Name:Thermo Dionex Ultimate 3000
Column Name:Hydro-RP C18 column
Chromatography Type:Reversed phase

MS:

MS ID:MS002012
Analysis ID:AN002163
Instrument Name:Thermo Q Exactive Plus Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
MS Comments:none
Ion Mode:POSITIVE
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