Summary of Study ST001287

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 PR000869. The data can be accessed directly via it's Project DOI: 10.21228/M8C40P This work is supported by NIH grant, U2C- DK119886.

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Study IDST001287
Study TitleLuminal succinate in UC-HMA (human microbiota-associated) mice.
Study TypeMS analysis
Study SummaryPatients with ulcerative colitis (UC) are known to be at higher risk for Clostridium difficile (C. difficile) infection (CDI), and CDI in UC patients is recognized as a major clinical problem because it worsens UC outcome. In order to assess the role of gut dysbiosis, seen in UC patients, we have established a human microbiota-associated mouse model in which germ-free mice are colonized with gut microbiota from UC patients. Utilizing this model, we found that UC microbiota colonized HMA mice (UC-HMA mice) were susceptible to CDI. To address the mechanism by which UC-HMA mice are unable to acquire the colonization resistance against C. difficile, we analyzed the luminal metabolites in UC-HMA mice, especially in succinate which is a crucial metabolite doe the growth of C. difficile.
Institute
University of Michigan
DepartmentBiomedical Research Core Facilities
LaboratoryMetabolomics core
Last NameKachman
First NameMaureen
AddressAnn Arbor, MI
Emailmkachman@med.umich.edu
Phone734-232-0842
Submit Date2019-12-11
Num Groups63
Total Subjects3
Raw Data AvailableYes
Raw Data File Type(s)d
Analysis Type DetailLC-MS
Release Date2020-01-13
Release Version1
Maureen Kachman Maureen Kachman
https://dx.doi.org/10.21228/M8C40P
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000869
Project DOI:doi: 10.21228/M8C40P
Project Title:Association of luminal succinate in UC-Mb mice and succinate consuming bacteria
Project Type:MS analysis
Project Summary:Measure the levels of luminal succinate in UC-Mb mice (UC-Mb colonized human gnotobiotic mise) and succinate consuming bacteria inoculated UC-Mb mice to elucidate the association between the increased abundance of succinate consuming bacteira and decreased amounts of luminal succinate in CDI-susceptible UC-Mb mice.
Institute:University of Michigan
Department:Internal Medicine-Gastroenterology
Laboratory:Kamada Lab
Last Name:Kamada
First Name:Nobuhiko
Address:Ann Arbor, MI
Email:nkamada@umich.edu
Phone:734-763-2142

Subject:

Subject ID:SU001365
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Genotype Strain:UC-hGB

Factors:

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

mb_sample_id local_sample_id Replication Treatment
SA093870S00034622#1 Ctrl
SA093871S00034623#1 Ctrl
SA093872S00034624#1 Ctrl
SA093873S00034625#1 SuccinateConsumingBacteria
SA093874S00034626#1 SuccinateConsumingBacteria
SA093875S00034630#2 Ctrl
SA093876S00034631#2 Ctrl
SA093877S00034628#2 Ctrl
SA093878S00034627#2 Ctrl
SA093879S00034629#2 Ctrl
SA093880S00034636#2 SuccinateConsumingBacteria
SA093881S00034635#2 SuccinateConsumingBacteria
SA093882S00034634#2 SuccinateConsumingBacteria
SA093883S00034632#2 SuccinateConsumingBacteria
SA093884S00034633#2 SuccinateConsumingBacteria
SA093885S00034642#3 Ctrl
SA093886S00034641#3 Ctrl
SA093887S00034643#3 Ctrl
SA093888S00034637#3 Ctrl
SA093889S00034640#3 Ctrl
SA093890S00034638#3 Ctrl
SA093891S00034639#3 Ctrl
SA093892S00034650#3 SuccinateConsumingBacteria
SA093893S00034651#3 SuccinateConsumingBacteria
SA093894S00034649#3 SuccinateConsumingBacteria
SA093895S00034647#3 SuccinateConsumingBacteria
SA093896S00034644#3 SuccinateConsumingBacteria
SA093897S00034645#3 SuccinateConsumingBacteria
SA093898S00034646#3 SuccinateConsumingBacteria
SA093899S00034648#3 SuccinateConsumingBacteria
Showing results 1 to 30 of 30

Collection:

Collection ID:CO001360
Collection Summary:Mouse feces
Sample Type:Feces

Treatment:

Treatment ID:TR001380
Treatment Summary:None

Sample Preparation:

Sampleprep ID:SP001373
Sampleprep Protocol Filename:2018-4-20_Succinate_fecal_EX00837.docx

Combined analysis:

Analysis ID AN002147 AN002148
Analysis type MS MS
Chromatography type HILIC HILIC
Chromatography system Agilent Q-TOF 6520 Agilent Q-TOF 6520
Column Phenomenex Luna NH2, 1mm ID Phenomenex Luna NH2, 1mm ID
MS Type ESI ESI
MS instrument type QTOF QTOF
MS instrument name Agilent 6520 QTOF Agilent 6520 QTOF
Ion Mode NEGATIVE NEGATIVE
Units pmol/mg Peak area normalized

Chromatography:

Chromatography ID:CH001571
Methods Filename:002-HILIC-27min-1mm-flatInsert_-_A2B2.m.zip
Instrument Name:Agilent Q-TOF 6520
Column Name:Phenomenex Luna NH2, 1mm ID
Chromatography Type:HILIC

MS:

MS ID:MS001998
Analysis ID:AN002147
Instrument Name:Agilent 6520 QTOF
Instrument Type:QTOF
MS Type:ESI
MS Comments:Agilent Quant V8 was used for data analysis
Ion Mode:NEGATIVE
  
MS ID:MS001999
Analysis ID:AN002148
Instrument Name:Agilent 6520 QTOF
Instrument Type:QTOF
MS Type:ESI
MS Comments:Agilent Quant V8 was used for data analysis
Ion Mode:NEGATIVE
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