Summary of Study ST002342

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 PR001504. The data can be accessed directly via it's Project DOI: 10.21228/M88X2F This work is supported by NIH grant, U2C- DK119886.


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 IDST002342
Study TitleThe gut microbiome has sexually dimorphic effects on bone tissue energy metabolism and multiscale bone quality in C57BL/6J mice
Study SummaryMale and female germ-free and conventional were euthanized at 20 weeks of age, and various tissues were obtained to assess differences in bone properties associated with microbiome status and sex. For metabolomic analyses, the humeri was obtained, bone marrow was flushed using PBS, and subchondral bone metabolites were extracted using a methanol:acetone precipitation approach. Next, samples were injected, ionized, and data was acquired using LC-MS. Data was processed and converted using MSConvert and XCMS. Following this step, metabolic phenotypes of mice that differ by microbiome status and sex were investigated using MetaboAnalyst. Differences in metabolism were related to lipid, energy, and amino acid metabolism. Specifically, females, both conventional and germ-free, had dysregulated lipid metabolism, whereas, males, both conventional and germ-free had dysregulated amino acid metabolism. Other differences detected between male and female mice that differ by germ-free status corresponded to differences in bone strength, bone marrow adiposity, and osteocyte density.
Montana State University
DepartmentMechanical & Industrial Engineering, Chemistry & Biochemistry
Last NameWelhaven
First NameHope
AddressCulbertson Hall, 100
Submit Date2022-10-19
Num Groups4
Total Subjects33
Num Males17
Num Females16
Raw Data AvailableYes
Raw Data File Type(s)mzML
Analysis Type DetailLC-MS
Release Date2022-11-28
Release Version1
Hope Welhaven Hope Welhaven application/zip

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

mb_sample_id local_sample_id Sex Microbiome Status
SA235201H33Female Control
SA235202H34Female Control
SA235203H35Female Control
SA235204H32Female Control
SA235205H27Female Control
SA235206H30Female Control
SA235207H29Female Control
SA235208H28Female Control
SA235209H36Female Control
SA235210H31Female Control
SA235211H18Female Germ-Free
SA235212H20Female Germ-Free
SA235213H3Female Germ-Free
SA235214H1Female Germ-Free
SA235215H19Female Germ-Free
SA235216H2Female Germ-Free
SA235217H5Male Control
SA235218H6Male Control
SA235219H4Male Control
SA235220H13Male Control
SA235221H7Male Control
SA235222H8Male Control
SA235223H11Male Control
SA235224H12Male Control
SA235225H9Male Control
SA235226H10Male Control
SA235227H17Male Germ-Free
SA235228H15Male Germ-Free
SA235229H14Male Germ-Free
SA235230H16Male Germ-Free
SA235231H21Male Germ-Free
SA235232H22Male Germ-Free
SA235233H23Male Germ-Free
Showing results 1 to 33 of 33