Summary of Study ST001389

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 PR000952. The data can be accessed directly via it's Project DOI: 10.21228/M8N397 This work is supported by NIH grant, U2C- DK119886.

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Study IDST001389
Study TitleQuantitative amino acids and biogenic amines study on total murine liver tissue from mice at different age
Study TypeLiver tissue/Primary tissue
Study SummaryAmino acids and biogenic amines in total liver tissue from healthy C57BL/6 mice at 1, 7, 14, 21, 28 and 56 day after birth was analyzed.
Institute
Helmholtz Centre for Environmental Research
DepartmentDepartment of Molecular Systems biology
LaboratoryFunctional Metabolomics
Last NameRolle-Kampczyk
First NameUlrike
AddressPermoserstrasse 15, 04318 Leipzig, Germany
Emailulrike.rolle-kampczyk@ufz.de
Phone0049 341 235 1537
Submit Date2020-06-02
Raw Data AvailableYes
Raw Data File Type(s)wiff
Analysis Type DetailLC-MS
Release Date2020-06-10
Release Version1
Ulrike Rolle-Kampczyk Ulrike Rolle-Kampczyk
https://dx.doi.org/10.21228/M8N397
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR000952
Project DOI:doi: 10.21228/M8N397
Project Title:Enteric microbiota and liver metabolomics during the postnatal period
Project Summary:Following birth, the neonatal intestine is exposed to maternal and environmental bacteria that successively form a dense and highly dynamic intestinal microbiota. Whereas the effect of exogenous factors has been extensively investigated, endogenous, host-mediated mechanisms have remained largely unexplored. Concomitantly with microbial colonization, the liver undergoes functional transition from a hematopoietic organ to a central organ of metabolic regulation and immune surveillance. The aim of the present study was to analyze the influence of the developing hepatic function and liver metabolism on the early intestinal microbiota. Using metabolomic and microbial profiling in combination with multivariate analysis we characterized the colonization dynamics and liver metabolism in the murine gastrointestinal tract (n=6-10 per age group). We observed major age-dependent microbial and metabolic changes and identified bile acids as potent drivers of the early intestinal microbiota maturation. Consistently, oral administration of tauro-cholic acid or β-tauro-murocholic acid to newborn mice (n= 7-14 per group) accelerated postnatal microbiota maturation.
Institute:Helmholtz Centre for Environmental Research - UFZ
Last Name:Haange
First Name:Sven
Address:Permoserstrasse 1, Leipzig, Saxony, 04318, Germany
Email:sven.haange@ufz.de
Phone:0049 341 2351099

Subject:

Subject ID:SU001463
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 Day after birth
SA113165L_K9D11
SA113166L_K11D11
SA113167L_K10D11
SA113173L_K11D1414
SA113174L_K10D1414
SA113175L_K9D1414
SA113176L_K8D1414
SA113177L_K7D1414
SA113178L_K11D2121
SA113179L_K10D2121
SA113180L_K8D2121
SA113181L_K9D2121
SA113182L_K7D2121
SA113183L_K10D2828
SA113184L_K11D2828
SA113185L_K9D2828
SA113186L_K7D2828
SA113187L_K8D2828
SA113188L_K11D5656
SA113189L_K10D5656
SA113190L_K8D5656
SA113191L_K7D5656
SA113192L_K9D5656
SA113168L_K10D77
SA113169L_K11D77
SA113170L_K9D77
SA113171L_K8D77
SA113172L_K7D77
Showing results 1 to 28 of 28

Collection:

Collection ID:CO001458
Collection Summary:Animals were sacrificed and the liver tissue was removed, snap frozen in liquid nitrogen and stored at -80°C until further analysis
Sample Type:Liver

Treatment:

Treatment ID:TR001478
Treatment Summary:All C57BL6J wildtype mice were bred locally and held under specific pathogen-free conditions at the Institute of Laboratory Animal Science at RWTH Aachen University Hospital. The day of birth was considered day 0, i.e. animals screened at day 1 were approximately 24 h old and verified to have ingested breast milk (abdominal milk spot). Mice were weaned at PND21.

Sample Preparation:

Sampleprep ID:SP001471
Sampleprep Summary:Solvents: Acetonitril (Merck KGaA, Darmstadt, Germany hypergrade for LC-MS) Water MiliQ, Extracting agent - ACN / H2O (1:1) Equipment 4 steel balls size M Eppendorf Tubes 2mL Tissue slicer (Rettberg, Germany) Centrifuge (Sigma) Work steps To approximately 100 mg of sample four steel balls of size M rae added in Eppendorf tubes. Then add for each mg of sample 5 µL of extracting agent. Shake the samples for 10 minutes at 30 Hz in the tissue slicer and centrifuge for 2 minutes at 14000 rpm. The supernatant is used for targeted analytics as described in the kit manufactures manual. Kit measurement The analysis was performed using the validated Bile Acid Kit (Biocrates Life Sciences, Inssbruck, Austria) as described in Pham et al. 2017 [1]. Data processing is carried out with the provided quantitation method Kit (Biocrates Life Sciences AG, Innsbruck, Austria). 1 Pham HT, Arnhard K, Asad YJ, Deng L, Felder TK, St John-Williams L, et al. Inter-Laboratory Robustness of Next-Generation Bile Acid Study in Mice and Humans: International Ring Trial Involving 12 Laboratories. The Journal of Applied Laboratory Medicine 2019;1:129-42.
Sampleprep Protocol Filename:sven_haange_20200602_Sample_preparation.pdf

Combined analysis:

Analysis ID AN002318
Analysis type MS
Chromatography type Reversed phase
Chromatography system UPLC (Waters Acquity, Waters Corporation, Milford, USA)
Column none
MS Type ESI
MS instrument type Triple quadrupole
MS instrument name ABI Sciex 5500 QTrap
Ion Mode POSITIVE
Units µM

Chromatography:

Chromatography ID:CH001704
Instrument Name:UPLC (Waters Acquity, Waters Corporation, Milford, USA)
Column Name:none
Chromatography Type:Reversed phase

MS:

MS ID:MS002161
Analysis ID:AN002318
Instrument Name:ABI Sciex 5500 QTrap
Instrument Type:Triple quadrupole
MS Type:ESI
MS Comments:Analyst version 1.6 Software from SCIEX. For Validation METIDQ Software version Boron from Biocrates
Ion Mode:POSITIVE
Analysis Protocol File:sven_haange_20201002_055740_MS-parameters.pdf
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