Summary of Study ST003457

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 PR002122. The data can be accessed directly via it's Project DOI: 10.21228/M8B52G 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 IDST003457
Study TitleMetabolomics of mice heart to support understanding of early metabolic shift in presymptomatic sepsis patients. (Part3 mice heart metabolite)
Study SummarySepsis, a life-threatening organ dysfunction caused by a dysregulated response to infection, is a critical medical condition with significant global impact, responsible for 48.9 million cases and 11 million deaths annually. Metabolic dysregulation in sepsis is a critical determinant of disease outcome, yet most studies focus on patients after severe illness onset, comparing septic versus non-septic groups or survivors versus non-survivors. To truly understand this complex disease, it is essential to investigate early metabolic shifts, capturing the transition from simple infection to sepsis. Our untargeted metabolome analysis of heart tissues in mice model revealed early septic biomarkers in heart.
Institute
Leibniz Institute for Natural Product Research and Infection Biology Hans Knöll Institute
DepartmentMicrobiome Dynamics
Last NameXU
First NameLINLIN
AddressBeutenbergstraße 11a, Jena, Thuringia, 07745, Germany
EmailLin-Lin.Xu@hki-jena.de
Phone+4936415321265
Submit Date2024-09-04
Raw Data AvailableYes
Raw Data File Type(s)mzML
Analysis Type DetailLC-MS
Release Date2025-05-26
Release Version1
LINLIN XU LINLIN XU
https://dx.doi.org/10.21228/M8B52G
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR002122
Project DOI:doi: 10.21228/M8B52G
Project Title:Early Metabolic Shifts in the Sepsis: Insights from Presymptomatic Patients and In Vivo Models.
Project Type:MS quantitative analysis
Project Summary:Metabolomics of human serum to support understanding of early metabolic shift in presymptomatic sepsis patients and further confirmed in in vivo model.
Institute:Leibniz Institute for Natural Product Research and Infection Biology Hans Knöll Institute
Department:Microbiome Dynamics
Last Name:XU
First Name:LINLIN
Address:Beutenbergstraße 11a, Jena, Thuringia, 07745, Germany
Email:Lin-Lin.Xu@leibniz-hki.de
Phone:+4936415321265

Subject:

Subject ID:SU003585
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Species Group:Mammals

Factors:

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

mb_sample_id local_sample_id Sample source Group
SA382659Blank_PBblank Blank
SA382660Blank_001blank Blank
SA382661Blank_002blank Blank
SA382662Blank_003blank Blank
SA382663Blank_004blank Blank
SA382630SA020980Heart CLP (24h) / 12C-Serin
SA382631SA021022Heart CLP (24h) / 12C-Serin
SA382632SA021029Heart CLP (24h) / 12C-Serin
SA382633SA020987Heart CLP (24h) / 12C-Serin
SA382634SA020885Heart CLP (24h) / 13C-Serin
SA382635SA020892Heart CLP (24h) / 13C-Serin
SA382636SA020945Heart CLP (24h) / 13C-Serin
SA382637SA020938Heart CLP (24h) / 13C-Serin
SA382638SA020973Heart CLP (24h) / Vehicle
SA382639SA020899Heart CLP (24h) / Vehicle
SA382640SA020927Heart CLP (24h) / Vehicle
SA382641QC_001Heart QC
SA382642QC_009Heart QC
SA382643QC_004Heart QC
SA382644QC_008Heart QC
SA382645QC_006Heart QC
SA382646QC_007Heart QC
SA382647QC_005Heart QC
SA382648SA021008Heart Sham / 12C-Serin
SA382649SA021015Heart Sham / 12C-Serin
SA382650SA020994Heart Sham / 12C-Serin
SA382651SA021001Heart Sham / 12C-Serin
SA382652SA020913Heart Sham / 13C-Serin
SA382653SA020906Heart Sham / 13C-Serin
SA382654SA020959Heart Sham / 13C-Serin
SA382655SA020966Heart Sham / 13C-Serin
SA382656SA020920Heart Sham / Vehicle
SA382657SA020952Heart Sham / Vehicle
SA382658SA020932Heart Sham / Vehicle
Showing results 1 to 34 of 34

Collection:

Collection ID:CO003578
Collection Summary:Mice tissue samples were collected from our in vivo mice model and frozen at -80 °C. Samples were shipped to MS-OMICS for metabolomic analysis.
Sample Type:Heart

Treatment:

Treatment ID:TR003594
Treatment Summary:Approximately 30% of the cecum was ligated and punctured twice with a 23 Gauge (G) needle. A small amount of faeces was extruded and the cecum was placed back into the abdominal cavity. All animals received 40 mL/kg saline s.c. directly after the procedure and once 25mg/kg s.c. Imipenem/Cilastatin after 6 hours. This model is associated with a 14-day mortality of 30%, closely mimicking the clinical situation. Animals were orally gavaged with 500mg/kg 12C-Serin (Sigma) or 13C-Serin (CLM-1574-H-0.25 Serine-L (13C3 99%13C), Euroisotope, Germany) in 10mL/kg drinking water or drinking water only (vehicle) 6 and 18 hours after CLP98,99. After 24 hours, the animals are then perfused with ice cold PBS and organs were harvested, snap frozen and stored at -80° until further analysis. Sham animals underwent exactly to the same procedures except for the CLP.

Sample Preparation:

Sampleprep ID:SP003592
Sampleprep Summary:To prepare samples for semi-polar metabolites extraction, the different tissue samples were weighted and transferred to Eppendorf tubes. Ceramic beads and precooled methanol/water (1:2) were added. All tubes were placed in a pre-cooled (-20°C) bead beater and homogenized (4 x 30 sec., 30 Hz) followed by ultrasonication (5 min). After centrifugation (18000 RCF, 5 min, 4°C), the supernatant was collected. The sample pellet was reextracted as described above. The two extract supernatants were pooled and passed through a phosphor removal cartridge (Phree filter plates). A precise aliquot of the extract was evaporated to dryness under a gentle stream of nitrogen, before reconstitution with 10% Eluent B in Eluent A. All Samples were diluted 5 times in mobile phase eluent A and stable isotope labelled standards were added before analysis. Mouse serum (50 μl) was diluted with a mixture of acetonitrile and methanol (200 μl 1:1 v/v). The extract was then passed through a phosphor removal cartridge (Phree, Phenomenex). An aliquot (100 μl) was transferred into a high recovery HPLC vial and the solvent was removed under a gentle flow of nitrogen. Extracts were reconstituted in a mobile phase mixture (100 μl, 10%B in 90%A). To ensure high-quality sample preparation, a quality control sample (QC sample) was prepared by pooling small equal aliquots from each sample, to create a representative average of the entire set.

Chromatography:

Chromatography ID:CH004313
Instrument Name:Thermo Vanquish
Column Name:Waters ACQUITY UPLC HSS T3 (150 x 2.1mm,1.8um)
Column Temperature:30
Flow Gradient:0-2 min: 0 % B, 4 min 35% B, 6-14 min 90% B, 14.1-15 min 0% B.
Flow Rate:0.3mL/min
Solvent A:100% water; 10 mM ammonium formate; 0.1% formic acid
Solvent B:100% methanol; 10 mM ammonium formate; 0.1% formic acid
Chromatography Type:Reversed phase

Analysis:

Analysis ID:AN005679
Laboratory Name:MS-Omics, Denmark
Analysis Type:MS
Analysis Protocol File:Doneanu_etal.pdf
Chromatography ID:CH004313
Num Factors:8
Num Metabolites:82
Has Rt:1
Rt Units:Minutes
Results File:ST003457_AN005679_Results.txt
Units:Normalized peak area
  
Analysis ID:AN005680
Laboratory Name:MS-Omics, Denmark
Analysis Type:MS
Analysis Protocol File:Doneanu_etal.pdf
Chromatography ID:CH004313
Num Factors:8
Num Metabolites:40
Has Rt:1
Rt Units:Minutes
Results File:ST003457_AN005680_Results.txt
Units:Normalized peak area
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