Summary of Study ST003466

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 IDST003466
Study TitleLipidomics of mice liver to support understanding of early metabolic shift in presymptomatic sepsis patients. (Part11 mice liver lipid)
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 lipidome analysis of liver from mice model revealed early septic biomarkers in liver.
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 Date2024-09-05
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:SU003594
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Gender:Not applicable
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
SA382979Blank_004blank Blank
SA382980Blank_PBblank Blank
SA382981Blank_001blank Blank
SA382982Blank_002blank Blank
SA382983Blank_003blank Blank
SA382950SA021026Liver CLP (24h) / 12C-Serin
SA382951SA020977Liver CLP (24h) / 12C-Serin
SA382952SA020984Liver CLP (24h) / 12C-Serin
SA382953SA021019Liver CLP (24h) / 12C-Serin
SA382954SA020882Liver CLP (24h) / 13C-Serin
SA382955SA020942Liver CLP (24h) / 13C-Serin
SA382956SA020935Liver CLP (24h) / 13C-Serin
SA382957SA020889Liver CLP (24h) / 13C-Serin
SA382958SA020970Liver CLP (24h) / Vehicle
SA382959SA020924Liver CLP (24h) / Vehicle
SA382960SA020896Liver CLP (24h) / Vehicle
SA382961QC_001Liver QC
SA382962QC_009Liver QC
SA382963QC_004Liver QC
SA382964QC_008Liver QC
SA382965QC_006Liver QC
SA382966QC_007Liver QC
SA382967QC_005Liver QC
SA382968SA020991Liver Sham / 12C-Serin
SA382969SA020998Liver Sham / 12C-Serin
SA382970SA021012Liver Sham / 12C-Serin
SA382971SA021005Liver Sham / 12C-Serin
SA382972SA020910Liver Sham / 13C-Serin
SA382973SA020903Liver Sham / 13C-Serin
SA382974SA020963Liver Sham / 13C-Serin
SA382975SA020956Liver Sham / 13C-Serin
SA382976SA020949Liver Sham / Vehicle
SA382977SA020917Liver Sham / Vehicle
SA382978SA020929Liver Sham / Vehicle
Showing results 1 to 34 of 34

Collection:

Collection ID:CO003587
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:Liver

Treatment:

Treatment ID:TR003603
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:SP003601
Sampleprep Summary:In the different tissue samples, the pellet from the semipolar extraction were used to extract lipids as follows. DCM:MeOH (3:1) were added to the pellets, and the samples were homogenized using a pre-cooled Bead-beater (4 x 60 sec at 30 Hz), with colling of the blocks between the beading cycles. Subsequently, the samples were ultrasonicate for 5 mins and centrifuged (5 mins, 1800 RCF, 4 °C). The supernatant were collected and dried under nitrogen gas. Samples were then reconstitute with 6x (spleen and WAT) or 3x (heart, liver and kidney) the sample weight with the reconstitution solvent eluent mix and vortex mixed for 30 sec. The reconstituted samples were filtrated using SpinX filters by centrifugation (5 mins, 1800 RCF, 4 °C). All samples were mixed 1: 50 in eluent mix. For serum samples, an alliqoute of the serum samples are mixed with extraction solvent (0.1 M BHT in isopropanol with stable isotope labelled internal standard) in a Spin-X® filter. The filters were vortex-mixed for 60 sec and left at room temperature for 10 mins before placing in -20 °C Freezer overnight. The following day samples were left at room temperature for 30 mins before centrifuging (1800g /4°C/2 min). The filtrate were mixed with eluent mix 1:3.

Chromatography:

Chromatography ID:CH004323
Methods Filename:Doneanu_etal.pdf
Instrument Name:Thermo Vanquish
Column Name:Waters ACQUITY UPLC CSH C18 (100 x 2.1mm,1.7um)
Column Temperature:55
Flow Gradient:0-2 min: 40 % B, 2.1 min 50% B, 12 min 54% B, 12.1 min 70% B, 18-20 min 99 % B, 20.1-22 min 40% B
Flow Rate:0.4mL/min
Solvent A:60% Acetonitrile/40% water; 10 mM ammonium formate; 0.1% formic acid
Solvent B:90% Isopropanol/10% acetonitrile; 10 mM ammonium formate; 0.1% formic acid
Chromatography Type:Reversed phase

Analysis:

Analysis ID:AN005697
Laboratory Name:MS-Omics, Denmark
Analysis Type:MS
Analysis Protocol File:Doneanu_etal.pdf
Chromatography ID:CH004323
Num Factors:8
Num Metabolites:199
Has Rt:1
Rt Units:Minutes
Results File:ST003466_AN005697_Results.txt
Units:Normalized peak area
  
Analysis ID:AN005698
Laboratory Name:MS-Omics, Denmark
Analysis Type:MS
Analysis Protocol File:Doneanu_etal.pdf
Chromatography ID:CH004323
Num Factors:8
Num Metabolites:65
Has Rt:1
Rt Units:Minutes
Results File:ST003466_AN005698_Results.txt
Units:Normalized peak area
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