Summary of Study ST002175

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 PR001384. The data can be accessed directly via it's Project DOI: 10.21228/M8TH8J 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 IDST002175
Study TitleEffect of external high-dose rate radiation on mouse biofluid metabolomic signatures
Study SummaryIn the event of an improvised nuclear device (IND), a complex IR exposure will occur consisting of both low (LDR) and high-dose rates (HDR). We have previously addressed LDR exposures from internal emitters or externally deposited radionuclides on biofluid small molecule signatures, but further research on the HDR component is required. Here, we exposed 8 − 10 week old male C57BL/6 mice to a cumulative dose of 3 Gy using a reference dose rate of 0.7 Gy/min or a HDR of 7 Gy/sec, collected urine and serum at 1 and 7 d, then compared the metabolite signatures using either untargeted (urine) or targeted (serum) approaches with liquid chromatography mass spectrometry platforms.
Institute
Georgetown University
Last NamePannkuk
First NameEvan
Address3970 Reservoir Rd, NW New Research Building E504
Emailelp44@georgetown.edu
Phone2026875650
Submit Date2022-04-14
Raw Data AvailableYes
Raw Data File Type(s)raw(Waters)
Analysis Type DetailLC-MS
Release Date2023-06-01
Release Version1
Evan Pannkuk Evan Pannkuk
https://dx.doi.org/10.21228/M8TH8J
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR001384
Project DOI:doi: 10.21228/M8TH8J
Project Title:Effect of external high-dose rate radiation on mouse biofluid metabolomics
Project Summary:In the event of an improvised nuclear device (IND), a complex IR exposure will occur consisting of both low (LDR) and high-dose rates (HDR). We have previously addressed LDR exposures from internal emitters or externally deposited radionuclides on biofluid small molecule signatures, but further research on the HDR component is required. Here, we exposed 8 − 10 week old male C57BL/6 mice to a cumulative dose of 3 Gy using a reference dose rate of 0.7 Gy/min or a HDR of 7 Gy/sec, collected urine and serum at 1 and 7 d, then compared the metabolite signatures using a untargeted (urine) approache with liquid chromatography mass spectrometry platforms.
Institute:Georgetown University
Last Name:Pannkuk
First Name:Evan
Address:3970 Reservoir Rd, NW New Research Building E504
Email:elp44@georgetown.edu
Phone:2026875650
Publications:https://www.mdpi.com/2218-1989/12/6/520

Subject:

Subject ID:SU002261
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Age Or Age Range:8 - 10 weeks
Gender:Male
Species Group:Mammals

Factors:

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

mb_sample_id local_sample_id Factor Factor Factor
SA20896613CTL D1 post
SA208967113CTL D1 post
SA20896816CTL D1 post
SA20896962CTL D1 post
SA20897014CTL D1 post
SA20897184CTL D1 post
SA208972132CTL D1 pre
SA20897385CTL D1 pre
SA208974127CTL D1 pre
SA208975115CTL D1 pre
SA2089765CTL D1 pre
SA20897770CTL D1 pre
SA20897878CTL D7 post
SA20897951CTL D7 post
SA208980120CTL D7 post
SA20898124CTL D7 post
SA20898273CTL D7 pre
SA208983142CTL D7 pre
SA208984146CTL D7 pre
SA20898518CTL D7 pre
SA208986133CTL D7 pre
SA208987116CTL D7 pre
SA208988117HDR D1 post
SA208989139HDR D1 post
SA208990114HDR D1 post
SA208991111HDR D1 post
SA20899248HDR D1 post
SA208993108HDR D1 post
SA208994122HDR D1 pre
SA20899545HDR D1 pre
SA20899686HDR D1 pre
SA20899757HDR D1 pre
SA20899888HDR D1 pre
SA208999128HDR D1 pre
SA20900054HDR D7 post
SA20900111HDR D7 post
SA209002145HDR D7 post
SA209003103HDR D7 post
SA209004129HDR D7 post
SA20900592HDR D7 post
SA209006137HDR D7 pre
SA20900760HDR D7 pre
SA20900864HDR D7 pre
SA20900941HDR D7 pre
SA209010141HDR D7 pre
SA20901138REF D1 post
SA20901265REF D1 post
SA20901368REF D1 post
SA209014106REF D1 post
SA20901533REF D1 post
SA209016151REF D1 pre
SA20901722REF D1 pre
SA20901834REF D1 pre
SA209019121REF D1 pre
SA20902061REF D1 pre
SA20902196REF D7 post
SA209022150REF D7 post
SA20902330REF D7 post
SA20902440REF D7 post
SA209025131REF D7 post
SA20902626REF D7 post
SA20902777REF D7 pre
SA209028125REF D7 pre
SA20902923REF D7 pre
SA20903094REF D7 pre
SA209031136REF D7 pre
SA20903217REF D7 pre
Showing results 1 to 67 of 67

Collection:

Collection ID:CO002254
Collection Summary:Urine was collected after irradiation
Sample Type:Urine
Collection Method:Spot Urine
Storage Conditions:-80℃

Treatment:

Treatment ID:TR002273
Treatment Summary:Male 8 – 10 week old C57BL/6 mice were obtained from Charles River Laboratories (Frederick, MD, USA) and were irradiated using the FLASH irradiator at the Radiological Research Accelerator Facility [16] (Figure S1). This novel irradiator is based on a Clinac 2100C (Varian Medical Systems, Corona, CA, USA) where the pulse delivery is controlled using in house software. All irradiations were performed using 9 MeV electrons with no scatterer or flattening filter. For these experiments, mice were placed in a 72 mm x 41mm x41mm acrylic box in which air holes had been drilled (The Container Store, Coppell, TX, USA). For 0.7 Gy/min irradiations, mice (n=6) were individually placed at 120 cm above the clinac head and irradiation delivered at 3.25 pulses per second. In this configuration, 3 Gy was delivered in 580 pulses. For 7 Gy/sec mice (n=6) were individually placed 20cm above the clinac head (Figure S1) and dose delivered at 180 pulses/sec after allowing 20 sec where the acceleration and electron source were both on but operated asynchronously so that no beam is delivered. In this configuration, 3 Gy was delivered in 78 pulses. Dosimetry was performed prior to irradiation using a NIST-traceable Advanced Marcus Ion Chamber (AMIC) and Unidos E electrometer (PTW, Freiburg, Germany). Verification of dosimetry was performed using OBT3 radiochromic film (Ashland Specialty Chemicals, Wayne, NJ, USA).

Sample Preparation:

Sampleprep ID:SP002267
Sampleprep Summary:urine (20 μl) was deproteinized (80 μl 50% cold acetonitrile) with internal standards (2 μM debrisoquine [M+H]+ = 176.1188; 30 μM 4-nitrobenzoic acid [M-H]- = 166.0141), vortexed, incubated on ice (10 min), and centrifuged for 10 min (max speed, 4 °C). A 1 μl aliquot of each sample was combined for a quality control (QC) sample.
Processing Storage Conditions:-80℃

Combined analysis:

Analysis ID AN003563
Analysis type MS
Chromatography type Reversed phase
Chromatography system Waters Acquity
Column Waters Acquity BEH C18 (50 x 2.1mm,1.7um)
MS Type ESI
MS instrument type QTOF
MS instrument name Waters Synapt G2
Ion Mode POSITIVE
Units peak area

Chromatography:

Chromatography ID:CH002634
Chromatography Summary:Mobile phases consisted of the following: solvent A (water/0.1% formic acid [FA]) and solvent B (acetonitrile/0.1% FA). The gradient for urine was (solvent A and B) 4.0 min 5% B, 4.0 min 20% B, 5.1 min 95% B, and 1.9 min 5% B at a flow rate of 0.5 ml/min, column temp 40 °C.
Instrument Name:Waters Acquity
Column Name:Waters Acquity BEH C18 (50 x 2.1mm,1.7um)
Column Temperature:40
Flow Gradient:4.0 min 5% B, 4.0 min 20% B, 5.1 min 95% B, and 1.9 min 5% B
Flow Rate:0.5 ml/min
Solvent A:100% water; 0.1% formic acid
Solvent B:100% acetonitrile; 0.1% formic acid
Chromatography Type:Reversed phase

MS:

MS ID:MS003320
Analysis ID:AN003563
Instrument Name:Waters Synapt G2
Instrument Type:QTOF
MS Type:ESI
MS Comments:Samples were injected (2 μl) into a Waters Acquity Ultra Performance Liquid Chromatography (UPLC) with a BEH C18 1.7 μm, 2.1 x 50 mm column and coupled to a Xevo® G2-S quadrupole time-of-flight (QTOF) MS (Waters, Milford, MA, USA). Positive and negative electrospray ionization (ESI) data-independent modes were used for data acquisition with leucine enkephalin ([M+H]+ = 556.2771, [M-H]- = 554.2615) as Lock-Spray®. Operating conditions for ESI were: capillary voltage 2.75 kV, cone voltage 30 V, desolvation temperature 500°C, desolvation gas flow 1000 L/Hr.
Ion Mode:POSITIVE
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