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.
| Study ID | ST002175 |
| Study Title | Effect of external high-dose rate radiation on mouse biofluid metabolomic signatures |
| Study 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 either untargeted (urine) or targeted (serum) approaches with liquid chromatography mass spectrometry platforms. |
| Institute | Georgetown University |
| Last Name | Pannkuk |
| First Name | Evan |
| Address | 3970 Reservoir Rd, NW New Research Building E504 |
| elp44@georgetown.edu | |
| Phone | 2026875650 |
| Submit Date | 2022-04-14 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | raw(Waters) |
| Analysis Type Detail | LC-MS |
| Release Date | 2023-06-01 |
| Release Version | 1 |
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 |
Factors:
Subject type: Mammal; Subject species: Mus musculus (Factor headings shown in green)
| mb_sample_id | local_sample_id | Factor |
|---|---|---|
| SA208966 | 13 | CTL | Factor:D1 | Factor:post |
| SA208967 | 113 | CTL | Factor:D1 | Factor:post |
| SA208968 | 16 | CTL | Factor:D1 | Factor:post |
| SA208969 | 62 | CTL | Factor:D1 | Factor:post |
| SA208970 | 14 | CTL | Factor:D1 | Factor:post |
| SA208971 | 84 | CTL | Factor:D1 | Factor:post |
| SA208972 | 132 | CTL | Factor:D1 | Factor:pre |
| SA208973 | 85 | CTL | Factor:D1 | Factor:pre |
| SA208974 | 127 | CTL | Factor:D1 | Factor:pre |
| SA208975 | 115 | CTL | Factor:D1 | Factor:pre |
| SA208976 | 5 | CTL | Factor:D1 | Factor:pre |
| SA208977 | 70 | CTL | Factor:D1 | Factor:pre |
| SA208978 | 78 | CTL | Factor:D7 | Factor:post |
| SA208979 | 51 | CTL | Factor:D7 | Factor:post |
| SA208980 | 120 | CTL | Factor:D7 | Factor:post |
| SA208981 | 24 | CTL | Factor:D7 | Factor:post |
| SA208982 | 73 | CTL | Factor:D7 | Factor:pre |
| SA208983 | 142 | CTL | Factor:D7 | Factor:pre |
| SA208984 | 146 | CTL | Factor:D7 | Factor:pre |
| SA208985 | 18 | CTL | Factor:D7 | Factor:pre |
| SA208986 | 133 | CTL | Factor:D7 | Factor:pre |
| SA208987 | 116 | CTL | Factor:D7 | Factor:pre |
| SA208988 | 117 | HDR | Factor:D1 | Factor:post |
| SA208989 | 139 | HDR | Factor:D1 | Factor:post |
| SA208990 | 114 | HDR | Factor:D1 | Factor:post |
| SA208991 | 111 | HDR | Factor:D1 | Factor:post |
| SA208992 | 48 | HDR | Factor:D1 | Factor:post |
| SA208993 | 108 | HDR | Factor:D1 | Factor:post |
| SA208994 | 122 | HDR | Factor:D1 | Factor:pre |
| SA208995 | 45 | HDR | Factor:D1 | Factor:pre |
| SA208996 | 86 | HDR | Factor:D1 | Factor:pre |
| SA208997 | 57 | HDR | Factor:D1 | Factor:pre |
| SA208998 | 88 | HDR | Factor:D1 | Factor:pre |
| SA208999 | 128 | HDR | Factor:D1 | Factor:pre |
| SA209000 | 54 | HDR | Factor:D7 | Factor:post |
| SA209001 | 11 | HDR | Factor:D7 | Factor:post |
| SA209002 | 145 | HDR | Factor:D7 | Factor:post |
| SA209003 | 103 | HDR | Factor:D7 | Factor:post |
| SA209004 | 129 | HDR | Factor:D7 | Factor:post |
| SA209005 | 92 | HDR | Factor:D7 | Factor:post |
| SA209006 | 137 | HDR | Factor:D7 | Factor:pre |
| SA209007 | 60 | HDR | Factor:D7 | Factor:pre |
| SA209008 | 64 | HDR | Factor:D7 | Factor:pre |
| SA209009 | 41 | HDR | Factor:D7 | Factor:pre |
| SA209010 | 141 | HDR | Factor:D7 | Factor:pre |
| SA209011 | 38 | REF | Factor:D1 | Factor:post |
| SA209012 | 65 | REF | Factor:D1 | Factor:post |
| SA209013 | 68 | REF | Factor:D1 | Factor:post |
| SA209014 | 106 | REF | Factor:D1 | Factor:post |
| SA209015 | 33 | REF | Factor:D1 | Factor:post |
| SA209016 | 151 | REF | Factor:D1 | Factor:pre |
| SA209017 | 22 | REF | Factor:D1 | Factor:pre |
| SA209018 | 34 | REF | Factor:D1 | Factor:pre |
| SA209019 | 121 | REF | Factor:D1 | Factor:pre |
| SA209020 | 61 | REF | Factor:D1 | Factor:pre |
| SA209021 | 96 | REF | Factor:D7 | Factor:post |
| SA209022 | 150 | REF | Factor:D7 | Factor:post |
| SA209023 | 30 | REF | Factor:D7 | Factor:post |
| SA209024 | 40 | REF | Factor:D7 | Factor:post |
| SA209025 | 131 | REF | Factor:D7 | Factor:post |
| SA209026 | 26 | REF | Factor:D7 | Factor:post |
| SA209027 | 77 | REF | Factor:D7 | Factor:pre |
| SA209028 | 125 | REF | Factor:D7 | Factor:pre |
| SA209029 | 23 | REF | Factor:D7 | Factor:pre |
| SA209030 | 94 | REF | Factor:D7 | Factor:pre |
| SA209031 | 136 | REF | Factor:D7 | Factor:pre |
| SA209032 | 17 | REF | Factor:D7 | Factor: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 S QTOF |
| 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 S QTOF |
| 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 |
