Summary of Study ST001094
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 PR000732. The data can be accessed directly via it's Project DOI: 10.21228/M82D79 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 | ST001094 |
| Study Title | Early Mechanistic Events Induced by Secondhand Smoke Prevalent Low Molecular Weight Polycyclic Aromatic Hydrocarbons in Mouse Lung Epithelial Cells (part-I) |
| Study Summary | We evaluated lung epithelial cells exposed to low molecular weight polycyclic aromatic hydrocarbons and what lipid metabolites were produced following early exposure, prior to metabolism. We used 40 uM 1-methylanthracene and fluoranthene (1:1 ratio)for 30 min, 1h, and 4 h time points for the global untargeted metabolomics study (AKB study 1). |
| Institute | University of Colorado Denver |
| Department | Anschutz Medical Campus |
| Last Name | Bauer |
| First Name | Alison |
| Address | 12850 E. Montview Dr. Rm 3125, Aurora, CO 80045 |
| alison.bauer@ucdenver.edu | |
| Phone | 303-724-6297 |
| Submit Date | 2018-11-06 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | d |
| Analysis Type Detail | LC-MS |
| Release Date | 2020-03-03 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000732 |
| Project DOI: | doi: 10.21228/M82D79 |
| Project Title: | Adverse effects of PAHs on lung cells |
| Project Summary: | Low-molecular-weight (LMW) polycyclic aromatic hydrocarbons (PAHs) are more prevalent in the environment, occupational settings, as well as in secondhand smoke (SHS), when compared to their high molecular weight counterparts, such as benzo[a]pyrene (B[a]P). Previously, we demonstrated that SHS-prevalent LMW PAHs activate p38-MAPK-dependent dysregulation of gap junction intercellular communication (GJIC) and increased cytokines involved in inflammatory lung diseases. However, there is little known about the early mechanistic events leading to inflammation, specifically those mediated through lipid signaling and eicosanoids. Secondhand smoke is a complex mixture and to model this feature in vitro we examined the effects of a binary mixture of 1-methylanthracene (1-MeA) and fluoranthene (Flthn) in C10 cells, a mouse, non-tumorigenic alveolar type II cell line via a global metabolomics approach to evaluate the lipids. |
| Institute: | University of Colorado Denver |
| Department: | Pharmaceutical Sciences, Anschutz Medical Campus |
| Last Name: | Bauer |
| First Name: | Alison |
| Address: | 12850 E. Montview Dr. Rm 3125, Aurora, CO 80045 |
| Email: | alison.bauer@ucdenver.edu |
| Phone: | 303-724-6297 |
| Funding Source: | R15 ES 024893-01 (AKB) and the Flight Attendant Medical Research Institute (FAMRI) CIA 130022 (AKB). |
| Project Comments: | There are two studies that will be uploaded. AKB study 1 and AKB study 2. |
| Contributors: | Katelyn J. Siegrist, DeeDee Romo, Brad L. Upham, Michael Armstrong, Kevin Quinn, Lauren Vanderlinden, Kalpana Velmurugan, Mark Elie, Dominik Reinhold, Nichole Reisdorph, Laura Saba |
Subject:
| Subject ID: | SU001138 |
| Subject Type: | Cultured cells |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
| Species Group: | Mammals |
Factors:
Subject type: Cultured cells; Subject species: Mus musculus (Factor headings shown in green)
| mb_sample_id | local_sample_id | Treatment | Time |
|---|---|---|---|
| SA074532 | sample.15 | 2PAHs | 1 hr |
| SA074533 | sample.16 | 2PAHs | 1 hr |
| SA074534 | sample.14 | 2PAHs | 1 hr |
| SA074535 | sample.13 | 2PAHs | 1 hr |
| SA074536 | sample.6 | 2PAHs | 30 min |
| SA074537 | sample.5 | 2PAHs | 30 min |
| SA074538 | sample.8 | 2PAHs | 30 min |
| SA074539 | sample.7 | 2PAHs | 30 min |
| SA074540 | sample.21 | 2PAHs | 4 hr |
| SA074541 | sample.22 | 2PAHs | 4 hr |
| SA074542 | sample.23 | 2PAHs | 4 hr |
| SA074543 | sample.24 | 2PAHs | 4 hr |
| SA074544 | sample.12 | DMSO | 1 hr |
| SA074545 | sample.9 | DMSO | 1 hr |
| SA074546 | sample.10 | DMSO | 1 hr |
| SA074547 | sample.11 | DMSO | 1 hr |
| SA074548 | sample.2 | DMSO | 30 min |
| SA074549 | sample.4 | DMSO | 30 min |
| SA074550 | sample.3 | DMSO | 30 min |
| SA074551 | sample.1 | DMSO | 30 min |
| SA074552 | sample.17 | DMSO | 4 hr |
| SA074553 | sample.18 | DMSO | 4 hr |
| SA074554 | sample.19 | DMSO | 4 hr |
| SA074555 | sample.20 | DMSO | 4 hr |
| Showing results 1 to 24 of 24 |
Collection:
| Collection ID: | CO001132 |
| Collection Summary: | For the global metabolomics with a lipid focus, immediately following treatment, cell monolayers were washed 3 times with cold PBS, and cells were scraped and fixed in 500 μL 70% MeOH. Samples were stored immediately at -80°C until pretreatment for solid phase extraction (SPE). |
| Collection Protocol Filename: | AKB_Untargeted-protocol.docx |
| Collection Protocol Comments: | For AKB study 1 protocol, the collection, treatment, and sample prep are all in the same file. |
| Sample Type: | Epithelial cells |
Treatment:
| Treatment ID: | TR001152 |
| Treatment Summary: | For the global metabolomics with a focus on the lipids: Cells (passage <20) were maintained in CMRL 1066 media containing 10% FBS and 1% glutamate in a humidified atmosphere at 37˚ C, 5% CO2, and 95% air (Osgood et al. 2013). Once cells were grown to confluence, cells were serum deprived for 24 hr prior to treatment with the binary 1:1 LMW PAH mixture of 1-MeA and Flthn at a final dose of 40 μM. This mixture has been used previously in our lab (PMC5808746) to represent two LMW PAH’s common in secondhand smoke and environmental exposures. |
| Treatment Protocol Filename: | AKB_Untargeted-protocol.docx |
| Treatment Protocol Comments: | For AKB study 1 protocol, the collection, treatment, and sample prep are all in the same file. |
Sample Preparation:
| Sampleprep ID: | SP001145 |
| Sampleprep Summary: | The hydrophobic fraction was extracted from the samples using an organic liquid-liquid extraction technique with methyl tert-butyl ether (MTBE) and water (Cruickshank-Quinn et al. 2014; Yang et al. 2013). The upper hydrophobic layer was transferred to a new tube. The hydrophobic layer was then dried under nitrogen, reconstituted in 200 µL of methanol, and stored at -80 °C until LCMS analysis. |
| Sampleprep Protocol Filename: | AKB_Targeted-protocol.docx |
| Sampleprep Protocol Comments: | For AKB study 1 protocol, the collection, treatment, and sample prep are all in the same file. |
Combined analysis:
| Analysis ID | AN001780 |
|---|---|
| Analysis type | MS |
| Chromatography type | Reversed phase |
| Chromatography system | Agilent 1290 |
| Column | Agilent Zorbax Rapid Resolution HD SB-C18 |
| MS Type | ESI |
| MS instrument type | TOF |
| MS instrument name | Agilent 6210 TOF |
| Ion Mode | POSITIVE |
| Units | abundance/counts |
Chromatography:
| Chromatography ID: | CH001258 |
| Instrument Name: | Agilent 1290 |
| Column Name: | Agilent Zorbax Rapid Resolution HD SB-C18 |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS001644 |
| Analysis ID: | AN001780 |
| Instrument Name: | Agilent 6210 TOF |
| Instrument Type: | TOF |
| MS Type: | ESI |
| Ion Mode: | POSITIVE |
