Summary of Study ST003649
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 PR002259. The data can be accessed directly via it's Project DOI: 10.21228/M8MV7R This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST003649 |
| Study Title | Untargeted metabolomics of Human embryonic kidney cells (HEK293) infected by Human adenovirus serotype 5 during early and late infection. |
| Study Summary | Human adenoviruses overtake the DNA replication machinery of the infected host, rewiring mitotic events. Infection leads to the elevations in glucose and glutamine consumption rates, while also increasing lactate production rate. Fibroblast lineages are normally quiescent cells that display a repertoire of responses to certain agonists. Data on the shifts in fibroblast metabolism in response to human adenoviral infection are lacking. Specifically, knowledge pertaining to metabolic shifts aside from those involved in glycolytic metabolism after human adenoviral infection remains sparse. We used an untargeted metabolomic approach to better understand the dynamic metabolic changes to fibroblasts in response to 3 viral dosages, across 4 time points post-infection. Cells were infected for the following periods: 6, 12, 24, and 36 hours. Noninfected cells cultured for 24 hours were used as a negative control. Cells were subjected to the following viral dosages: 0.5, 1.0, and 2.0 multiplicity of infection (MOI) and 6 replicates were used for each experimental condition. Cellular pellets were collected at each time point following the removal of media. Samples were sent to the UC Davis Metabolomics Core for analysis of primary carbons using GC-TOF-MS. Profound shifts were seen in cysteine, purine, and unsaturated fatty acid metabolites. This analysis provides a global perspective and highlights previously underappreciated aspects of how human adenovirus alters host metabolism. |
| Institute | University of California, Merced |
| Last Name | Sanchez |
| First Name | Bailey-J |
| Address | 5200 Lake Rd, Merced, CA 95343 |
| Bsanchez59@ucmerced.edu | |
| Phone | 5599783565 |
| Submit Date | 2024-12-20 |
| Analysis Type Detail | GC-MS |
| Release Date | 2025-01-26 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR002259 |
| Project DOI: | doi: 10.21228/M8MV7R |
| Project Title: | Human adenovirus serotype 5 infection dysregulates cysteine, purine, and unsaturated fatty acid metabolism in fibroblasts |
| Project Summary: | Over 100 types of adenoviruses exist across 7 species, with about 50 known to infect humans. Human adenoviruses overtake the DNA replication machinery of the infected host, rewiring mitotic events. Infection leads to the elevations in glucose and glutamine consumption rates, while also increasing lactate production rate. Fibroblast lineages are normally quiescent cells that display a repertoire of responses to certain agonists. Data on the shifts in fibroblast metabolism in response to human adenoviral infection are lacking. Specifically, knowledge pertaining to metabolic shifts aside from those involved in glycolytic metabolism after human adenoviral infection remains sparse. We used an untargeted metabolomic approach to better understand the dynamic metabolic changes to fibroblasts in response to 3 viral dosages, across 4 time points post-infection. Profound shifts were seen in cysteine, purine, and unsaturated fatty acid metabolites. This analysis provides a global perspective and highlights previously underappreciated aspects of how human adenovirus alters host metabolism. |
| Institute: | University of California, Merced |
| Last Name: | SANCHEZ |
| First Name: | BAILEY-J |
| Address: | 5200 North Lake Road, MERCED, CALIFORNIA, 95343, USA |
| Email: | Bsanchez59@ucmerced.edu |
| Phone: | 559-978-3565 |
| Funding Source: | USDA HSI Education Training grant (2021-03397) |
Subject:
| Subject ID: | SU003779 |
| Subject Type: | Cultured cells |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Cell Biosource Or Supplier: | American Type Culture Collection |
| Cell Strain Details: | Human embryonic kidney (HEK293) cells (RRID:CVCL_0045) |
| Cell Counts: | 1.0 x 10^6/mL |
Factors:
Subject type: Cultured cells; Subject species: Homo sapiens (Factor headings shown in green)
| mb_sample_id | local_sample_id | Dose | Time | Sample source |
|---|---|---|---|---|
| SA398294 | HuAdV_0.5MOI_12HPI_A | 0.5 MOI | 12HPI | HEK293_HAdV5 |
| SA398295 | HuAdV_0.5MOI_12HPI_F | 0.5 MOI | 12HPI | HEK293_HAdV5 |
| SA398296 | HuAdV_0.5MOI_12HPI_E | 0.5 MOI | 12HPI | HEK293_HAdV5 |
| SA398297 | HuAdV_0.5MOI_12HPI_C | 0.5 MOI | 12HPI | HEK293_HAdV5 |
| SA398298 | HuAdV_0.5MOI_12HPI_B | 0.5 MOI | 12HPI | HEK293_HAdV5 |
| SA398299 | HuAdV_0.5MOI_12HPI_D | 0.5 MOI | 12HPI | HEK293_HAdV5 |
| SA398300 | HuAdV_0.5MOI_24HPI_F | 0.5 MOI | 24HPI | HEK293_HAdV5 |
| SA398301 | HuAdV_0.5MOI_24HPI_E | 0.5 MOI | 24HPI | HEK293_HAdV5 |
| SA398302 | HuAdV_0.5MOI_24HPI_D | 0.5 MOI | 24HPI | HEK293_HAdV5 |
| SA398303 | HuAdV_0.5MOI_24HPI_C | 0.5 MOI | 24HPI | HEK293_HAdV5 |
| SA398304 | HuAdV_0.5MOI_24HPI_B | 0.5 MOI | 24HPI | HEK293_HAdV5 |
| SA398305 | HuAdV_0.5MOI_24HPI_A | 0.5 MOI | 24HPI | HEK293_HAdV5 |
| SA398306 | HuAdV_0.5MOI_36HPI_C | 0.5 MOI | 36HPI | HEK293_HAdV5 |
| SA398307 | HuAdV_0.5MOI_36HPI_A | 0.5 MOI | 36HPI | HEK293_HAdV5 |
| SA398308 | HuAdV_0.5MOI_36HPI_B | 0.5 MOI | 36HPI | HEK293_HAdV5 |
| SA398309 | HuAdV_0.5MOI_36HPI_D | 0.5 MOI | 36HPI | HEK293_HAdV5 |
| SA398310 | HuAdV_0.5MOI_36HPI_E | 0.5 MOI | 36HPI | HEK293_HAdV5 |
| SA398311 | HuAdV_0.5MOI_6HPI_C | 0.5 MOI | 6HPI | HEK293_HAdV5 |
| SA398312 | HuAdV_0.5MOI_6HPI_A | 0.5 MOI | 6HPI | HEK293_HAdV5 |
| SA398313 | HuAdV_0.5MOI_6HPI_B | 0.5 MOI | 6HPI | HEK293_HAdV5 |
| SA398314 | HuAdV_0.5MOI_6HPI_E | 0.5 MOI | 6HPI | HEK293_HAdV5 |
| SA398315 | HuAdV_0.5MOI_6HPI_D | 0.5 MOI | 6HPI | HEK293_HAdV5 |
| SA398316 | HuAdV_0.5MOI_6HPI_F | 0.5 MOI | 6HPI | HEK293_HAdV5 |
| SA398317 | HuAdV_1.0MOI_12HPI_F | 1.0 MOI | 12HPI | HEK293_HAdV5 |
| SA398318 | HuAdV_1.0MOI_12HPI_E | 1.0 MOI | 12HPI | HEK293_HAdV5 |
| SA398319 | HuAdV_1.0MOI_12HPI_C | 1.0 MOI | 12HPI | HEK293_HAdV5 |
| SA398320 | HuAdV_1.0MOI_12HPI_D | 1.0 MOI | 12HPI | HEK293_HAdV5 |
| SA398321 | HuAdV_1.0MOI_12HPI_A | 1.0 MOI | 12HPI | HEK293_HAdV5 |
| SA398322 | HuAdV_1.0MOI_12HPI_B | 1.0 MOI | 12HPI | HEK293_HAdV5 |
| SA398323 | HuAdV_1.0MOI_24HPI_F | 1.0 MOI | 24HPI | HEK293_HAdV5 |
| SA398324 | HuAdV_1.0MOI_24HPI_B | 1.0 MOI | 24HPI | HEK293_HAdV5 |
| SA398325 | HuAdV_1.0MOI_24HPI_A | 1.0 MOI | 24HPI | HEK293_HAdV5 |
| SA398326 | HuAdV_1.0MOI_24HPI_E | 1.0 MOI | 24HPI | HEK293_HAdV5 |
| SA398327 | HuAdV_1.0MOI_24HPI_D | 1.0 MOI | 24HPI | HEK293_HAdV5 |
| SA398328 | HuAdV_1.0MOI_24HPI_C | 1.0 MOI | 24HPI | HEK293_HAdV5 |
| SA398329 | HuAdV_1.0MOI_36HPI_C | 1.0 MOI | 36HPI | HEK293_HAdV5 |
| SA398330 | HuAdV_1.0MOI_36HPI_D | 1.0 MOI | 36HPI | HEK293_HAdV5 |
| SA398331 | HuAdV_1.0MOI_36HPI_E | 1.0 MOI | 36HPI | HEK293_HAdV5 |
| SA398332 | HuAdV_1.0MOI_36HPI_B | 1.0 MOI | 36HPI | HEK293_HAdV5 |
| SA398333 | HuAdV_1.0MOI_36HPI_F | 1.0 MOI | 36HPI | HEK293_HAdV5 |
| SA398334 | HuAdV_1.0MOI_36HPI_A | 1.0 MOI | 36HPI | HEK293_HAdV5 |
| SA398335 | HuAdV_1.0MOI_6HPI_F | 1.0 MOI | 6HPI | HEK293_HAdV5 |
| SA398336 | HuAdV_1.0MOI_6HPI_E | 1.0 MOI | 6HPI | HEK293_HAdV5 |
| SA398337 | HuAdV_1.0MOI_6HPI_D | 1.0 MOI | 6HPI | HEK293_HAdV5 |
| SA398338 | HuAdV_1.0MOI_6HPI_C | 1.0 MOI | 6HPI | HEK293_HAdV5 |
| SA398339 | HuAdV_1.0MOI_6HPI_B | 1.0 MOI | 6HPI | HEK293_HAdV5 |
| SA398340 | HuAdV_1.0MOI_6HPI_A | 1.0 MOI | 6HPI | HEK293_HAdV5 |
| SA398341 | HuAdV_2.0MOI_12HPI_E | 2.0 MOI | 12HPI | HEK293_HAdV5 |
| SA398342 | HuAdV_2.0MOI_12HPI_F | 2.0 MOI | 12HPI | HEK293_HAdV5 |
| SA398343 | HuAdV_2.0MOI_12HPI_C | 2.0 MOI | 12HPI | HEK293_HAdV5 |
| SA398344 | HuAdV_2.0MOI_12HPI_A | 2.0 MOI | 12HPI | HEK293_HAdV5 |
| SA398345 | HuAdV_2.0MOI_12HPI_B | 2.0 MOI | 12HPI | HEK293_HAdV5 |
| SA398346 | HuAdV_2.0MOI_12HPI_D | 2.0 MOI | 12HPI | HEK293_HAdV5 |
| SA398347 | HuAdV_2.0MOI_24HPI_D | 2.0 MOI | 24HPI | HEK293_HAdV5 |
| SA398348 | HuAdV_2.0MOI_24HPI_E | 2.0 MOI | 24HPI | HEK293_HAdV5 |
| SA398349 | HuAdV_2.0MOI_24HPI_F | 2.0 MOI | 24HPI | HEK293_HAdV5 |
| SA398350 | HuAdV_2.0MOI_24HPI_C | 2.0 MOI | 24HPI | HEK293_HAdV5 |
| SA398351 | HuAdV_2.0MOI_24HPI_B | 2.0 MOI | 24HPI | HEK293_HAdV5 |
| SA398352 | HuAdV_2.0MOI_24HPI_A | 2.0 MOI | 24HPI | HEK293_HAdV5 |
| SA398353 | HuAdV_2.0MOI_36HPI_A | 2.0 MOI | 36HPI | HEK293_HAdV5 |
| SA398354 | HuAdV_2.0MOI_36HPI_F | 2.0 MOI | 36HPI | HEK293_HAdV5 |
| SA398355 | HuAdV_2.0MOI_36HPI_E | 2.0 MOI | 36HPI | HEK293_HAdV5 |
| SA398356 | HuAdV_2.0MOI_36HPI_D | 2.0 MOI | 36HPI | HEK293_HAdV5 |
| SA398357 | HuAdV_2.0MOI_36HPI_C | 2.0 MOI | 36HPI | HEK293_HAdV5 |
| SA398358 | HuAdV_2.0MOI_36HPI_B | 2.0 MOI | 36HPI | HEK293_HAdV5 |
| SA398359 | HuAdV_2.0MOI_6HPI_E | 2.0 MOI | 6HPI | HEK293_HAdV5 |
| SA398360 | HuAdV_2.0MOI_6HPI_A | 2.0 MOI | 6HPI | HEK293_HAdV5 |
| SA398361 | HuAdV_2.0MOI_6HPI_B | 2.0 MOI | 6HPI | HEK293_HAdV5 |
| SA398362 | HuAdV_2.0MOI_6HPI_C | 2.0 MOI | 6HPI | HEK293_HAdV5 |
| SA398363 | HuAdV_2.0MOI_6HPI_D | 2.0 MOI | 6HPI | HEK293_HAdV5 |
| SA398364 | HuAdV_2.0MOI_6HPI_F | 2.0 MOI | 6HPI | HEK293_HAdV5 |
| SA398365 | Noninfected_C | Noninfected | control | HEK293 |
| SA398366 | Noninfected_B | Noninfected | control | HEK293 |
| SA398367 | Noninfected_A | Noninfected | control | HEK293 |
| Showing results 1 to 74 of 74 |
Collection:
| Collection ID: | CO003772 |
| Collection Summary: | HEK293 cells (infected and noninfected) were collected from a 6 well plate. Cell media was removed, cells were washed with PBS, and mechanically scraped into pre-chilled collection tubes. Cellular pellets were collected at each time point following the removal of media, washing with 2 mL of phosphate buffered saline (PBS), and subsequent cell scraping. Once collected into pre-chilled, 2 mL microcentrifuge tubes, cells were centrifuged at 1000 g for 5 min, excess PBS was removed, and the pellets were stored in -80.0 oC. Samples were frozen in -80 until metabolomic processing. |
| Sample Type: | HEK cells |
| Storage Conditions: | -80℃ |
Treatment:
| Treatment ID: | TR003788 |
| Treatment Summary: | Cells were treated with human adenovirus serotype 5 at the following dosages: 0.5, 1.0, and 2.0 multiplicity of infection. Virus was added to each well containing HEK293 cells after cells were washed with PBS and administered base media (DMEM) without FBS. Durations of infection were: 6, 12, 24, and 36 hours. |
| Treatment: | Viral infection |
| Treatment Dose: | 0.5, 1.0, 2.0 MOI |
| Cell Media: | DMEM + 10% FBS |
| Cell Envir Cond: | 37 degree celsius incubator, 5% CO2 |
Sample Preparation:
| Sampleprep ID: | SP003786 |
| Sampleprep Summary: | Once samples were frozen, they were placed in -80 degree celsius freezer. Samples were then processed at the UC Davis Metabolomics Core for primary carbon metabolomics. |
| Sampleprep Protocol Filename: | GC-TOF-MS_sample_preparation_UCD_Fiehn_lab.pdf |
Combined analysis:
| Analysis ID | AN005995 |
|---|---|
| Analysis type | MS |
| Chromatography type | GC |
| Chromatography system | Leco Pegasus IV GC |
| Column | Restek Rtx-5Sil MS (30m x 0.25mm, 0.25um) |
| MS Type | EI |
| MS instrument type | GC-TOF |
| MS instrument name | Leco Pegasus IV TOF |
| Ion Mode | POSITIVE |
| Units | peak height |
Chromatography:
| Chromatography ID: | CH004555 |
| Methods Filename: | UCD_Fiehn_laboratory_GCTOF_MS.pdf GC-TOF-MS_sample_preparation_UCD_Fiehn_lab.pdf |
| Instrument Name: | Leco Pegasus IV GC |
| Column Name: | Restek Rtx-5Sil MS (30m x 0.25mm, 0.25um) |
| Column Temperature: | Programmed temperature gradient: 50-330°C |
| Flow Gradient: | - |
| Flow Rate: | 1 mL min-1 |
| Injection Temperature: | 50°C ramped to 250°C by 12°C s -1 |
| Solvent A: | - |
| Solvent B: | - |
| Chromatography Type: | GC |
MS:
| MS ID: | MS005708 |
| Analysis ID: | AN005995 |
| Instrument Name: | Leco Pegasus IV TOF |
| Instrument Type: | GC-TOF |
| MS Type: | EI |
| MS Comments: | A Leco Pegasus IV TOF MS is used with unit mass resolution at 17 spectra s-1 from 80-500 Da at -70 eV ionization energy and 1800 V detector voltage with a 230°C transfer line and a 250°C ion source. |
| Ion Mode: | POSITIVE |
| Analysis Protocol File: | UCD_Fiehn_laboratory_GCTOF_MS.pdf |
