Summary of Study ST000468
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 PR000360. The data can be accessed directly via it's Project DOI: 10.21228/M8HK59 This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST000468 |
| Study Title | Enterococcus faecalis nucleotide profiles following mupirocin or decoyinine |
| Study Type | Exposure to mupirocin or decoyinine |
| Study Summary | Triplicate samples of E. faecalis OG1RF will be grown in FMC-AUG to OD600 = 0.25. The cultures will be split and exposed to DMSO, mupirocin (0.01mg/mL) or decoyinine (0.1mg/mL) for 15 minutes. 6E9 cells will be harvested by fast filtration, scraped off of membrane into ice-cold PBS, and pelleted by centrifugation, and stored at -80C until shipment. |
| Institute | University of Florida |
| Department | SECIM |
| Laboratory | Lemos-Abranches |
| Last Name | Kajfasz |
| First Name | Jessica |
| Address | 1395 Center Drive, PO Box 100424 Gainesville, FL 32610 |
| jkajfasz@dental.ufl.edu | |
| Phone | 352-273-6675 |
| Submit Date | 2016-09-08 |
| Num Groups | 3 |
| Total Subjects | 9 |
| Raw Data File Type(s) | d |
| Analysis Type Detail | LC-MS |
| Release Date | 2017-10-03 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000360 |
| Project DOI: | doi: 10.21228/M8HK59 |
| Project Title: | Enterococcus faecalis nucleotie profiles |
| Project Summary: | Determination of metabolite profile of E. faecalis OG1RF control as compared to exposure to mupirocin or decoyinine |
| Institute: | University of Florida |
| Department: | Oral Biology |
| Laboratory: | Oral Biology Lemos-Abranches |
| Last Name: | Lemos |
| First Name: | Jose |
| Address: | 1395 Center Drive, PO Box 100424 Gainesville, FL 32610 |
| Email: | jlemos@dental.ufl.edu |
| Phone: | 352-273-8843 |
| Funding Source: | UF start-up funds |
Subject:
| Subject ID: | SU000489 |
| Subject Type: | Bacterial cells |
| Subject Species: | Enterococcus faecalis |
| Taxonomy ID: | 1351 |
| Genotype Strain: | OG1RF |
| Species Group: | Microorganism |
Factors:
Subject type: Bacterial cells; Subject species: Enterococcus faecalis (Factor headings shown in green)
| mb_sample_id | local_sample_id | Exposure |
|---|---|---|
| SA023657 | OG1RF_1 Decoy | Decoyinine, 0.1mg/mL |
| SA023658 | OG1RF_2 Decoy | Decoyinine, 0.1mg/mL |
| SA023659 | OG1RF_3 Decoy | Decoyinine, 0.1mg/mL |
| SA023654 | OG1RF_1 DMSO | DMSO |
| SA023655 | OG1RF_2 DMSO | DMSO |
| SA023656 | OG1RF_3 DMSO | DMSO |
| SA023660 | OG1RF_2 Mup | Mupirocin, 0.01mg/mL |
| SA023661 | OG1RF_1 Mup | Mupirocin, 0.01mg/mL |
| SA023662 | OG1RF_3 Mup | Mupirocin, 0.01mg/mL |
| Showing results 1 to 9 of 9 |
Collection:
| Collection ID: | CO000483 |
| Collection Summary: | After the 15 minute treatment interval, 20mL sample will be harvested by filtration onto 0.45uM nitrocellulose membrane. The cells will be scraped off of the membrane into ice-cold PBS (~1mL), centrifuged for 45 seconds at 12K RPM, liquid aspirated and stored at -80C until sending for analysis. |
| Sample Type: | Bacterial cells |
| Collection Method: | Fast filtration |
| Volumeoramount Collected: | 20ml |
| Storage Conditions: | -80C |
Treatment:
| Treatment ID: | TR000503 |
| Treatment Summary: | Triplicate cultures of E. faecalis OG1RF will be grown in FMC-AUG to OD600 = 0.25. The cultures will be split into 3 equal volumes of 30mL which will be exposed to 100uL DMSO, 0.01mg/mL mupirocin, or 0.1mg/mL decoyinine for 15 minutes. At this point, 10mL sample will be removed for protein analysis. The remaining 20mL will be harvested by fast filtration for analysis.|Triplicate cultures of E. faecalis OG1RF will be grown in FMC-AUG to OD600 = 0.25. The cultures will be split into 3 equal volumes of 30mL which will be exposed to 100uL DMSO, 0.01mg/mL mupirocin, or 0.1mg/mL decoyinine for 15 minutes. At this point, 10mL sample will be removed for protein analysis. The remaining 20mL will be harvested by fast filtration for analysis.|Triplicate cultures of E. faecalis OG1RF will be grown in FMC-AUG to OD600 = 0.25. The cultures will be split into 3 equal volumes of 30mL which will be exposed to 100uL DMSO, 0.01mg/mL mupirocin, or 0.1mg/mL decoyinine for 15 minutes. At this point, 10mL sample will be removed for protein analysis. The remaining 20mL will be harvested by fast filtration for analysis. |
| Treatment Compound: | DMSO|Mupirocin|Decoyinine |
| Treatment Dose: | 100uL|0.01mg/mL|0.1mg/mL |
| Treatment Doseduration: | 15 min|15 min|15 min |
| Treatment Vehicle: | DMSO|DMSO|DMSO |
Sample Preparation:
| Sampleprep ID: | SP000496 |
| Sampleprep Summary: | NAD-ATP |
| Sampleprep Protocol Filename: | SB_NAD-ATP_Assay_Agilent.pdf |
Combined analysis:
| Analysis ID | AN000731 |
|---|---|
| Analysis type | MS |
| Chromatography type | Reversed phase |
| Chromatography system | Agilent 1290 Infinity |
| Column | Thermo Hypercarb (50 x 2.1mm,3um) |
| MS Type | ESI |
| MS instrument type | Triple quadrupole |
| MS instrument name | Agilent 6490 QQQ |
| Ion Mode | POSITIVE |
| Units | nmol/mg protein |
Chromatography:
| Chromatography ID: | CH000524 |
| Chromatography Summary: | NAD-ATP |
| Methods Filename: | SB_NAD-ATP_Assay_Agilent.pdf |
| Instrument Name: | Agilent 1290 Infinity |
| Column Name: | Thermo Hypercarb (50 x 2.1mm,3um) |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS000648 |
| Analysis ID: | AN000731 |
| Instrument Name: | Agilent 6490 QQQ |
| Instrument Type: | Triple quadrupole |
| MS Type: | ESI |
| Ion Mode: | POSITIVE |
| Analysis Protocol File: | SB_NAD-ATP_Assay_Agilent.pdf |
