Summary of Study ST001649
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 PR001055. The data can be accessed directly via it's Project DOI: 10.21228/M8B70D 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 | ST001649 |
Study Title | Urinary microbiota and metabolome in pediatric vesicoureteral reflux and scarring |
Study Type | Observational/cross-sectional |
Study Summary | We enrolled girls and boys aged zero to nine years presenting to a pediatric urologist for recurrent urinary tract infection (UTI) or renal scarring (decreased uptake on a nuclear renal scan) or grade 3-5 vesico ureteral reflux (VUR). Exclusion criteria included other urogenital abnormalities, medical renal disease, immunodeficiency, syndromes associated with VUR, acute UTI, persistent UTI (ongoing positive urine culture 1-3 weeks after completing a treatment course), or global renal atrophy on imaging. At one patient visit, a urine specimen was collected for 16S and metabolomic analysis. |
Institute | University of Missouri-Columbia |
Department | MU Metabolomics Center |
Last Name | Sarma |
First Name | Saurav |
Address | 1201 Rollins street, Bond Life Science Center |
sarmas@missouri.edu | |
Phone | 5738825596 |
Submit Date | 2021-01-01 |
Raw Data Available | Yes |
Raw Data File Type(s) | cdf |
Analysis Type Detail | GC-MS |
Release Date | 2021-01-25 |
Release Version | 1 |
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Sample Preparation:
Sampleprep ID: | SP001732 |
Sampleprep Summary: | 100 µL of freshly prepared 1 mg/mL urase solution was added to 100 µL of each of the urine samples then vortexed for 20 seconds and allowed to stand at -20 oC for 1 h. Next, 20 µL of 1 mg/mL of ribitol in water was added to each sample followed by addition of 1 mL of MeOH that was precooled to -20 ºC. The solution was again vortexed for 20 seconds and allowed to stand at -20 ºC for another 2 hours. The samples were centrifuged at 13000g for 15 minutes, and 1 ml of the supernatant from each sample was transferred to an autosampler vial and dried under gaseous nitrogen stream. Additionally, a pooled sample was prepared by combining 200 µL of supernatants from each sample and dried under nitrogen. Dried extracts were stored at -20 C until derivatization. |
Processing Storage Conditions: | -20℃ |
Extraction Method: | For GCMS-polar analysis samples were extracted with water, containing 1 mg/ml ribitol, and 1 ml methanol. |
Extract Enrichment: | 1 mL each of supernatant was collected from each sample for GCMS-polar analysis. |
Extract Storage: | -20℃ |
Sample Resuspension: | For GCMS analysis extracts dried under nitrogen flow and storred at -20C then resuspended in 25 μl of pyridine containing 15 mg/ml methoxyamine hydrochloride |
Sample Derivatization: | GCMS samples were derivatized with 25 μl MSTFA (N-methyl-N-(trimethyl-silyl)trifluoroacetamide) + 1% TMCS (chlorotrimethylsilane) |
Sample Spiking: | Ribitol was used as internal standard for GCMS-polar analysis. |