Summary of Study ST003527

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 PR002170. The data can be accessed directly via it's Project DOI: 10.21228/M84C19 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	ST003527
Study Title	Combining antibiotics alters the longitudinal maturation of gut microbiota and its short chain fatty acid metabolites in extremely and very preterm infants
Study Summary	Antibiotics are routinely prescribed to extremely and very premature infants as a pre-emptive and prophylactic treatment to reduce the risk of acute neonatal illness (i.e. necrotizing enterocolitis, NEC) associated with morbidity. To investigate the effects of antibiotic types, combinations, and duration on the preterm gut microbiome and metabolome, we analyzed the microbiome compositions of 123 stool samples collected at 3 timepoints (postnatal day 1, 28 and 56) from extremely- and very-low-birthweight infants treated with 14 different antibiotics spanning across 5 classes. Targeted metabolomics were performed on 47 samples available, allowing us to quantify 649 metabolites including amino acids, bile acids, fatty acids, and lipids. As a result, we found that antibiotics exerted the most profound disruptive impact on the gut microbiota, while antibiotics and breastfeeding highly influence the gut metabolome. Short chain fatty acids were reduced in both antibiotic-treated and NEC group. Finally, we revealed that cephalosporins negatively impact conjugated bile acids due to a positive correlation with bile salt hydrolase-producing Staphylococcus.
Institute	Seoul National University
Last Name	Kyeong-Seog
First Name	Kim
Address	Jongno-Gu, South Korea
Email	92kkim@gmail.com
Phone	+8227408905
Submit Date	2024-09-23
Raw Data Available	Yes
Raw Data File Type(s)	d, wiff
Analysis Type Detail	GC-MS/LC-MS
Release Date	2024-10-22
Release Version	1

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Sample Preparation:

Sampleprep ID:	SP003663
Sampleprep Summary:	For metabolome extraction from stool samples, 2-propanol was added at the 1 mg: 3 µL ratio. The mixture was vortexed vigorously until the stools are entirely homogenized, and then centrifuged to remove stool debris for 5 min at 18,341 × g and 4°C. Finally, the supernatant was collected for further analysis including targeted metabolomics using the MxP Quant 500 kit provided by Biocrates (Biocrates Life Science AG, Innsbruck, Austria), and for the analysis of SCFAs as described previously [10.3390/metabo12060525]. Briefly, for MxP Quant 500 kit assay, 10 µL of stool extract was used and the stool metabolome was derivatized with phenylisothiocyanate per manufacturer’s instruction. For the extraction of SCFAs, 10 µL of 10 µg/mL of acetic acid-d4, which was used for internal standard (IS) was added to the 30 µL of stool extract. Then, 0.1 mL of deionized water and 10 µL of 1.0 M hydrochloric acid was added to the sample, and further extracted SCFAs by adding 0.2 mL of methyl-tert butyl ether (MTBE). The MTBE phase was collected after vortex and centrifugation for gas chromatography–mass spectrometry (GC–MS) analysis.

Sampleprep ID:

SP003663

Sampleprep Summary:

For metabolome extraction from stool samples, 2-propanol was added at the 1 mg: 3 µL ratio. The mixture was vortexed vigorously until the stools are entirely homogenized, and then centrifuged to remove stool debris for 5 min at 18,341 × g and 4°C. Finally, the supernatant was collected for further analysis including targeted metabolomics using the MxP Quant 500 kit provided by Biocrates (Biocrates Life Science AG, Innsbruck, Austria), and for the analysis of SCFAs as described previously [10.3390/metabo12060525]. Briefly, for MxP Quant 500 kit assay, 10 µL of stool extract was used and the stool metabolome was derivatized with phenylisothiocyanate per manufacturer’s instruction. For the extraction of SCFAs, 10 µL of 10 µg/mL of acetic acid-d4, which was used for internal standard (IS) was added to the 30 µL of stool extract. Then, 0.1 mL of deionized water and 10 µL of 1.0 M hydrochloric acid was added to the sample, and further extracted SCFAs by adding 0.2 mL of methyl-tert butyl ether (MTBE). The MTBE phase was collected after vortex and centrifugation for gas chromatography–mass spectrometry (GC–MS) analysis.