Summary of Study ST000407

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 PR000319. The data can be accessed directly via it's Project DOI: 10.21228/M8H029 This work is supported by NIH grant, U2C- DK119886.

See: https://www.metabolomicsworkbench.org/about/howtocite.php

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Study IDST000407
Study TitleArsenic and the fecal metabolome
Study SummaryThe goal of this study was to identify metabolic differences between 6 week old and 1 year old infants that have been potentially exposed to arsenic in order to determine its effect on the microbiome and the immune system.
Institute
RTI International
LaboratorySystems and Translational Sciences
Last NameSumner
First NameSusan
Address3040 E. Cornwallis Road
Emailjpb@rti.org
Phone919-541-6700
Submit Date2016-06-02
Raw Data AvailableYes
Raw Data File Type(s)1r
Analysis Type DetailNMR
Release Date2018-08-27
Release Version1
Susan Sumner Susan Sumner
https://dx.doi.org/10.21228/M8H029
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000319
Project DOI:doi: 10.21228/M8H029
Project Title:Metabolomics Changes in the feces of infants exposed to arsenic
Project Summary:Exposure to arsenic (As) during the vulnerable window of fetal development and early childhood has shown significant clinical effects. In highly exposed populations, altered immunity is one of the most affected pathways and can lead to an elevated risk of infection and a pre-disposition to allergy/atopy. Since well water in the New Hampshire region has been determined to be a potential source of As exposure, this study includes mother-infant dyads living in the area, who obtain household water from private wells. This study seeks to determine if in utero and early life As exposure is related to increase occurrence of childhood: infections, allergy and atopy, and diminished vaccine response. It has been observed that the microbiome is an important mediator of immune impairment due to As exposure. Therefore, we will further investigate the relation between in utero and early life As exposure on the development of the infant intestinal microbiome in the first year of life. For this study fecal samples, from infants at risk of As exposure, were collected at 6 weeks and 12 months of age. Metabolomics data will allow for a more complete picture of the relationships between the microbiome, As exposure and immune function.
Institute:Dartmouth College
Department:Department of Epidemiology
Last Name:Margaret
First Name:Karagas
Address:One Medical Center Road, 7927 HB, Rubin Building, Lebanon, NH 03756
Email:Margaret.Karagas@Dartmouth.edu
Phone:603-653-9010

Subject:

Subject ID:SU000428
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Species Group:Human

Factors:

Subject type: Human; Subject species: Homo sapiens (Factor headings shown in green)

mb_sample_id local_sample_id Age
SA019573P_28
SA019574P_29
SA019575P_27
SA019576P_25
SA019577P_24
SA019578P_3
SA019579P_26
SA019580P_30
SA019581P_7
SA019582P_1
SA019583P_6
SA019584P_5
SA019585P_4
SA019586P_23
SA019587P_9
SA019588P_14
SA019589P_15
SA019590P_13
SA019591P_12
SA019592P_10
SA019593P_22
SA019594P_16
SA019595P_11_R
SA019596P_17
SA019597P_21
SA019598P_20
SA019599P_2
SA019600P_18
SA019601P_19
SA019602S_26_1Y1Y
SA019603S_259_1Y1Y
SA019604S_263_1Y1Y
SA019605S_264_1Y1Y
SA019606S_260_1Y1Y
SA019607S_255_1Y1Y
SA019608S_267_1Y1Y
SA019609S_249_1Y1Y
SA019610S_251_1Y1Y
SA019611S_252_1Y1Y
SA019612S_256_1Y1Y
SA019613S_254_1Y1Y
SA019614S_258_1Y1Y
SA019615S_278_1Y1Y
SA019616S_284_1Y1Y
SA019617S_283_1Y1Y
SA019618S_285_1Y1Y
SA019619S_288_1Y1Y
SA019620S_246_1Y1Y
SA019621S_282_1Y1Y
SA019622S_28_1Y1Y
SA019623S_272_1Y1Y
SA019624S_271_1Y1Y
SA019625S_273_1Y1Y
SA019626S_274_1Y1Y
SA019627S_275_1Y1Y
SA019628S_268_1Y1Y
SA019629S_227_1Y1Y
SA019630S_222_1Y1Y
SA019631S_221_1Y1Y
SA019632S_224_1Y1Y
SA019633S_226_1Y1Y
SA019634S_289_1Y1Y
SA019635S_218_1Y1Y
SA019636S_217_1Y1Y
SA019637S_212_R_1Y1Y
SA019638S_210_1Y1Y
SA019639S_213_1Y1Y
SA019640S_214_1Y1Y
SA019641S_216_1Y1Y
SA019642S_22_R_1Y1Y
SA019643S_230_1Y1Y
SA019644S_240_1Y1Y
SA019645S_24_1Y1Y
SA019646S_241_1Y1Y
SA019647S_242_1Y1Y
SA019648S_244_1Y1Y
SA019649S_239_1Y1Y
SA019650S_237_1Y1Y
SA019651S_232_1Y1Y
SA019652S_231_1Y1Y
SA019653S_234_1Y1Y
SA019654S_235_1Y1Y
SA019655S_236_1Y1Y
SA019656S_245_1Y1Y
SA019657S_307_1Y1Y
SA019658S_65_1Y1Y
SA019659S_61_1Y1Y
SA019660S_7_1Y1Y
SA019661S_71_1Y1Y
SA019662S_73_1Y1Y
SA019663S_60_1Y1Y
SA019664S_58_1Y1Y
SA019665S_52_1Y1Y
SA019666S_50_1Y1Y
SA019667S_53_1Y1Y
SA019668S_55_1Y1Y
SA019669S_57_1Y1Y
SA019670S_74_1Y1Y
SA019671S_76_1Y1Y
SA019672S_92_1Y1Y
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Collection:

Collection ID:CO000422
Collection Summary:Feces collected from 6W and 1Y infants in the New Hampshire Birth Cohort
Sample Type:Feces

Treatment:

Treatment ID:TR000442
Treatment Summary:None

Sample Preparation:

Sampleprep ID:SP000435
Sampleprep Summary:The samples of thawed feces from each participant were transferred to massed MagNA tubes, frozen, and lyophilized. Lyophilized samples were massed and phosphate buffer was added depending on the mass of each sample (500 µL for up to 200 mg, and 1.0 mL for over 200 mg of feces) and homogenized in 30 second pulses at 2000 rpm. Homogenized samples were centrifuged and the supernatant was filtered. A volume of the filtered supernatant necessary to analyze 25 mg per sample was mixed with 70 µL of Chenomx ISTD solution, and a calculated volume of 0.5 mM phosphate buffer (pH 7.5) needed to bring the total sample volume to 630 µL. The tubes were vortexed for 2 min on a multi-tube vortexer and centrifuged at 16,000 rcf for 5 min. A 600 µl aliquot of the supernatant was transferred into pre-labeled 5mm NMR tubes for data acquisition on a 700 MHz spectrometer. Additionally, ten random QC pools were created from the samples with adequate mass to spare. An aliquot containing 5 mg of fecal water from each individual sample was transferred into the pools, and three replicates were created from each pool for a total of 30 pooled samples. Each pool was run once a day over the 3 day experimental run time.

Analysis:

Analysis ID:AN000647
Analysis Type:NMR
Num Factors:3

NMR:

NMR ID:NM000069
Analysis ID:AN000647
Instrument Name:Bruker Avance III
Instrument Type:FT-NMR
NMR Experiment Type:1D 1H
Spectrometer Frequency:700 MHz
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