Summary of Study ST000190

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 PR000161. The data can be accessed directly via it's Project DOI: 10.21228/M8DS3P This work is supported by NIH grant, U2C- DK119886.

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

Perform statistical analysis  |  Show all samples  |  Show named metabolites  |  Download named metabolite data  
Download mwTab file (text)   |  Download mwTab file(JSON)   |  Download data files (Contains raw data)
Study IDST000190
Study TitleAssessment of dietary zinc on SCFA cecal production
Study TypeShort-chain fatty acid analysis
Study SummaryZinc (Zn) deficiency is a prevalent micronutrient insufficiency. Although the gut is a vital organ for Zn utilization, and Zn deficiency is associated with impaired intestinal permeability and a global decrease in gastrointestinal health, alterations in the gut microbial ecology of the host under conditions of Zn deficiency have yet to be studied. Using the broiler chicken (Gallus gallus) model, the aim of this study was to characterize distinct cecal microbiota shifts induced by chronic dietary Zn depletion. We demonstrate that Zn deficiency induces significant taxonomic alterations and decreases overall species richness and diversity, establishing a microbial profile resembling that of various other pathological states. Through metagenomic analysis, we show that predicted Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways responsible for macro- and micronutrient uptake are significantly depleted under Zn deficiency; along with concomitant decreases in beneficial short chain fatty acids, such depletions may further preclude optimal host Zn availability. We also identify several candidate microbes that may play a significant role in modulating the bioavailability and utilization of dietary Zn during prolonged deficiency. Our results are the first to characterize a unique and dysbiotic cecal microbiota during Zn deficiency, and provide evidence for such microbial perturbations as potential effectors of the Zn deficient phenotype. Experiment setup Upon hatching, chicks were randomly allocated into two treatment groups on the basis of body weight and gender (aimed to ensure equal distribution between groups, n = 6): 1. Zn(+): 42 µg/g zinc; 2. Zn(−): 2.5 µg/g zinc. Research is published: http://www.mdpi.com/2072-6643/7/12/5497/htm
Institute
University of Michigan
DepartmentBiomedical Research Core Facilities
LaboratoryMetabolomics core
Last NameKachman
First NameMaureen
Address6300 Brehm Tower, 1000 Wall Street, Ann Arbor, MI 48105-5714
Email mkachman@umich.edu
Submit Date2015-06-08
Num Groups2
Total Subjects12
Raw Data AvailableYes
Raw Data File Type(s)d
Uploaded File Size64 M
Analysis Type DetailGC-MS
Release Date2015-12-28
Release Version1
Maureen Kachman Maureen Kachman
https://dx.doi.org/10.21228/M8DS3P
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:


Project:

Project ID:PR000161
Project DOI:doi: 10.21228/M8DS3P
Project Title:Zinc Studies
Project Summary:Zinc Deficiency and SCFA
Institute:USDA Agricultural Research Service;Cornell University
Department:Trace minerals and Nutrition
Laboratory:Tako Lab
Last Name:Tako
First Name:Elad
Address:Ithaca, New York
Email:et79@cornell.edu
Phone:607-255-5434

Subject:

Subject ID:SU000209
Subject Type:Animal
Subject Species:Gallus gallus
Taxonomy ID:9031
Species Group:Bird

Factors:

Subject type: Animal; Subject species: Gallus gallus (Factor headings shown in green)

mb_sample_id local_sample_id Zinc
SA009649S00016512MINUS
SA009650S00016508MINUS
SA009651S00016511MINUS
SA009652S00016513MINUS
SA009653S00016510MINUS
SA009654S00016509MINUS
SA009655S00016518PLUS
SA009656S00016519PLUS
SA009657S00016517PLUS
SA009658S00016515PLUS
SA009659S00016514PLUS
SA009660S00016516PLUS
Showing results 1 to 12 of 12

Collection:

Collection ID:CO000197
Sample Type:Intestinal Secretions

Treatment:

Treatment ID:TR000217

Sample Preparation:

Sampleprep ID:SP000211
Sampleprep Protocol Filename:SCFA_analysis_protocol-2015-03-10.docx

Combined analysis:

Analysis ID AN000291
Analysis type MS
Chromatography type GC
Chromatography system
Column Phenomenex Zebron ZB-WAXplus (30m x 0.25mm, 0.25um)
MS Type EI
MS instrument type Single quadrupole
MS instrument name Agilent 5975C
Ion Mode POSITIVE
Units pmol/mg dry weight

Chromatography:

Chromatography ID:CH000213
Methods ID:AQM030
Methods Filename:WAXPLUS_100-200C_2_SIM.txt
Column Name:Phenomenex Zebron ZB-WAXplus (30m x 0.25mm, 0.25um)
Chromatography Type:GC

MS:

MS ID:MS000240
Analysis ID:AN000291
Instrument Name:Agilent 5975C
Instrument Type:Single quadrupole
MS Type:EI
Ion Mode:POSITIVE
Acquisition Parameters File:WAXPLUS_100-200C_2_SIM.txt
Processing Parameters File:EX00360-SCFA-Quant-methods.m.zip
  logo