Summary of study ST000244

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 PR000197. The data can be accessed directly via it's Project DOI: 10.21228/M8XK51 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.

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Study IDST000244
Study TitleMetabolomic Diagnosis in Horse
Study Typecomparison
Study SummaryIn this project we will investigate the feasibility of metabolomics and to characterize the diversity of “metabotypes” in the horse, towards discovery of markers and pathways associated with obesity and insulin resistance in the equine model. The collaborative team of researchers assembled for this work have identified horses severely affected with Equine Metabolic syndrome, often characterized by obesity and hyperinsulinemia. These animals are all from the Arabian breed, to control for some genetic background. Horses are age, sex and farm of residence matched with a control animal whenever possible. Carefully controlled collection protocols were utilized to ensure minimal variability in sample age and quality. Blood plasma is submitted for both global LC-MS analysis through the SECIM core facilities. This discovery-based approach will begin to generate new targets for the development of novel therapeutic interventions for the treatment and prevention of obesity, type-2 diabetes as well as related secondary conditions in both humans and horses. Finally, as the first dataset of its kind in the horse, we may also be able to highlight promising new biomarkers for veterinary diagnostic use.
Institute
University of Florida
Last NameBrooks
First NameSamantha
Emailsamantha.brooks@ufl.edu
Submit Date2015-10-13
Num Groups3
Total Subjects51
Raw Data AvailableYes
Raw Data File Type(s).raw
Analysis Type DetailLC-MS
Release Date2016-09-23
Release Version1
Samantha Brooks Samantha Brooks
https://dx.doi.org/10.21228/M8XK51
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000197
Project DOI:doi: 10.21228/M8XK51
Project Title:Metabolomic Diagnostics in the Horse
Project Summary:In this project we will investigate the feasibility of metabolomics and to characterize the diversity of “metabotypes” in the horse, towards discovery of markers and pathways associated with obesity and insulin resistance in the equine model. The collaborative team of researchers assembled for this work have identified horses severely affected with Equine Metabolic syndrome, often characterized by obesity and hyperinsulinemia. These animals are all from the Arabian breed, to control for some genetic background. Horses are age, sex and farm of residence matched with a control animal whenever possible. Carefully controlled collection protocols were utilized to ensure minimal variability in sample age and quality. Blood plasma is submitted for both global LC-MS analysis through the SECIM core facilities. This discovery-based approach will begin to generate new targets for the development of novel therapeutic interventions for the treatment and prevention of obesity, type-2 diabetes as well as related secondary conditions in both humans and horses. Finally, as the first dataset of its kind in the horse, we may also be able to highlight promising new biomarkers for veterinary diagnostic use.
Institute:University of Florida
Laboratory:Brooks Lab
Last Name:Brooks
First Name:Samantha
Email:samantha.brooks@ufl.edu
Phone:352-273-8080
Funding Source:Southeastern Center for Integrated Metabolomics (SECIM) pilot and feasibility funding, NIH U24 DK097209

Subject:

Subject ID:SU000264
Subject Type:Animal
Subject Species:Equus caballus
Taxonomy ID:9796
Genotype Strain:Arabian
Species Group:Mammal

Factors:

Subject type: Animal; Subject species: Equus caballus (Factor headings shown in green)

mb_sample_id local_sample_id Treatment Gender
SA0112652268Control Female
SA0112662227Control Female
SA0112672204Control Female
SA0112682223Control Female
SA0112692241Control Female
SA0112702232Control Female
SA0112712244Control Female
SA0112722267Control Female
SA0112732245Control Female
SA0112742214Control Female
SA0112752222Control Male(gelding)
SA0112762253Control Male(gelding)
SA0112772250Control Male(gelding)
SA0112782256Control Male(gelding)
SA0112792205Control Male(gelding)
SA0112802209Control Male(gelding)
SA0112812233Control Male(gelding)
SA0112952212EMS Female
SA0112962215EMS Female
SA0112972221EMS Female
SA0112982255EMS Female
SA0112992265EMS Female
SA0113002217EMS Female
SA0113012226EMS Female
SA0113022229EMS Female
SA0113032243EMS Female
SA0113042242EMS Female
SA0113052246EMS Female
SA0113062274EMS Female
SA0113072270EMS Male(gelding)
SA0113082266EMS Male(gelding)
SA0113092235EMS Male(gelding)
SA0113102228EMS Male(gelding)
SA0113112257EMS Male(gelding)
SA0113122247EMS Male(gelding)
SA0113132219EMS Male(gelding)
SA0113142239EMS Male(gelding)
SA0113152271EMS Male(gelding)
SA0112822254EMS-Treated Female
SA0112832220EMS-Treated Female
SA0112842263EMS-Treated Female
SA0112852258EMS-Treated Female
SA0112862216EMS-Treated Male(gelding)
SA0112872249EMS-Treated Male(gelding)
SA0112882210EMS-Treated Male(gelding)
SA0112892264EMS-Treated Male(gelding)
SA0112902238EMS-Treated Male(gelding)
SA0112912234EMS-Treated Male(gelding)
SA0112922225EMS-Treated Male(gelding)
SA0112932261EMS-Treated Male(gelding)
SA0112942248EMS-Treated Male(gelding)
Showing results 1 to 51 of 51

Collection:

Collection ID:CO000255
Collection Summary:A mobile set-up allowed for immediate processing of samples from study horses on their home farm. 50mL of blood was collected into two EDTA tubes, two no-additive tubes, and one sodium oxalate tube. EDTA and sodium oxalate treated samples were thoroughly mixed by inversion and immediately centrifuged to pellet the cells and allow for removal of plasma by pipette. Blood drawn in a no-additive tube was allowed to clot, centrifuged, and had the serum removed by pipette. The draw yielded 6-8 mL of plasma and 3-4mL of serum, which was then divided in to 1mL aliquots and immediately snap frozen by immersion in liquid nitrogen. Upon returning to the lab, the samples were then transfered to -80C for storage. Currently, only plasma is being submitted for metabolomic analysis.
Collection Protocol Filename:collection.txt
Sample Type:Blood
Collection Method:jugular venipuncture
Collection Location:On farm
Collection Duration:30 minutes per horse total
Collection Time:na
Volumeoramount Collected:50ml whole blood
Storage Conditions:snap frozen in LN2 on farm, -80 in lab
Collection Vials:glass vacutainer
Storage Vials:plastic cryovials
Collection Tube Temp:ambient during draw and centrifugation, then LN2 after plasma removal
Additives:EDTA
Blood Serum Or Plasma:PLASMA

Treatment:

Treatment ID:TR000275
Treatment Summary:Blood was collected from the jugular vein and processed for serum, plasma, and DNA using standard procedures. To minimize circadian and meal associated effects on blood parameters, samples were collected in the morning prior to feeding concentrated rations. Care was taken to minimize stress to the animals, and no special treatments were given. Body measures were also gathered on each animal to capture regional adiposity and body size using a well optimized protocol, as well as body condition scores according to the Henneke system [numerical scores of 1 for emaciated to 9 for extremely obese]. Detailed diets, exercise regimes and a complete health history on each individual were recorded. Study animals are privately-owned, live on several farms in the central Florida area, and may have naturaly aquired disease. Based on the collected observations each horse is assigned to one of three diagnostic groups: 1) Normal Control, 2)Equine Metabolic Syndrome and 3)EMS- under treatment.
Treatment Protocol Filename:treatment.txt

Sample Preparation:

Sampleprep ID:SP000269
Sampleprep Protocol Filename:Metabolomics_LCMSProtocol.pdf
Sampleprep Protocol Comments:Standard protein precipitation method is included in this document
Processing Method:PLASMA
Extraction Method:PLASMA

Combined analysis:

Analysis ID AN000381 AN000382
Analysis type MS MS
Chromatography type Reversed phase Reversed phase
Chromatography system Thermo Dionex Ultimate 3000 Thermo Dionex Ultimate 3000
Column ACE Excel 2 C18-PFP (100 x 2.1mm, 2um) ACE Excel 2 C18-PFP (100 x 2.1mm, 2um)
MS Type ESI ESI
MS instrument type Orbitrap Orbitrap
MS instrument name Thermo Q Exactive Orbitrap Thermo Q Exactive Orbitrap
Ion Mode POSITIVE NEGATIVE
Units peak area peak area

Chromatography:

Chromatography ID:CH000274
Methods Filename:Metabolomics_LCMSProtocol.pdf
Instrument Name:Thermo Dionex Ultimate 3000
Column Name:ACE Excel 2 C18-PFP (100 x 2.1mm, 2um)
Internal Standard:Appendix A - Internal Standard Prep GLCMS.pdf
Chromatography Type:Reversed phase

MS:

MS ID:MS000327
Analysis ID:AN000381
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
Ion Mode:POSITIVE
  
MS ID:MS000328
Analysis ID:AN000382
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
Ion Mode:NEGATIVE
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