Summary of Study ST001617

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 PR001039. The data can be accessed directly via it's Project DOI: 10.21228/M8D400 This work is supported by NIH grant, U2C- DK119886.

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Study IDST001617
Study TitleUnique metabolomic profile of skeletal muscle in chronic limb threatening ischemia (HR-MAS study)
Study SummaryThis project is focused on a cross-sectional analysis of non-PAD controls and CLTI patients undergoing either a vascular intervention or undergoing limb amputation was performed and involved a detailed assessment of the limb muscle metabolome using HR-MAS and solution state NMR spectroscopy. It was hypothesized that patients undergoing limb amputation would present with altered muscle metaolite features compared with non-PAD controls.
Institute
University of Florida
DepartmentApplied Physiology and Kinesiology
LaboratoryRm 42 and Rm 43
Last NameRyan
First NameTerence
Address1864 Stadium Rd, FLG 114, Gainesville, FL, 32611, USA
Emailryant@ufl.edu
Phone352-294-1700
Submit Date2020-11-30
Num Groups3
Total Subjects30
Num Males25
Num Females5
Study CommentsPAD metabolomic study via NMR. A detailed assessment of the limb muscle metabolome using semi-solid and solution state NMR spectroscopy.
PublicationsJournal of Clinical Medicine
Raw Data AvailableYes
Raw Data File Type(s)fid
Analysis Type DetailNMR
Release Date2022-07-07
Release Version1
Terence Ryan Terence Ryan
https://dx.doi.org/10.21228/M8D400
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR001039
Project DOI:doi: 10.21228/M8D400
Project Title:Unique metabolomic profile of skeletal muscle in chronic limb threatening ischemia
Project Type:NMR
Project Summary:This project is focused on a cross-sectional analysis of non-PAD controls and CLTI patients undergoing either a vascular intervention or undergoing limb amputation was performed and involved a detailed assessment of the limb muscle metabolome using HR-MAS and solution state NMR spectroscopy. It was hypothesized that patients undergoing limb amputation would present with altered muscle metabolite features compared with non-PAD controls.
Institute:University of Florida
Department:Applied Physiology and Kinesiology
Laboratory:Rm 42 and Rm 43
Last Name:Ryan
First Name:Terence
Address:University of Florida, Applied Physiology and Kinesiology, 1864 stadium RD, Gainesville, FL 32611
Email:ryant@ufl.edu
Phone:352-294-1700
Funding Source:National Institutes of Health and the National Heart, Lung, and Blood, Institute numbers R01-HL149704 (to T.E.R.) and R01-HL148597 (to S.T.S.); as well as the American Heart Association grant number 18CDA34110044 (to T.E.R.). A portion of this work was supported by pilot funds (awarded to T.E.R.) from The University of Florida Claude D. Pepper Older Americans Independence Center P30AG028740. (if applicable)
Project Comments:PAD metabolomic study via NMR. A detailed assessment of the limb muscle metabolome using semi-solid and solution state NMR spectroscopy.
Publications:Journal of Clinical Medicine
Contributors:Ram B. Khattri, Kyoungrae Kim, Trace Thome, Zachary R. Salyers, Kerri A. O’Malley, Scott A. Berceli, Salvatore T. Scali, Terence E. Ryan*

Subject:

Subject ID:SU001694
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Age Or Age Range:55-82 years
Gender:Male and female
Human Race:unknown
Human Ethnicity:unknown
Human Medications:Asprin, ACE inhibitor, statins, cilostazol
Human Smoking Status:Controls = 4, CLTI Pre-surgery = 7, and CLTI Amputation = 9

Factors:

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

mb_sample_id local_sample_id Group
SA137213CLTI Amputation8BCLTI_Amputation
SA137214CLTI Amputation9BCLTI_Amputation
SA137215CLTI Amputation10BCLTI_Amputation
SA137216CLTI Amputation1BCLTI_Amputation
SA137217CLTI Amputation7BCLTI_Amputation
SA137218CLTI Amputation2BCLTI_Amputation
SA137219CLTI Amputation6BCLTI_Amputation
SA137220CLTI Amputation3BCLTI_Amputation
SA137221CLTI Amputation4BCLTI_Amputation
SA137222CLTI Pre-surgery7BCLTI_Pre_surgery
SA137223CLTI Pre-surgery9BCLTI_Pre_surgery
SA137224CLTI Pre-surgery6BCLTI_Pre_surgery
SA137225CLTI Pre-surgery5BCLTI_Pre_surgery
SA137226CLTI Pre-surgery1BCLTI_Pre_surgery
SA137227CLTI Pre-surgery2BCLTI_Pre_surgery
SA137228Control8BControl
SA137229Control10BControl
SA137230Control7BControl
SA137231Control9BControl
SA137232Control5BControl
SA137233Control1BControl
SA137234Control2BControl
SA137235Control3BControl
SA137236Control4BControl
SA137237Control6BControl
Showing results 1 to 25 of 25

Collection:

Collection ID:CO001687
Collection Summary:Gastrocnemius muscle specimens were obtained from ten older adult non-PAD controls (Control), ten patients with critical limb ischemia (CLI) undergoing surgical intervention (CLTI Pre-surgery), and ten CLI patients undergoing limb amputation (CLTI Amputation). Five pre-surgery patients underwent bypass interventions and five underwent endovascular procedures. Muscle specimens were collected within the confines of the operating rooms (CLI patients) or via percutaneous muscle biopsy using sterile procedures. A portion of the muscle was quickly trimmed of fat/connective tissue and snap frozen in liquid nitrogen for metabolomics analysis.
Sample Type:Muscle
Collection Method:Muscle specimens were collected within the confines of the operating rooms (CLI patients) or via percutaneous muscle biopsy using sterile procedures. A portion of the muscle was quickly trimmed of fat/connective tissue and snap frozen in liquid nitrogen for metabolomics analysis.
Storage Conditions:-80℃
Storage Vials:cryovials

Treatment:

Treatment ID:TR001707
Treatment Summary:This was a prospective cohort study that examined the metabolomic profile of skeletal muscle from CLTI patients undergoing surgerical intervention or amputation, as well as a cohort of non-PAD controls. CLTI patients exhibited severe symptomology (Rutherford Classification 3-6), with high incidence of common PAD risk factors including hypertension, hyperlipidemia, coronary artery disease, and diabetes.Ten patients with critical limb ischemia (CLI) undergoing surgical intervention (CLTI Pre-surgery), and ten CLI patients undergoing limb amputation (CLTI Amputation). Five pre-surgery patients underwent bypass interventions and five underwent endovascular procedures. Muscle specimens were collected within the confines of the operating rooms (CLI patients) or via percutaneous muscle biopsy using sterile procedures.
Human Fasting:non-fasted
Human Endp Clinical Signs:N/A

Sample Preparation:

Sampleprep ID:SP001700
Sampleprep Summary:Semi-solid HR-MAS spectra were collected on intact human gastrocnemius muscle specimens.
Processing Method:None
Processing Storage Conditions:-80℃
Extract Storage:-80℃
Sample Resuspension:None
Sample Spiking:None

Analysis:

Analysis ID:AN002652
Laboratory Name:Terence lab, UF
Analysis Type:NMR
Acquisition Date:08/31/2020 to 09/03/2020
Software Version:Bruker Topspin
Operator Name:Ram Khattri
Detector Type:Bruker
Data Format:fid, 1r
Num Factors:3
Num Metabolites:25
Units:A.U.

NMR:

NMR ID:NM000189
Analysis ID:AN002652
Instrument Name:Bruker Avance 800 MHz with HR-MAS console
Instrument Type:FT-NMR
NMR Experiment Type:1D-1H
Field Frequency Lock:Deuterium
Standard Concentration:None
Spectrometer Frequency:800 MHz
NMR Probe:HR-MAS probe
NMR Solvent:For HR-MAS experiments, deuterium oxide was used.
NMR Tube Size:3.2 mm inside diameter plastic insert was used for HR-MAS experiments.
Shimming Method:Topshim
Pulse Sequence:noesypr1d
Water Suppression:presat
Pulse Width:90-degree
Receiver Gain:28.5
Offset Frequency:4.96 Hz
Chemical Shift Ref Cpd:None
Temperature:4 oC
Number Of Scans:256
Dummy Scans:8
Acquisition Time:2.0447 s
Relaxation Delay:2 s
Spectral Width:8012.8 Hz
Num Data Points Acquired:16384 points
Real Data Points:65536
Line Broadening:0.5 Hz
Zero Filling:65,536 points
Apodization:Exponential
Baseline Correction Method:Spline
Chemical Shift Ref Std:Alanine doublet at 1.46 ppm
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