Metabolomics Core Facility

Mission

The Metabolomics Core Facility is a research facility located at the Department of Biochemistry and Molecular Biology, at the University of Debrecen, Faculty of Medicine. The laboratory’s mission is to develope and optimize HPLC- and SRM-based targeted metabolite identification and quantification methods. The Metabolomics Core Facility undertakes research, collaborations and analytical services for groups from University of Debrecen, other Universities and biotech companies in the metabolomics field providing access to state-of the art metabolite identification and quantification.

Instruments

Mass spectrometers

  • Micromass Quattro Ultima Platinium (Waters) triple quadrupole mass spectrometer for SRM/MRM-based metabolite identification
  • mass spectrometers of the Proteomics Core Facility

HPLC/UPLC

  • Waters 2695 HPLC.and Waters 2998 Photodiode Array Detector for chromatographic separation and detection of metabolites
  • Waters H-class UPLC wit PDA detector for chromatographic separation and detection of metabolites
  • Transcend™II System with Multi-channel and TurboFlow™Technology (Thermo Scientific) for rapid online sample preparation and chromatography

Softwares used

  • Empower 3 (Waters)
  • MassLynx 4.1 (Waters)
  • Skyline (MacCoss Lab) for SRM transition design, optimization, data analysis and data publication (Panorama)
  • Compound Discoverer 2.1  (Thermo Scientific)
  • Trace Finder 4.1 (Thermo Scientific)
  • Aria OS 1.7 (Thermo Scientific)

Analytical services

The Metabolomics Core Facility provides analytical services based on its equipment and expertise.

1. Eicosanoid analysis

  • Analysis of pro- and anticoagultion balance
  • Analysis of inflammation
  • Oxidized lipid quantification

Analyzed metabolites

  • arachidonic acid
  • PGE2
  • PGD2
  • PGF2α
  • 6-keto PGF
  • PGA2
  • PGB2
  • PGJ2
  • thromboxane B2 (TXB2)
  • 5-HETE
  • 15-HETE
  • 9-HODE
  • 13-HODE

2. Endocannabinoid analysis

Analyzed metabolites

  • anandamide (AEA)
  • 2-arahcydonyl glycerol (2-AG)
  • 1-arahcydonyl glycerol (1-AG)
  • oleoyl-etanolamide (OEA)
  • palmytoyl-ethanolamide (PEA)

3. Detection and quantification of protein forming amino acids

Analyzed amino acids

  • Alanine (Ala)
  • Aspartic acid (Asp)
  • Asparagine (Asn)
  • Arginine (Arg)
  • Cysteine (Cys)
  • Cystine
  • Gamma-amynobutyric acid (GABA)
  • Glutamate/Glutamine (Glx)
  • Glycine (Gly)
  • Histindine (His)
  • Isoleucine (Ile)
  • Leucine (Leu)
  • Lysine (Lys)
  • Methionine (Met)
  • Para-aminobenzoic acid (PABA)
  • Phenylalanine (Phe)
  • Proline (Pro)
  • Serine (Ser)
  • Threonine (Thr)
  • Tryptophane (Trp)
  • Tyrosine (Tyr)
  • Valine (Val)

4. Detection and quantification of vitamins

Analyzed vitamins

  • Vitamin B1
  • Vitamin B2
  • Vitamin B6
  • Vitamin B12
  • Niacine
  • Panthotenic acid
  • Vitamin C

5. Detection and quantification of short-chain fatty acids

Analyzed metabolites

  • Acetic acid
  • Propionic acid
  • Lactic acid
  • Butyric acid
  • Succinic acid

6. Method development for metabolite analysis

Sample submission

Before sample sumbission please contact Dr. Éva Csősz or Dr. Gergő Kalló. Samples should be submitted along with a filled and signd sample request form to University of Debrecen, Theoretical building, Room 205.

Sample_request_form_for_metabolomics analysis

Conditions of use

After sample analysis the BMBI Metabolomics Core Facility sends to the Costumer a report and a bill containing the costs of the analyses. The report will be sent in electronic and printed formats as well. The printed format needs to be signed by the Costumer and should be sent back to the BMBI Metabolomics Core Facility for record keeping purposes. You should note that the payment for the analyses is due even if the results generated are not the expected ones, but control runs prove that the equipment worked well and the analysis was done properly!

An appropriate acknowledgement of the involvement of the BMBI Lipidomics Core Facility shall appear in any publication involving work in the BMBI Metabolomics Core Facility. The following wording is suggested:

"HPLC/mass spectrometry analyses for this work were carried out at the BMBI Metabolomics Core Facility, Department of Biochemistry and Molecular Biology University of Debrecen."

Note also that often other grants/support would also need to be acknowledged.

If the BMBI Metabolomics Core Facility is involved in assay development and/or validation work for the project, co-authorship is required with the appropriate member(s) of the lab.

A copy (or full citation details) of any publication involving work in the BMBI Metabolomics Core Facility should be sent to the facility manager as soon as possible after publication.

Submission of an analysis request form provides your agreement to the above conditions.

Costs

Costs are discounted for groups from University of Debrecen, Faculty of Medicine (and its affiliated institutes). Commercial fees are competitive and compare favourably with costs for similar services from other laboratories.

Metabolomics Core Facility price list for 2018.

For any further questions or requests please contact Dr. Éva Csősz