Mass Spectrometry

University of Natural Resources and Life Sciences Vienna (BOKU)

Wien | Website

Core facility (CF)

Short Description

The BOKU Core Facility Mass Spectrometry (CFMS) provides high-end separation science and mass spectrometry for proteomics, glycomics, metabolomics as well as elemental and isotopic analysis in life, environmental and food sciences.

The CFMS equipment and services enables research and applications in several “-omics” fields at one location. Nano-LC-MS/MS is used for studies requiring proteomics and glycoproteomics data, while LC-MS/MS, GC-MS/MS, and high-resolution molecular mass spectrometry platforms are applied to the analysis of small molecules using targeted (quantitative) and non-targeted approaches. The non-targeted approaches allow differential analysis, mass spectrometric fingerprinting and compound discovery using advanced identity confirmation workflows.

In addition to the molecular mass spectrometric platforms, the CFMS contains three ICP-MS systems situated in a clean room. Two systems are used for quantitative analysis, and one multi-collector system for isotope ratio analysis.

Besides providing instruments, we offer professional training of entire analytical workflows, comprising experimental design, sampling, sample preparation, analysis, and data evaluation. Moreover, we offer analytical services for all described methods and applications.

Contact Person

Dipl. Ing. Dr. Gerrit Hermann

Research Services

Proteomics and glycomics

In the fields of proteomics and glycomics, we provide electrospray time-of-flight and ion trap mass spectrometers with different tuning configurations as well as various source options to address a broad variety of research questions. The combination of on-line liquid chromatography as a separation technique allows for in-depth identification and quantification of complex sample mixtures. The analysis of glycosylated peptides as well as free glycans and many other post translational modifications is one of our core competences.

Small molecules

We provide LC and GC separations in combination with triple quadrupole mass spectrometry systems for quantification of a broad range of small organic molecules covering a wide base of applications. One of our specializations is metabolomics for biotechnology applications. In this context we provide technology and methods delivering high quality data for cellular metabolism studies.

Our high-resolution time of flight instruments allow non-targeted analysis and support identity confirmation and screening workflows using accurate mass, ion mobility, and fragmentation-supported workflows. Methods covering a range of sample types and research questions can be developed upon request.

Elemental and isotope ratio analysis

We provide sector-field and quadrupole-based ICP-MS systems for quantification of almost all elements of the periodic system in various matrices. An additional focus lies on elemental speciation analysis, i.e. the on-line combination of separation techniques (LC, GC, CE) with ICP-MS for investigation of elemental species and element/biomolecule interaction. In this context we provide technologies delivering information of metal/protein stoichiometry or binding efficiency.

Methods & Expertise for Research Infrastructure

With the Core Facility Mass Spectrometry (CF MS), the BOKU (at the VIBT) offers internal and external users a state-of-the-art equipment pool for performing analyzes in the field of isotope, element and molecular mass spectrometry. Measurements are carried out both by the employees of the CF MS and, after appropriate training, by the users themselves. The CF MS has laboratories for sample preparation, an ICP-MS clean room laboratory and several measuring stations with LC-MS and GC-MS-based large devices.

The CF MS is looked after by experienced staff. These have a high level of competence in the field of sample preparation, chromatography and mass spectrometry and also a broad knowledge in the field of bio, food and environmental sciences. These synergies ensure that the current and future requirements of the BOKU scientists and the scientific community as a whole can be met efficiently and with the highest quality standards.

The excellent equipment of the CF MS enables the development of appropriate methods and their application in the routine. The broad portfolio of methods ranges from targeted absolute and relative quantification using molecular and elemental mass spectrometry and the determination of stable isotope ratios using multi-collector ICP-MS to the possibility of non-targeted analysis using high-resolution mass spectrometry for proteomics, glycomics and metabolomics. The CF MS receives scientific support from the Institute for Analytical Chemistry and the Institute for Biochemistry at the BOKU Department of Chemistry.


Dipl. Ing. Dr. Gerrit Hermann
Elements and small molecules
+43 (1) 47654 35051

Dipl.-Ing. Dr. Clemens Grünwald-Gruber
+43 (1) 47654-77265
The Core Facility Mass Spectrometry at the BOKU Vienna provides access to state of the art mass spectrometric infrastructure. The core facility is open to all forms of scientific cooperation. Information on conditions of cooperation and usage fees is provided upon request.
Elemental and isotope ratio analysis

Rottensteiner, H; Kaufmann, S; Rathgeb, A; Kink, B; Plaimauer, B; Matthiessen, P; Hann, S; Scheiflinger, F;
Temperature-dependent irreversible conformational change of recombinant ADAMTS13 upon metal ion chelation. (Link)
J Thromb Haemost. 2019; 17(6):995-1002

Tchaikovsky A; Zitek A; Irrgeher J; Opper C, Scheiber R; Moder K, Congiu L, Prohaska T;
Chemometric tools for determining site-specific elemental and strontium isotopic fingerprints in raw and salted sturgeon caviar. (Link)
Eur Food Res Technol 2019; 245(11):2515-28.

Theiner, S; Schoeberl, A; Fischer, L; Neumayer, S; Hann, S; Koellensperger, G;
FI-ICP-TOFMS for quantification of biologically essential trace elements in cerebrospinal fluid - high-throughput at low sample volume. (Link)
Analyst. 2019; 144(15):4653-4660

Rathgeb, A; Causon, T; Krachler, R; Hann, S
From the peat bog to the estuarine mixing zone: Common features and variances in riverine dissolved organic matter determined by non-targeted analysis. (Link)
MAR CHEM. 2017; 194: 158-167.

Mairinger, T; Wozniak-Knopp, G; Ruker, F; Koellensperger, G; Hann, S
Element labeling of antibody fragments for ICP-MS based immunoassays. (Link)
J ANAL ATOM SPECTROM. 2016; 31(11): 2330-2337.

Schindlegger, Y; Oburger, E; Puschenreiter, M; Stingeder, G; Koellensperger, G; Hann, S
Speciation of 2 '-deoxymugineic acid-metal complexes in top soil extracts by multi-modal stationary phase LC-ICP-MS. (Link)
J ANAL ATOM SPECTROM. 2015; 30(6): 1345-1355.

Fischer, L; Zipfel, B; Koellensperger, G; Kovac, J; Bilz, S; Kunkel, A; Venzago, C; Hann, S;
Flow injection combined with ICP-MS for accurate high throughput analysis of elemental impurities in pharmaceutical products according to USP 232/233. (Link)
J Pharm Biomed Anal. 2014; 95:121-129

Small molecules

Mairinger, T; Weiner, M; Hann, S; Troyer, C; .
Selective and Accurate Quantification of N-Acetylglucosamine in Biotechnological Cell Samples via GC-MS/MS and GC-TOFMS (Link)
Anal Chem. 2020; 92(7):4875-4883

Gassler, T; Sauer, M; Gasser, B; Egermeier, M; Troyer, C; Causon, T; Hann, S; Mattanovich, D; Steiger, MG; .
The industrial yeast Pichia pastoris is converted from a heterotroph into an autotroph capable of growth on CO (Link)
Nat Biotechnol. 2020; 38(2):210-216

Causon, TJ; Ivanova-Petropulos, V; Petrusheva, D; Bogeva, E; Hann, S.
Fingerprinting of traditionally produced red wines using liquid chromatography combined with drift tube ion mobility-mass spectrometry (Link)
ANAL CHIM ACTA. 2019; 1052: 179-189.

Rathgeb, A; Causon, T; Krachler, R; Hann, S.
From the peat bog to the estuarine mixing zone: Common features and variances in riverine dissolved organic matter determined by non-targeted analysis (Link)
MAR CHEM. 2017; 194: 158-167.

Mairinger, T; Steiger, M; Nocon, J; Mattanovich, D; Koellensperger, G; Hann, S.
Gas Chromatography-Quadrupole Time-of-Flight Mass Spectrometry-Based Determination of Isotopologue and Tandem Mass Isotopomer Fractions of Primary Metabolites for C-13-Metabolic Flux Analysis (Link)
ANAL CHEM. 2015; 87(23): 11792-11802.


Valli M, Grillitsch K, Grünwald-Gruber C, Tatto NE, Hrobath B, Klug L, Ivashov V, Hauzmayer S, Koller M, Tir N, Leisch F, Gasser B, Graf AB, Altmann F, Daum G, Mattanovich D.
A subcellular proteome atlas of the yeast Komagataella phaffii. (Link)
EMS Yeast Res. 2020; 20(1):

Bydlinski N, Maresch D, Schmieder V, Klanert G, Strasser R, Borth N.
The contributions of individual galactosyltransferases to protein specific N-glycan processing in Chinese Hamster Ovary cells. (Link)
J BIOTECHNOL. 2018; 282: 101-110.

Montero-Morales L, Maresch D, Castilho A, Turupcu A, Ilieva KM, Crescioli S, Karagiannis SN, Lupinek C, Oostenbrink C, Altmann F, Steinkellner H.
Recombinant plant-derived human IgE glycoproteomics. (Link)
J PROTEOMICS. 2017; 161: 81-87.

Bönisch M, Sellmann C, Maresch D, Halbig C, Becker S, Toleikis L, Hock B, Rüker F.
Novel CH1:CL interfaces that enhance correct light chain pairing in heterodimeric bispecific antibodies. (Link)
PROTEIN ENG DES SEL. 2017; 30(9): 685-696.

Grünwald-Gruber C, Thader A, Maresch D, Dalik T, Altmann F.
Determination of true ratios of different N-glycan structures in electrospray ionization mass spectrometry. (Link)
ANAL BIOANAL CHEM. 2017; 409(10): 2519-2530.

Gacek-Matthews A, Berger H, Sasaki T, Wittstein K, Gruber C, Lewis ZA, Strauss J.
KdmB, a Jumonji Histone H3 Demethylase, Regulates Genome-Wide H3K4Trimethylation and Is Required for Normal Induction of Secondary Metabolism in Aspergillus nidulans. (Link)
PLoS Genet. 2016; 12(8):e1006222

Leymarie N, Griffin PJ, Jonscher K, Kolarich D, Orlando R, McComb M, Zaia J,Aguilan J, Alley WR, Altmann F, Ball LE, Basumallick L, Bazemore-Walker CR, Behnken H, Blank MA, Brown KJ, Bunz SC, Cairo CW, Cipollo JF, Daneshfar R, Desaire H, Drake RR, Go EP, Goldman R, Gruber C, Halim A, Hathout Y, Hensbergen PJ, Horn DM, Hurum D, Jabs W, Larson G, Ly M, Mann BF, Marx K, Mechref Y, Meyer B, Möginger U, Neusüβ C, Nilsson J, Novotny MV, Nyalwidhe JO, Packer NH, Pompach P, Reiz B, Resemann A, Rohrer JS, Ruthenbeck A, Sanda M, Schulz JM, Schweiger-Hufnagel U, Sihlbom C, Song E, Staples GO, Suckau D, Tang H, Thaysen-Andersen M, Viner RI, An Y, Valmu L, Wada Y, Watson M, Windwarder M, Whittal R, Wuhrer M, Zhu Y, Zou C.
Interlaboratory study on differential analysis of protein glycosylation by mass spectrometry: the ABRF glycoprotein research multi-institutional study 2012. (Link)
MOL CELL PROTEOMICS. 2013; 12(10): 2935-2951.