Research Theme within School of Biosciences: BioSystems and Environmental Change (BEC)
Lab website address
Metabolomics method development; environmental toxicology.
Metabolomics method development
The metabolome is now accepted as an important molecular description of phenotype, and thus its accurate characterisation has become of vital importance throughout biology. One of my group's research goals is to develop tools based around high resolution mass spectrometry and NMR spectroscopy for identifying and quantifying the metabolite profiles of tissues and biofluids. Recently we have developed methods in 2-dimensional NMR, confirmed the high reproducibility of NMR metabolomics in an international intercomparison study, and developed new software tools for data mining J-resolved NMR spectra. Also, we have and continue to develop metabolomic methods in high resolution FT-ICR mass spectrometry, including optimal signal processing and analysis pipelines.
My group focuses primarily on using metabolomics to characterise the molecular responses of aquatic animals, in particular invertebrates, to environmental pollutants. We are not only interested in the molecular mechanisms, but also to investigate the utility of metabolomics and targeted metabolite analyses as diagnostic tools for both environmental monitoring and chemical risk assessment. We have used metabolomics to probe toxicant induced metabolic changes in a range of organisms, in particular marine mussels, water fleas (Daphnia magna) and several fish species.
Most notably, our research has led to the discovery of biomarkers of toxic stress that are predictive of whole organism physiological perturbation. This work has received “Honorable Mention” from the Society of Toxicology as one of the top 5 papers published in Toxicological Sciences in 2010.
Currently, two areas of research that are expanding within my group include the study into the potential toxicities of engineered nanomaterials (with Professor Kevin Chipman) and the application of metabolomics to increase our understanding of the molecular machinary within Daphnia magna and its response to environmental stress (with Professors John Colbourne and Kevin Chipman). Overall we seek to gain an improved mechanistic understanding of the effects of environmental insults on organisms, and ultimately to develop tools to monitor the health of our environment.
Mark Viant describes, in 60 seconds, his research in the area of measuring environmental stress by studying animals at the molecular level
Systems Science for Health (SSfH) is a University initiative that is applying the latest omics technologies as well as mathematical and computational approaches to the study of human disease. The ultimate aims are to improve patient treatment and long term health. My laboratory is helping to underpin the metabolomics components of this research programme (in collaboration with Dr Rick Dunn). For example we are applying mass spectrometry based metabolomics in the context of cardiac surgery, in collaboration with University Hospitals Birmingham NHS Trust.
Professors Mark Viant, Chris Bunce and Mark Drayson discuss their work into the Systems Science for Health initiative at The University of Birmingham.
C. Ludwig, J. M. Easton, A. Lodi, S. Tiziani, S. Manzoor, A. D. Southam, J. J. Byrne, L. M. Bishop, S. He, T. N. Arvanitis, U. L. Günther, M. R. Viant, Birmingham Metabolite Library: A publicly accessible database of 1-D 1H and 2-D 1H J-resolved NMR spectra of authentic metabolite standards (BML-NMR). Metabolomics 8, 8-18 (2012).
O. Hrydziuszko, M. R. Viant, Missing values in mass spectrometry based metabolomics: an undervalued step in the data processing pipeline. Metabolomics 8, 161-174 (2012).
T. D. Williams, N. Turan, A. M. Diab, H. Wu, C. Mackenzie, K. L. Bartie, O. Hrydziuszko, B. P. Lyons, G. D. Stentiford, M. J. Herbert, K. J. Abraham, I. Katsiadaki, M. J. Leaver, J. B. Taggart, S. G. George, M. R. Viant, J. K. Chipman, F. Falciani, Towards a System Level Understanding of Non-Model Organisms Sampled from the Environment: A Network Biology Approach. PLoS Comp. Biol. 7, e1002126 (2011).
I. Römer, T. A. White, M. Baalousha, J. K. Chipman, M. R. Viant, J. R. Lead, Aggregation and dispersion of silver nanoparticles in exposure media for aquatic toxicity tests. J. Chromatogr. A 1218, 4226-4233 (2011).
R. J. M. Weber, A. D. Southam, U. Sommer, M. R. Viant, Characterization of isotopic abundance measurements in high resolution FT-ICR and Orbitrap mass spectra for improved confidence of metabolite identification. Anal. Chem. 83, 3737-3743 (2011).
A. D. Southam, A. Lange, A. Hines, E. M. Hill, Y. Katsu, T. Iguchi, C. R. Tyler, M. R. Viant, Metabolomics reveals target and off-target toxicities of a model organophosphate pesticide to roach (Rutilus rutilus): Implications for biomonitoring. Environ. Sci. Technol. 45, 3759-3767 (2011).
H. C. Poynton, N. S. Taylor, J. Hicks, K. Colson, S. Chan, C. Clark, L. Scanlan, A. V. Loguinov, C. Vulpe, M. R. Viant, Metabolomics of Microliter Hemolymph Samples Enables an Improved Understanding of the Combined Metabolic and Transcriptional Responses of Daphnia magna. Environ. Sci. Technol. 45, 3710-3717 (2011).
N. S. Taylor, R. J. M. Weber, T. A. White, M. R. Viant, Discriminating between different acute chemical toxicities via changes in the daphnid metabolome. Toxicol. Sci. 118, 307–317 (2010).
R. J. M. Weber, M. R. Viant, MI-Pack: Increased confidence of metabolite identification in mass spectra by integrating accurate masses and metabolic pathways. Chemometrics and Intelligent Laboratory Systems 104, 75-82 (2010).
A. Hines, F. J. Staff, J. Widdows, R. Compton, F. Falciani, M. R. Viant, Discovery and validation of metabolic signatures for predicting whole organism toxicology. Toxicol. Sci. 115, 369-378 (2010) – selected as Highlight Article for this Issue.
E. M. Santos, J. S. Ball, T. D. Williams, H. Wu, F. Ortega, R. van Aerle, I. Katsiadaki, F. Falciani, M. R. Viant, J. K. Chipman, C. R. Tyler, Identifying health impacts of exposure to copper using transcriptomics and metabolomics in a fish model. Environ. Sci. Technol. 44, 820-826 (2010).
C. Ludwig, M. R. Viant, Two-dimensional J-resolved NMR spectroscopy: Review of a key methodology in the metabolomics toolbox. Phytochemical Analysis 21, 22-32 (2010).
T. D. Williams, H. Wu, E. M. Santos, J. Ball, I. Katsiadaki, M. M. Brown, P. Baker, F. Ortega, F. Falciani, J. A. Craft, C. R. Tyler, J. K. Chipman and M. R. Viant, Hepatic transcriptomic and metabolomic responses in the stickleback (Gasterosteus aculeatus) exposed to environmentally relevant concentrations of dibenzanthracene. Environ. Sci. Technol. 43, 6341-6348 (2009).
T. G. Payne, A. D. Southam, T. N. Arvanitis, M. R. Viant, A signal filtering method for improved quantification and noise discrimination in Fourier transform ion cyclotron resonance mass spectrometry-based metabolomics data. J. Amer. Soc. Mass Spectrom. 20, 1087-1095 (2009).
N. S. Taylor, R. J. M. Weber, A. D. Southam, T. G. Payne, O. Hrydziuszko, T. N. Arvanitis, M. R. Viant, A new approach to toxicity testing in Daphnia magna: Application of high throughput FT-ICR mass spectrometry metabolomics. Metabolomics 5, 44-58 (2009).
J. G. Bundy, M. P. Davey, M. R. Viant, Environmental metabolomics: A critical review and future perspectives. Metabolomics 5, 3-21 (2009).
S. Tiziani, A. Lodi, F. L. Khanim, M. R. Viant, C. M. Bunce, U. L. Günther, Metabolomic profiling of drug responses in acute myeloid leukaemia cell lines. PLoS ONE 4, e4251 (2009).
M. R. Viant, D. W. Bearden, J. G. Bundy, I. W. Burton, T. W. Collette, D. R. Ekman, V. Ezernieks, T. K. Karakach, C. Y. Lin, S. Rochfort, J. S. de Ropp, Q. Teng, R. S. Tjeerdema, J. A. Walter, H. Wu, International NMR-based Environmental Metabolomics Intercomparison Exercise. Environ. Sci. Technol. 43, 219-225 (2009).
A. D. Southam, J. M. Easton, G. D. Stentiford, C. Ludwig, T. N. Arvanitis, M. R. Viant, Metabolic changes in flatfish hepatic tumours revealed by NMR-based metabolomics and metabolic correlation networks. J. Proteome Res. 7, 5277-5285 (2008).
A. D. Southam, T. G. Payne, H. J. Cooper, T. N. Arvanitis, M. R. Viant, Dynamic range and mass accuracy of wide-scan direct infusion nanoelectrospray Fourier transform ion cyclotron resonance mass spectrometry-based metabolomics increased by the spectral stitching method. Anal. Chem. 79, 4595-4602 (2007).
A. Hines, G. S. Oladiran, J. P. Bignell, G. D. Stentiford and M. R. Viant, Direct Sampling of Organisms from the Field and Knowledge of their Phenotype: Key Recommendations for Environmental Metabolomics. Env. Sci. Technol. 41, 3375-3381 (2007).
M. R. Viant, E. S. Rosenblum and R. S. Tjeerdema, NMR-Based Metabolomics: A Powerful Approach for Characterizing the Effects of Environmental Stressors on Organism Health, Env. Sci. Technol. 37, 4982-4989 (2003).
M. R. Viant, Improved Methods for the Acquisition and Interpretation of NMR Metabolomic Data, Biochem. Biophys. Res. Comm. 310, 943-948 (2003).