Recent Environmental Metabolomics Publications
Mark Viant has ISI researcherID B-6339-2009 with citations at
Reviews and Commentaries
M. R. Viant, U. Sommer, Mass spectrometry based environmental metabolomics: A primer and review. Metabolomics ------- (2012).
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).
G. van Aggelen, M. R. Viant et al., Integrating omic technologies into aquatic ecological risk assessment and environmental monitoring: Hurdles, achievements and future outlook. Environmental Health Perspectives 118, 1-5 (2010).
J. G. Bundy, M. P. Davey, M. R. Viant, Environmental metabolomics: A critical review and future perspectives. Metabolomics 5, 3-21 (2009).
M. R. Viant, Recent developments in environmental metabolomics. Molecular Biosystems 4, 980-986 (2008).
O. Hrydziuszko, M. R. Viant, Missing values in mass spectrometry based metabolomics: an undervalued step in the data processing pipeline. Metabolomics ------- (2012).
H. Ashrafian, G. Czibik, M. Bellahcene, D. Aksentijević, A. C. Smith et al., Fumarate is Cardioprotective via Activation of the Nrf2 Antioxidant Pathway. Cell Metabolism 15, 361-371 (2012).
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).
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).
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.
I. Katsiadaki, T. D. Williams, J. Ball, T. P. Bean, H. Wu, E. M. Santos, M. M. Brown, P. Baker, F. Ortega, F. Falciani, J. A. Craft, C. R. Tyler, M. R. Viant, J. K. Chipman, Hepatic transcriptomic and metabolomic responses in the stickleback (Gasterosteus aculeatus) exposed to ethinyl-estradiol. Aquat. Toxicol. 97, 174-187 (2010).
O. Hrydziuszko, M. A. Silva, M. T. P. R. Perera, D. A. Richards, N. Murphy, D. Mirza, M. R. Viant, Application of metabolomics to investigate the process of human orthotopic liver transplantation: A proof of principle study. OMICS - Journal of Integrative Biology 14, 143-150 (2010).
A. J. Sinclair, M. R. Viant, A. K. Ball, M. A. Burdon, E. A. Walker, P. M. Stewart, S. Rauz, S. P. Young, NMR-based metabolomic analysis of cerebrospinal fluid and serum in neurological diseases - A diagnostic tool? NMR in Biomedicine 23, 123-132 (2010).
J. M. Easton, L. M. Harris, M. R. Viant, A. C. Peet, T. N. Arvanitis, Linked Metabolites: A tool for the construction of directed metabolic graphs. Comput. Biol. Med. 40, 340-349 (2010).
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).
F. L. Khanim, R. E. Hayden, J. Birtwistle, A. Lodi, S. Tiziani, N. J. Davies, J. P. Ride, M. R. Viant, U. L. Günther, J. C. Mountford, H. Schrewe, R. M. Green, J. A. Murray, M. T. Drayson and C. M. Bunce, Combined bezafibrate and medroxyprogesterone acetate: Potential novel therapy for acute myeloid leukaemia. PLoS ONE 4, e8147 (2009).
C. Y. Lin, B. S. Anderson, B. M. Phillips, A. C. Peng, S. Clark, J. Voorhees, H.-D. I. Wu, M. J. Martin, J. McCall, C. R. Todd, F. Hsieh, D. Crane, M. R. Viant, M. L. Sowby, R. S. Tjeerdema, Characterization of the metabolic actions of crude versus dispersed oil in salmon smolts via NMR-based metabolomics. Aquat. Toxicol. 95, 230-238 (2009).
T. K. Karakach, R. Knight, E. M. Lenz, M. R. Viant, J. A. Walter, Analysis of time course 1H NMR metabolomics data by multivariate curve resolution. Magn. Reson. Chem. 47, S105-S117 (2009).
H. M. Parsons, C. Ludwig, M. R. Viant, Line-shape analysis of J-resolved NMR spectra: application to metabolomics and quantification of intensity errors from signal processing and high signal congestion. Magn. Reson. Chem. 47, S86-S95 (2009).
C. Ludwig, D. G. Ward, A. Martin, M. R. Viant, T. Ismail, P. J. Johnson, M. J. O. Wakelam, U. L. Günther, Fast targeted multidimensional NMR metabolomics of colorectal cancer. Magn. Reson. Chem. 47, S68-S73 (2009).
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).
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).
H. M. Parsons, D. R. Ekman, T. W. Collette, M. R. Viant, Spectral relative standard deviation: A practical benchmark in metabolomics. The Analyst 134, 478-485 (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).
T. C. Hawes, A. Hines, M. R. Viant, J. S. Bale, M. R. Worland, P. Convey, Metabolomic fingerprint of cryo-stress in a freeze-tolerant insect. Cryoletters 29, 505-515 (2008).
S. Tiziani, A.-H. Emwas, A. Lodi, C. Ludwig, C. M. Bunce, M. R. Viant and U. L. Günther, Optimised Metabolite Extraction from Blood Serum for 1H Nuclear Magnetic Resonance Spectroscopy. Anal. Biochem. 377, 16-23 (2008).
Y. Xi, J. S. de Ropp, M. R. Viant, D. L. Woodruff and P. Yu, Improved Screening for Metabolites in Complex Mixtures using HSQC NMR Spectroscopy. Anal. Chim. Acta 614, 127-133 (2008).
S. Tiziani, A. Lodi, C. Ludwig, H. M. Parsons and M. R. Viant, Effects of the application of different window functions and projection methods on processing of 1H J-resolved nuclear magnetic resonance spectra for metabolomics. Anal. Chim. Acta 610, 80-88 (2008).
H. Wu, A. D. Southam, A. Hines and M. R. Viant, High throughput tissue extraction protocol for NMR- and MS-based metabolomics. Anal. Biochem. 372, 204-212 (2008).
A. Hines, W. H. Yeung, J. Craft, M. Brown, J. Kennedy, J. Bignell, G. D. Stentiford and M. R. Viant, Comparison of Histological, Genetic, Metabolomic and Lipid-based Methods for Sex Determination in Marine Mussels. Anal. Biochem. 369, 175-186 (2007).
H. M. Parsons, C. Ludwig, U. L. Günther and M. R. Viant, Improved classification accuracy in 1- and 2-dimensional NMR metabolomics data using the variance stabilising generalised logarithm transformation. BMC Bioinformatics 8, 234 (2007).
R. E. Blunt, K. A. Walsh, D. K. Ashton, M. R. Viant and J. K. Chipman, Knowledge Transfer Initiative between Molecular Biologists and Environmental Researchers and Regulators. Environ. Sci. Pollut. Res. 14, 293-296 (2007).
A. D. Southam, T. G. Payne, H. J. Cooper, T. N. Arvanitis, M. R. Viant, Spectral Stitching Method Increases the Dynamic Range and Mass Accuracy of Wide-scan Direct Infusion nano-Electrospray Fourier Transform Ion Cyclotron Resonance Mass Spectrometry-based Metabolomics. 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. A. Turner, M. R. Viant, S. J. Teh and M. L. Johnson, Developmental rates, structural asymmetry and metabolic fingerprints of steelhead trout (Oncorhynchus mykiss) eggs incubated at two temperatures. Fish Physiol. Biochem. 33, 59-72 (2007).
C.-Y. Lin, H. Wu, R. S. Tjeerdema and M. R. Viant, Evaluation of metabolite extraction strategies from tissue samples using NMR metabolomics. Metabolomics 3, 55-67 (2007).
Y. Xi, J. de Ropp, M. R. Viant, D. L. Woodruff and Ping Yu, Automated Identification of Metabolites in Complex Mixtures by Pseudo-likelihood using 2D COSY NMR Spectroscopy. Metabolomics 2, 221-233 (2006).
E. S. Rosenblum, R. S. Tjeerdema and M. R. Viant, Effects of Temperature on Host-Pathogen-Drug Interactions in Red Abalone, Haliotis rufescens, Determined by 1H NMR Metabolomics. Env. Sci. Technol. 40, 7077-7084 (2006).
M. R. Viant, C. A. Pincetich and R. S. Tjeerdema, Metabolic effects of dinoseb, diazinon and esfenvalerate in eyed eggs and alevins of Chinook salmon (Oncorhynchus tshawytscha) determined by 1H NMR metabolomics. Aquat. Toxicol. 77, 359-371 (2006).
M. R. Viant, C. A. Pincetich, D. E. Hinton and R. S. Tjeerdema, Toxic Actions of Dinoseb in Medaka (Oryzias latipes) Embryos as Determined by in vivo 31P NMR, HPLC-UV and 1H NMR Metabolomics. Aquat. Toxicol. 76, 329-342 (2006).
M. R. Viant, B. G. Lyeth, M. G. Miller and R. F. Berman, An NMR Metabolomic Investigation of Early Metabolic Disturbances Following Traumatic Brain Injury in a Mammalian Model, NMR in Biomedicine 18, 507-516 (2005).
G. D. Stentiford, M. R. Viant, D. G. Ward, P. J. Johnson, A. Martin, W. Wei, H. J. Cooper, B. P. Lyons and S. W. Feist, Liver tumours in wild flatfish: a histopathological, proteomic and metabolomic study, OMICS - Journal of Integrative Biology 9, 281-299 (2005).
E.S. Rosenblum, M. R. Viant, B. M. Braid, J. D. Moore, C. S. Friedman and R. S. Tjeerdema, Characterizing the Metabolic Actions of Natural Stresses in the California Red Abalone, Haliotis rufescens using 1H NMR Metabolomics. Metabolomics 1, 199-209 (2005).
M. R. Viant, J. G. Bundy, C. A. Pincetich, J. S. de Ropp and R. S. Tjeerdema, NMR-Derived Developmental Metabolic Trajectories: An Approach for Visualizing the Toxic Actions of Trichloroethylene during Embryogenesis. Metabolomics 1, 149-158 (2005).
C. A. Pincetich, M. R. Viant, D. E. Hinton and R. S. Tjeerdema, Metabolic Changes in Japanese Medaka (Oryzias latipes) during Embryogenesis and Hypoxia as determined by in vivo 31P NMR, Comp. Biochem. Physiol. C 140, 103-113 (2005).
P. V. Purohit, D. M. Rocke, M. R. Viant and D. L. Woodruff,
Discrimination Models using Variance Stabilizing Transformation of Metabolomic NMR Data, OMICS - Journal of Integrative Biology 8, 118-130 (2004).
Note: there is an error in equation 1. Please email Mark Viant for further details.
M. R. Viant, I. Werner, E. S. Rosenblum, A. S. Gantner, R. S. Tjeerdema and M. L. Johnson, Correlation Between Heat-Shock Protein Induction and Reduced Metabolic Condition in Juvenile Steelhead Trout (Oncorhynchus mykiss) Chronically Exposed to Elevated Temperature, Fish Physiol. Biochem. 29, 159-171 (2003).
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).
M. R. Viant, C. A. Pincetich, J. H. Walton, R. S. Tjeerdema and D. E. Hinton, Utilizing in vivo Nuclear Magnetic Resonance Spectroscopy to Study Sublethal Stress in Aquatic Organisms, Mar. Environ. Res. 54, 553-557 (2002).
M. R. Viant, J. H. Walton, P. L. TenBrook and R. S. Tjeerdema, Sublethal Actions of Copper in Abalone (Haliotis rufescens) as Characterized by in vivo 31P NMR, Aquat. Toxicol. 57, 139-151 (2002).
M. R. Viant, E. S. Rosenblum and R. S. Tjeerdema, Optimized Method for the Determination of Phosphoarginine in Abalone Tissue by High-performance Liquid Chromatography, J. Chromatogr. B 765, 107-111 (2001).
M. R. Viant, J. H. Walton and R. S. Tjeerdema, Comparative Sublethal Actions of 3-Trifluoromethyl-4-nitrophenol in Marine Molluscs as Measured by in vivo 31P NMR, Pestic. Biochem. Physiol. 71, 40-47 (2001).