A three-minute method for high-throughput quantitative metabolomics and quantitative tracing experiments of central carbon and nitrogen pathways

Rapid Communications in Mass Spectrometry

Volumn 31, Issue 8, 2017, Pages 663-673

  Nemkov, Travis ^a   Hansen, Kirk C ^a   D'Alessandro, Angelo ^a  

^a UNIVERSITY OF COLORADO SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIOMOLECULES; BODY FLUIDS; CARBON; CHROMATOGRAPHIC ANALYSIS; CLINICAL RESEARCH; COPYRIGHTS; METABOLISM; METABOLITES; NITROGEN; PHYSIOLOGY;

BIOMEDICAL RESEARCH; CARBON AND NITROGEN; CENTRAL CARBON METABOLISMS; CHROMATOGRAPHIC METHODS; HIGH-THROUGHPUT; LARGE-SCALES; MASS ANALYSIS; METABOLOMIC STUDY; METABOLOMICS; NITROGEN METABOLISM;

MASS SPECTROMETRY;

BIOLOGICAL MARKER; CARBON; NITROGEN;

ANIMAL; BODY FLUID; BRONCHOALVEOLAR LAVAGE FLUID; CHEMISTRY; HIGH PERFORMANCE LIQUID CHROMATOGRAPHY; HIGH THROUGHPUT SCREENING; HUMAN; LIMIT OF DETECTION; MASS SPECTROMETRY; METABOLISM; METABOLOMICS; PROCEDURES; RAT; REPRODUCIBILITY; SPRAGUE DAWLEY RAT; STATISTICAL MODEL;

ANIMALS; BIOMARKERS; BODY FLUIDS; BRONCHOALVEOLAR LAVAGE FLUID; CARBON; CHROMATOGRAPHY, HIGH PRESSURE LIQUID; HIGH-THROUGHPUT SCREENING ASSAYS; HUMANS; LIMIT OF DETECTION; LINEAR MODELS; MASS SPECTROMETRY; METABOLOMICS; NITROGEN; RATS; RATS, SPRAGUE-DAWLEY; REPRODUCIBILITY OF RESULTS;

EID: 85015699219     PISSN: 09514198     EISSN: 10970231     Source Type: Journal    
DOI: 10.1002/rcm.7834     Document Type: Article

References (32)

1. D. S. Wishart. Emerging applications of metabolomics in drug discovery and precision medicine. Nat. Rev. Drug Discov. 2016, DOI: 10.1038/nrd.2016.32.
2. O. Beckonert, H. C. Keun, T. M. D. Ebbels, J. Bundy, E. Holmes, J. C. Lindon, J. K. Nicholson. Metabolic profiling, metabolomic and metabonomic procedures for NMR spectroscopy of urine, plasma, serum and tissue extracts. Nat. Protocols 2007, 2, 2692.
3. T. Fuhrer, N. Zamboni. High-throughput discovery metabolomics. Curr. Opin. Biotechnol. 2015, 31, 73.
4. A. D'Alessandro, B. Giardina, F. Gevi, A. M. Timperio, L. Zolla. Clinical metabolomics: the next stage of clinical biochemistry. Blood Transfus. 2012, DOI: 10.2450/2012.005S.
5. N. Gasilova, Q. Yu, L. Qiao, H. H. Girault. On-chip spyhole mass spectrometry for droplet-based microfluidics. Angew. Chem. Int. Ed. 2014, 53, 4408.
6. A. Zhang, H. Sun, Y. Han, G. Yan, Y. Yuan, G. Song, X. Yuan, N. Xie, X. Wang. Ultraperformance liquid chromatography-mass spectrometry based comprehensive metabolomics combined with pattern recognition and network analysis methods for characterization of metabolites and metabolic pathways from biological data sets. Anal. Chem. 2013, 85, 7606.
7. J. Draper, A. J. Lloyd, R. Goodacre, M. Beckmann. Flow infusion electrospray ionisation mass spectrometry for high throughput, non-targeted metabolite fingerprinting: a review. Metabolomics 2013, 9, 4.
8. T. Fuhrer, D. Heer, B. Begemann, N. Zamboni. High-throughput, accurate mass metabolome profiling of cellular extracts by flow injection-time-of-flight mass spectrometry. Anal. Chem. 2011, 83, 7074.
9. H. Link, T. Fuhrer, L. Gerosa, N. Zamboni, U. Sauer. Real-time metabolome profiling of the metabolic switch between starvation and growth. Nat. Methods 2015, 12, 1091.
10. T. Nemkov, A. D'Alessandro, K. C. Hansen. Three-minute method for amino acid analysis by UHPLC and high-resolution quadrupole orbitrap mass spectrometry. Amino Acids 2015, DOI: 10.1007/s00726-015-2019-9.
11. J. Zhang, E. Nuebel, D. R. R. Wisidagama, K. Setoguchi, J. S. Hong, C. M. Van Horn, S. S. Imam, L. Vergnes, C. S. Malone, C. M. Koehler, M. A. Teitell. Measuring energy metabolism in cultured cells, including human pluripotent stem cells and differentiated cells. Nat. Protocols 2012, 7, 1068.
12. 13C metabolite labeling patterns from cells. Curr. Opin. Biotechnol. 2015, 34, 189.
13. 13C-based metabolic flux analysis. Nat. Protocols 2009, 4, 878.
14. N. Zamboni, A. Saghatelian, G. J. Patti. Defining the metabolome: Size, flux, and regulation. Mol. Cell 2015, 58, 699.
15. A. D'Alessandro, I. Amelio, C. R. Berkers, A. Antonov, K. H. Vousden, G. Melino, L. Zolla. Metabolic effect of TAp63α: enhanced glycolysis and pentose phosphate pathway, resulting in increased antioxidant defense. Oncotarget 2014, 5, 7722.
16. E. Melamud, L. Vastag, J. D. Rabinowitz. Metabolomic analysis and visualization engine for LC–MS data. Anal. Chem. 2010, 82, 9818.
17. A. D'Alessandro, H. B. Moore, E. E. Moore, M. Wither, T. Nemkov, E. Gonzalez, A. Slaughter, M. Fragoso, K. C. Hansen, C. C. Silliman, A. Banerjee. Early hemorrhage triggers metabolic responses that build up during prolonged shock. Am. J. Physiol. Regul. Integr. Comp. Physiol. 2015, 308, R1034.
18. A. D'Alessandro, T. Nemkov, M. Kelher, F. B. West, R. K. Schwindt, A. Banerjee, E. E. Moore, C. C. Silliman, K. C. Hansen. Routine storage of red blood cell (RBC) units in additive solution-3: a comprehensive investigation of the RBC metabolome: Metabolomics of AS-3 RBCs. Transfusion 2015, 55, 1155.
19. M. Yuan, S. B. Breitkopf, X. Yang, J. M. Asara. A positive/negative ion-switching, targeted mass spectrometry-based metabolomics platform for bodily fluids, cells, and fresh and fixed tissue. Nat. Protocols 2012, 7, 872.
20. K. Contrepois, L. Jiang, M. Snyder. Optimized analytical procedures for the untargeted metabolomic profiling of human urine and plasma by combining hydrophilic interaction and reverse-phase liquid chromatography–mass spectrometry. Mol. Cell. Proteomics 2015, mcp.M114.046508.
21. G. Paglia, A. D'Alessandro, Ó. Rolfsson, Ó.E. Sigurjónsson, A. Bordbar, S. Palsson, T. Nemkov, K.C. Hansen, S. Gudmundsson, B.O. Palsson. Biomarkers defining the metabolic age of red blood cells during cold storage. Blood 2016 128, e43.
22. T. Nemkov, K. C. Hansen, L. J. Dumont, A. D'Alessandro. Metabolomics in transfusion medicine. Transfusion 2015, DOI: 10.1111/trf.13442.
23. A. D'Alessandro, K. C. Hansen, C. C. Silliman, E. E. Moore, M. Kelher, A. Banerjee. Metabolomics of AS-5 RBC supernatants following routine storage. Vox Sang. 2015, 108, 131.
24. A. D'Alessandro, T. Nemkov, T. Yoshida, A. Bordbar, B.O. Palsson, K.C. Hansen. Citrate metabolism in red blood cells stored in additive solution-3. Transfusion 2016, DOI: 10.1111/trf.13892.
25. A. D'Alessandro, A. G. Kriebardis, S. Rinalducci, M. H. Antonelou, K. C. Hansen, I. S. Papassideri, L. Zolla. An update on red blood cell storage lesions, as gleaned through biochemistry and omics technologies: An omics update on RBC storage. Transfusion 2015, 55, 205.
26. A. Bordbar, P. I. Johansson, G. Paglia, S. J. Harrison, K. Wichuk, M. Magnusdottir, S. Valgeirsdottir, M. Gybel-Brask, S. R. Ostrowski, S. Palsson, O. Rolfsson, O. E. Sigurjónsson, M. B. Hansen, S. Gudmundsson, B. O. Palsson. Identified metabolic signature for assessing red blood cell unit quality is associated with endothelial damage markers and clinical outcomes. Transfusion 2016, 56, 852.
27. 1H nuclear magnetic resonance spectroscopy. Identification of a biomarker of their level of protection against oxidative stress. Blood Transfus. Trasfus. Sangue 2014, 12, 548.
28. P. Rhee, B. Joseph, V. Pandit, H. Aziz, G. Vercruysse, N. Kulvatunyou, R. S. Friese. Increasing trauma deaths in the United States. Ann. Surg. 2014, 260, 13.
29. J. M. Caruso, E. Feketeova, S. D. Dayal, D. Z. Xu, Q. Lu, E. A. Deitch. Mesenteric lymph duct diversion reduces cd11b/cd18 expression and abrogates lung injury after trauma hemorrhagic shock.: 5. Shock 2001, 15, 2.
30. R. J. Gonzalez, E. E. Moore, D. J. Ciesla, W. L. Biffl, J. L. Johnson, C. C. Silliman. Mesenteric lymph is responsible for post-hemorrhagic shock systemic neutrophil priming. J. Trauma 2001, 51, 1069.
31. G. M. Tannahill, A. M. Curtis, J. Adamik, E. M. Palsson-McDermott, A. F. McGettrick, G. Goel, C. Frezza, N. J. Bernard, B. Kelly, N. H. Foley, L. Zheng, A. Gardet, Z. Tong, S. S. Jany, S. C. Corr, M. Haneklaus, B. E. Caffrey, K. Pierce, S. Walmsley, F. C. Beasley, E. Cummins, V. Nizet, M. Whyte, C. T. Taylor, H. Lin, S. L. Masters, E. Gottlieb, V. P. Kelly, C. Clish, P. E. Auron, R. J. Xavier, L. A. J. O'Neill. Succinate is an inflammatory signal that induces IL-1β through HIF-1α. Nature 2013, 496, 238.
32. 13C-glucose labeling metabolomics. J. Transl. Med. 2015, 13, 253.