Jamey D. Young, Ph.D.

Associate Professor

j.d.young@vanderbilt.edu

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Faculty Appointments
Associate Professor of Chemical and Biomolecular Engineering Assistant Professor of Molecular Physiology & Biophysics
Education
Ph.D., Chemical Engineering, Purdue University, West Lafayette, IndianaB.S., Chemical Engineering, University of Kentucky, Lexington, Kentucky
Office Address
VU Station B #351604
2400 Highland Ave; 107 Olin Hall
2301 Vanderbilt Place
Nashville, TN 37235-1304
Research Description
The central theme of our research is the application of engineering, biochemistry, and molecular biology to quantitatively analyze and redirect cellular metabolism. In particular, we use an approach called metabolic flux analysis (MFA) to quantify the rates, or "fluxes", of intracellular metabolic pathways in a variety of cell models of relevance to medicine and biotechnology. In addition to tool-oriented research aimed at Enhancing MFA Methodologies, we are actively pursuing research in four specific application areas: Diabetes & Obesity, Cancer Metabolism, Cell Culture Engineering, and Photosynthesis Research. Although diverse in their biological scope, all projects rely on our lab's core expertise to integrate numerous metabolic measurements into a quantitative map of cell metabolism using rigorous mathematical models, with the ultimate goal of deciphering how metabolic networks are natively regulated and how they can be further engineered to achieve a desired outcome.
Research Keywords
Metabolic engineering and systems biology
Publications
Adebiyi AO, Jazmin LJ, Young JD. 13 C flux analysis of cyanobacterial metabolism. Photosyn. Res [print-electronic]. 2015 Oct; 126(1): 19-32. PMID: 25280933, PII: 10.1007/s11120-014-0045-1, DOI: 10.1007/s11120-014-0045-1, ISSN: 1573-5079.

Buescher JM, Antoniewicz MR, Boros LG, Burgess SC, Brunengraber H, Clish CB, DeBerardinis RJ, Feron O, Frezza C, Ghesquiere B, Gottlieb E, Hiller K, Jones RG, Kamphorst JJ, Kibbey RG, Kimmelman AC, Locasale JW, Lunt SY, Maddocks OD, Malloy C, Metallo CM, Meuillet EJ, Munger J, Nöh K, Rabinowitz JD, Ralser M, Sauer U, Stephanopoulos G, St-Pierre J, Tennant DA, Wittmann C, Vander Heiden MG, Vazquez A, Vousden K, Young JD, Zamboni N, Fendt SM. A roadmap for interpreting (13)C metabolite labeling patterns from cells. Curr. Opin. Biotechnol [print-electronic]. 2015 Aug; 34: 189-201. PMID: 25731751, PMCID: PMC4552607, PII: S0958-1669(15)00022-1, DOI: 10.1016/j.copbio.2015.02.003, ISSN: 1879-0429.

Wall ML, Pound LD, Trenary I, O'Brien RM, Young JD. Novel stable isotope analyses demonstrate significant rates of glucose cycling in mouse pancreatic islets. Diabetes [print-electronic]. 2015 Jun; 64(6): 2129-37. PMID: 25552595, PMCID: PMC4439557, PII: db14-0745, DOI: 10.2337/db14-0745, ISSN: 1939-327X.

Young JD. (13)C metabolic flux analysis of recombinant expression hosts. Curr. Opin. Biotechnol [print-electronic]. 2014 Dec; 30: 238-45. PMID: 25456032, PII: S0958-1669(14)00172-4, DOI: 10.1016/j.copbio.2014.10.004, ISSN: 1879-0429.

Ma F, Jazmin LJ, Young JD, Allen DK. Isotopically nonstationary 13C flux analysis of changes in Arabidopsis thaliana leaf metabolism due to high light acclimation. Proc. Natl. Acad. Sci. U.S.A [print-electronic]. 2014 Nov 11/25/2014; 111(47): 16967-72. PMID: 25368168, PMCID: PMC4250135, PII: 1319485111, DOI: 10.1073/pnas.1319485111, ISSN: 1091-6490.

Templeton N, Lewis A, Dorai H, Qian EA, Campbell MP, Smith KD, Lang SE, Betenbaugh MJ, Young JD. The impact of anti-apoptotic gene Bcl-2¿ expression on CHO central metabolism. Metab. Eng [print-electronic]. 2014 Sep; 25: 92-102. PMID: 25014175, PII: S1096-7176(14)00091-3, DOI: 10.1016/j.ymben.2014.06.010, ISSN: 1096-7184.

Egnatchik RA, Leamy AK, Jacobson DA, Shiota M, Young JD. ER calcium release promotes mitochondrial dysfunction and hepatic cell lipotoxicity in response to palmitate overload. Mol Metab. 2014 Aug; 3(5): 544-53. PMID: 25061559, PMCID: PMC4099508, PII: S2212-8778(14)00092-1, DOI: 10.1016/j.molmet.2014.05.004, ISSN: 2212-8778.

Leamy AK, Egnatchik RA, Shiota M, Ivanova PT, Myers DS, Brown HA, Young JD. Enhanced synthesis of saturated phospholipids is associated with ER stress and lipotoxicity in palmitate treated hepatic cells. J. Lipid Res [print-electronic]. 2014 May 5/23/2014; 55(7): 1478-88. PMID: 24859739, PMCID: PMC4076085, PII: jlr.M050237, DOI: 10.1194/jlr.M050237, ISSN: 0022-2275.

Young JD. INCA: a computational platform for isotopically non-stationary metabolic flux analysis. Bioinformatics [print-electronic]. 2014 May 5/1/2014; 30(9): 1333-5. PMID: 24413674, PMCID: PMC3998137, PII: btu015, DOI: 10.1093/bioinformatics/btu015, ISSN: 1367-4811.

Egnatchik RA, Leamy AK, Noguchi Y, Shiota M, Young JD. Palmitate-induced activation of mitochondrial metabolism promotes oxidative stress and apoptosis in H4IIEC3 rat hepatocytes. Metab. Clin. Exp [print-electronic]. 2014 Feb; 63(2): 283-95. PMID: 24286856, PMCID: PMC3946971, PII: S0026-0495(13)00341-7, DOI: 10.1016/j.metabol.2013.10.009, ISSN: 1532-8600.

Jazmin LJ, O'Grady JP, Ma F, Allen DK, Morgan JA, Young JD. Isotopically nonstationary MFA (INST-MFA) of autotrophic metabolism. Methods Mol. Biol. 2014; 1090: 181-210. PMID: 24222417, DOI: 10.1007/978-1-62703-688-7_12, ISSN: 1940-6029.

Young JD, Allen DK, Morgan JA. Isotopomer measurement techniques in metabolic flux analysis II: mass spectrometry. Methods Mol. Biol. 2014; 1083: 85-108. PMID: 24218212, DOI: 10.1007/978-1-62703-661-0_7, ISSN: 1940-6029.

Young JD. Metabolic flux rewiring in mammalian cell cultures. Curr. Opin. Biotechnol [print-electronic]. 2013 Dec; 24(6): 1108-15. PMID: 23726154, PMCID: PMC3775942, PII: S0958-1669(13)00114-6, DOI: 10.1016/j.copbio.2013.04.016, ISSN: 1879-0429.

Templeton N, Dean J, Reddy P, Young JD. Peak antibody production is associated with increased oxidative metabolism in an industrially relevant fed-batch CHO cell culture. Biotechnol. Bioeng [print-electronic]. 2013 Jul; 110(7): 2013-24. PMID: 23381838, DOI: 10.1002/bit.24858, ISSN: 1097-0290.

Murphy TA, Young JD. ETA: robust software for determination of cell specific rates from extracellular time courses. Biotechnol. Bioeng [print-electronic]. 2013 Jun; 110(6): 1748-58. PMID: 23296385, PMCID: PMC3863648, DOI: 10.1002/bit.24836, ISSN: 1097-0290.

Murphy TA, Dang CV, Young JD. Isotopically nonstationary 13C flux analysis of Myc-induced metabolic reprogramming in B-cells. Metab. Eng [print-electronic]. 2013 Jan; 15: 206-17. PMID: 22898717, PMCID: PMC3535509, PII: S1096-7176(12)00078-X, DOI: 10.1016/j.ymben.2012.07.008, ISSN: 1096-7184.

Duckwall CS, Murphy TA, Young JD. Mapping cancer cell metabolism with(13)C flux analysis: Recent progress and future challenges. J Carcinog. 2013; 12: 13. PMID: 23961260, PMCID: PMC3746411, PII: JC-12-13, DOI: 10.4103/1477-3163.115422, ISSN: 1477-3163.

Jazmin LJ, Young JD. Isotopically nonstationary 13C metabolic flux analysis. Methods Mol. Biol. 2013; 985: 367-90. PMID: 23417813, DOI: 10.1007/978-1-62703-299-5_18, ISSN: 1940-6029.

Leamy AK, Egnatchik RA, Young JD. Molecular mechanisms and the role of saturated fatty acids in the progression of non-alcoholic fatty liver disease. Prog. Lipid Res [print-electronic]. 2013 Jan; 52(1): 165-74. PMID: 23178552, PMCID: PMC3868987, PII: S0163-7827(12)00058-6, DOI: 10.1016/j.plipres.2012.10.004, ISSN: 1873-2194.

Strand DW, Jiang M, Murphy TA, Yi Y, Konvinse KC, Franco OE, Wang Y, Young JD, Hayward SW. PPAR-gamma isoforms differentially regulate metabolic networks to mediate mouse prostatic epithelial differentiation. Cell Death Dis. 2012; 3: e361. PMID: 22874998, PMCID: PMC3434663, PII: cddis201299, DOI: 10.1038/cddis.2012.99, ISSN: 2041-4889.

Young JD, Shastri AA, Stephanopoulos G, Morgan JA. Mapping photoautotrophic metabolism with isotopically nonstationary (13)C flux analysis. Metab. Eng [print-electronic]. 2011 Nov; 13(6): 656-65. PMID: 21907300, PMCID: PMC3210925, PII: S1096-7176(11)00088-7, DOI: 10.1016/j.ymben.2011.08.002, ISSN: 1096-7184.

Noguchi Y, Young JD, Aleman JO, Hansen ME, Kelleher JK, Stephanopoulos G. Tracking cellular metabolomics in lipoapoptosis- and steatosis-developing liver cells. Mol Biosyst [print-electronic]. 2011 May; 7(5): 1409-19. PMID: 21327189, DOI: 10.1039/c0mb00309c, ISSN: 1742-2051.

Srour O, Young JD, Eldar YC. Fluxomers: a new approach for 13C metabolic flux analysis. BMC Syst Biol. 2011; 5: 129. PMID: 21846358, PMCID: PMC3750106, PII: 1752-0509-5-129, DOI: 10.1186/1752-0509-5-129, ISSN: 1752-0509.

Noguchi Y, Nishikata N, Shikata N, Kimura Y, Aleman JO, Young JD, Koyama N, Kelleher JK, Takahashi M, Stephanopoulos G. Ketogenic essential amino acids modulate lipid synthetic pathways and prevent hepatic steatosis in mice. PLoS ONE. 2010; 5(8): e12057. PMID: 20706589, PMCID: PMC2919399, DOI: 10.1371/journal.pone.0012057, ISSN: 1932-6203.

Reed JL, Senger RS, Antoniewicz MR, Young JD. Computational approaches in metabolic engineering [editorial]. J. Biomed. Biotechnol [print-electronic]. 2010; 2010: 207414. PMID: 21584279, PMCID: PMC3092504, DOI: 10.1155/2010/207414, ISSN: 1110-7251.

Noguchi Y, Young JD, Aleman JO, Hansen ME, Kelleher JK, Stephanopoulos G. Effect of anaplerotic fluxes and amino acid availability on hepatic lipoapoptosis. J. Biol. Chem [print-electronic]. 2009 Nov 11/27/2009; 284(48): 33425-36. PMID: 19758988, PMCID: PMC2785187, PII: M109.049478, DOI: 10.1074/jbc.M109.049478, ISSN: 1083-351X.

Young JD, Henne KL, Morgan JA, Konopka AE, Ramkrishna D. Integrating cybernetic modeling with pathway analysis provides a dynamic, systems-level description of metabolic control. Biotechnol. Bioeng. 2008 Jun 6/15/2008; 100(3): 542-59. PMID: 18438875, DOI: 10.1002/bit.21780, ISSN: 1097-0290.

Young JD, Walther JL, Antoniewicz MR, Yoo H, Stephanopoulos G. An elementary metabolite unit (EMU) based method of isotopically nonstationary flux analysis. Biotechnol. Bioeng. 2008 Feb 2/15/2008; 99(3): 686-99. PMID: 17787013, DOI: 10.1002/bit.21632, ISSN: 1097-0290.

Young JD, Ramkrishna D. On the matching and proportional laws of cybernetic models. Biotechnol. Prog. 2007 Jan; 23(1): 83-99. PMID: 17269675, DOI: 10.1021/bp060176q, ISSN: 1520-6033.

J. D. Young, K. L. Henne, J. A. Morgan, A. E. Konopka and D. Ramkrishna.. Cybernetic modeling of metabolism: towards a framework for rational design of recombinant organisms. Chemical Engineering Science. 2004; 59: 5041-9.