Dr. Bruce Stanley - Research
Director, Scientific Programs
Graduate Program Affiliations: Cell and Molecular Biology
- Ph.D. Degree, Cornell University, 1987;
- Postdoctoral Training, The Pennsylvania State University College of Medicine, 1987-1989;
- Visiting Scientist, Strasbourg, France, 1984-1985
Click to go to Dr. Stanley's Profiles Page
Stanley Lab Research:
Mass Spectrometric Methods for Proteomic Analysis; Structure-Function Determinants of Rapid Protein Degradation; Arginine/Nitric Oxide/Ornithine Metabolism and Growth Control
The primary current lab focus is development of Mass Spectrometric and Bioinformatic methods for quantitative proteomic analysis and biomarker discovery. These methods include 1D and 2D liquid chromatographic separations of both whole proteins and proteolytically digested peptide fragments; the use of iTRAQ isotope-coded affinity tags; the development of improved mass spec analysis software (with commercial and other academic centers); the development of improved MALDI plate surfaces and MALDI matrix deposition methods (in conjunction with the Penn State Nanofabrications Facility), and improved bioinformatic and biostatistical methods, e.g., for calculating the False Discovery Rates required in large scale proteomic studies.
Past goals of the lab research program have been to understand the mechanisms of control of intracellular levels of rapidly degraded proteins and how this subclass of proteins is involved in control of cell growth and differentiation, particularly how enzyme half-life changes contribute to rapid cell proliferation. The enzymes of the polyamine biosynthetic pathway, particularly S-adenosylmethionine decarboxylase, have been studied both as general model proteins to define proteolytic signals which target proteins for rapid proteolysis, and for their specific contributions to control of cell growth. Experimental approaches include cell culture and transfection studies, in vitro expression of wildtype versus mutant proteins, and the development of new in vitro systems to study protein degradation. Structure-function studies are done by specific replacement of amino acid residues in the model proteins, and assessment of the effect of these mutations on either degradative rate or other enzymologic characteristics of the proteins.
Finally, the lab maintains an interest in Arginine/Nitric Oxide/Ornithine Metabolism and Growth Control, particularly how changes in substrate levels may act as control points in metabolic flux independently of changes in enzyme activity.
(for most up-to-date list, see Dr. Stanley's page in profiles.psu.edu)
- Das A, Bortner JD Jr, Aliaga CA, Baker A, Stanley A, Stanley BA, Kaag M, Richie JP Jr, El-Bayoumy K. . (2012) Aug 21. doi: 10.1002/pros.22576. [Epub ahead of print] PMID: 22911278
- Giardina, BJ, Stanley, BA, Chiang, HL. Comparative Proteomic Analysis of Transition of Saccharomyces cervisiae from Glucose-Deficient Medium to Glucose-Rich Medium. Proteome Sci. (2012) 10(1):40 PMID: 22691627
Moon, MS, McDevitt, E., Stanley, B, Krzeminski, J., Amin, S., Aliaga, C., Miller, T., Isom, H. Elevated Hepatic Iron Activates NF-E2-Related Factor 2 (NRF2) Regulated Pathway in a Dietary Iron Overload Mouse Model Toxicol. Sci. (2012) Sep;129(1):74-85. PMID: 22649188
Liu, X, Liu, D, Qian, D, Dai, J, An, Y, Jiang, S, Stanley, BA, Yang, J, Wang, B, Liu, X, Liu, DX. Nucleophosmin (NPM1/B23) Interacts with Activating Transcription Factor 5 (ATF5) Protein and Promotes Proteasome- and Caspase-dependent ATF5 Degradation in Hepatocellular Carcinoma Cells. . (2012) Jun 1;287(23):19599-609. Epub 2012 Apr 23. PMID: 22528486
- Fogle RL, Hollenbeak CS, Stanley BA, Vary TC, Kimball SR, Lynch CJ. Functional proteomic analysis reveals sex-dependent differences in structural and energy-producing myocardial proteins in rat model of alcoholic cardiomyopathy. Physiol Genomics. (2011); 43(7): p. 346-356 PMID: 21245415
- Bortner JD, Richie JP, Das A, Liao J, Umstead TM, Stanley A, Stanley BA, Belani CP, El-Bayoumy K. Proteomic Profiling of Human Plasma by iTRAQ Reveals Down-Regulation of ITI-HC3 and VDBP by Cigarette Smoking. J Proteome Res. (2011); Mar 4;10(3):1151-9. PMID: 21186835
- Zhao Z, Stanley BA, Zhang W, Assmann SM ABA-regulated G protein signaling in Arabidopsis guard cells: a proteomic perspective. J Proteome Res. (2010) 5;9(4):1637-47. PMID: 20166762
- Moura, AA, Souza CE, Stanley BA, Chapman DA, Killian GJ. Proteomics of cauda epididymal fluid from mature Holstein bulls. J Proteomics. (2010) Sep 10;73(10):2006-20 PMID: 20601273
- Fogle RL, Lynch CJ, Palopoli M, Deiter G, Stanley BA, Vary TC. Impact of Chronic Alcohol Ingestion on Cardiac Muscle Protein Expression. Alcohol Clin Exp Res. (2010) Jul;34(7):1226-34 PMID: 20477769
- Hurst WJ, Stanley B, Glinski JA, Davey M, Payne MJ and Stuart DA Characterization of Primary Standards for Use in the HPLC Analysis of the Procyanidin Content of Cocoa and Chocolate Containing Products Molecules (2009) 14(10): 4136-4146. PMID:19924052
- Feng B, Li L, Zhou X, Stanley B, Ma H.Analysis of the Arabidopsis Floral Proteome: Detection of over 2 000 Proteins and Evidence for Posttranslational Modifications. J Integr Plant Biol. (2009) Feb;51(2):207-23. PMID:19200160
- Sundstrom JM, Tash BR, Murakami T, Flanagan JM, Bewley MC, Stanley BA, Gonsar KB, Antonetti DA Identification and Analysis of Occludin Phosphosites: A Combined Mass Spectrometry and Bioinformatics Approach. J Proteome Res. (2009) Jan 6. 8(2):808-817 PMID: 19125584
- Culnan DM, Cooney RN, Stanley B, Lynch CJ. Apolipoprotein A-IV, a Putative Satiety/Antiatherogenic Factor, Rises After Gastric Bypass. Obesity (Silver Spring). (2009) Jan;17(1):46-52. PMID:18948973
- Zhao Z, Zhang W, Stanley BA, Assmann SM. Functional Proteomics of Arabidopsis thaliana Guard Cells Uncovers New Stomatal Signaling Pathways. Plant Cell. (2008) Dec;20(12):3210-26. PMID: 19114538
- Yerlikaya A, Kimball SR, Stanley BA. Phosphorylation of eIF2alpha in response to 26S proteasome inhibition is mediated by the haem-regulated inhibitor (HRI) kinase. Biochem J. (2008) Jun 15;412(3):579-88.
- Chen KM, Spratt TE, Stanley BA, De Cotiis DA, Bewley MC, Flanagan JM, Desai D, Das A, Fiala ES, Amin S, El-Bayoumy K. Inhibition of nuclear factor-kappaB DNA binding by organoselenocyanates through covalent modification of the p50 subunit. Cancer Res. (2007) 67(21):10475-83. PMID:17479991
- Chang SI, El-Bayoumy K, Sinha I, Trushin N, Stanley BA, Pittman B, Prokopczyk B. 4-(Methylnitrosamino)-I-(3-Pyridyl)-1-Butanone Enhances the Expression of Apolipoprotein A-I and Clara Cell 17-kDa Protein in the Lung Proteomes of Rats Fed a Corn Oil Diet but not a Fish Oil Diet. Cancer Epidemiol Biomarkers Prev (2007) 16(2): 228-35. PMID:17301254
- Yerlikaya A, Stanley BA. Structural basis for the inactivation of AdoMetDC K12R mutant. Protein Pept Lett. (2006) 13(3):313-7
- Yerlikaya, A. and Stanley, B.A. S-adenosylmethionine decarboxylase degradation by the 26S proteasome is accelerated by substrate-mediated transamination. J Biol Chem. (2004) 279(13):12469-78
- Coleman C.S., Stanley B.A., Jones A.D., Pegg A.E. Spermidine/spermine N 1-acetyltransferase-2 (SSAT2) acetylates thialysine and is not involved in polyamine metabolism. Biochem J. (2004) Nov 15;384(Pt 1):139-48
- Shah, R., Coleman, C.S., Mir, K., Baldwin, J., Van Etten, J.L., Grishin, N.V., Pegg, A.E., Stanley, B.A., and Phillips, M.A. Paramecium bursaria Chlorella Virus-1 Encodes an Unusual Arginine Decarboxylase That Is a Close Homolog of Eukaryotic Ornithine Decarboxylases. J. Biol. Chem (2004) 279(34): 35760-35767
- Han X, Kazarinoff MN, Seiler N, Stanley BA Rat colon ornithine and arginine metabolism: coordinated effects after proliferative stimuli. Am J Physiol Gastrointest Liver Physiol. (2001) Mar;280(3):G389-99
- Additional publications...
Stanley Lab Fall '99: Bruce Stanley, Kim Stambaugh, Azmi Yerlikaya, & Wil Martin