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Biosciences Department 2013 Publications

  • Andre C., Kim S.-W., Yu X.-H., and Shanklin J.
    Fusing catalase to an alkane-producing enzyme maintains enzymatic activity by converting the inhibitory byproduct H2O2 to the cosubstrate O2.
    Proceedings of the National Academy of Sciences USA, 110(8):3191-3196 (February, 2013). PubMed
  • Babst B., Karve A., and Tatjana J.
    Radio-metabolite analysis of carbon-11 biochemical partitioning to nonstructural carbohydrates for integrated metabolism and transport studies.
    Plant & Cell Physiology, 54(6):1016-1025 (June 2013). PubMed
  • Baniecki M.L., McGrath W.J., and Mangel W.F.
    Regulation of a viral proteinase by a peptide and DNA in one-dimensional space. III. Atomic resolution structure of a nascent form of the adenovirus proteinase.
    Journal of Biological Chemistry, 288(3):2081-2091 (January, 2013). PubMed
  • Beebe-Wang J., Vaska P., Dilmanian F.A., Peggs S.G., and Schlyer D.J.
    Verifying radiation treatment in proton therapy via PET imaging of the induced positron-emitters.
    Theory of Heavy Ion Collision Physics in Hadron Therapy: Advances in Quantum Chemistry, D. Belkic Editor, Vol. 65, Chapter 5, pp. 111-127, Elsevier Academic Press, Inc., San Diego, CA (2013).
  • Blainey P.C., Graziano V., Perez-Berna A.J., McGrath W.J., Flint S.J., San Martin C., Xie X.S., and Mangel W.F.
    Regulation of a viral proteinase by a peptide and DNA in one-dimensional space. IV. Viral proteinase slides along DNA to locate and process its substrates.
    Journal of Biological Chemistry, 288(3):2092-2102 (January, 2013). PubMed
  • Borisjuk L., Neuberger T., Schwender J., Heinzel N., Sunderhaus S., Fuchs J., Hay, J.O., Tschiersch H., Braun H. P., Denolf P., Lambert B., Jakob P. M., and Rolletschek H.
    Seed architecture shapes embryo metabolism in oilseed rape.
    Plant Cell (Epub May 24, 2013, in press). PubMed
  • Cheng A.-X., Gou J.-Y., Yu X.-H., Yang H., Fang X., Chen X.-Y., and Liu C.-J.
    Characterization and ectopic expression of a Populus hydroxyacid hydroxycinnamoyltransferase.
    Molecular Plant (Epub May 24, 2013, in press). PubMed
  • Delis F., Thanos P.K., Rombola C., Rosko L., Grandy, D., Wang G.-J., and Volkow N.D.
    Chronic mild stress increases alcohol intake in mice with low dopamine D2 receptor levels.
    Behavioral Neuroscience 127(1): 95-105 (February, 2013). PubMed
  • Dilmanian F.A., Jenkins III A. L., Olschowka J.A., Zhong Z., Park J. Y., Desnoyers N.R., Sobotka S., Fois G.R., Messina C.R., Morales M., Hurley, S.D., Trojanczyk L., Ahmad S., Shahrabi N., Coyle P.K., Meek A.G., and O’Banion M.K.
    X-ray microbeam irradiation of the contusion-injured rat spinal cord temporarily improves hind-limb function.
    Radiation Research, 179(1):76-88 (January, 2013). PubMed
  • Dixit P.D.
    A maximum entropy thermodynamics of small systems.
    Journal of Chemical Physics, 138(18):184111 (May, 2013). PubMed
  • Dixit P.D.
    Quantifying extrinsic noise in gene expression using the maximum entropy framework.
    Biophysical Journal, 104:1-8 (June, 2013).
  • Dixit P.D. and Maslov S.
    Evolutionary capacitance and control of protein stability in protein-protein interaction networks.
    PLoS Computational Biology 9(4): e1003023 (April, 2013). PubMed
  • Feng H., Qian Y., Gallagher F.J., Wu M., Zhang W., Yu L., Zhu Q., Zhang K., Liu C.-J., and Tappero R.
    Lead accumulation and association with Fe on Typha latifolia root from an urban brownfield site.
    Environmental Science and Pollution Research International 20(6): 3743-3750 (June, 2013). PubMed
  • Ferrieri A.P., Agtuca B., Appel H.M., Ferrieri R.A., and Schultz J.C.
    Temporal changes in allocation and partitioning of new carbon as 11C elicited by simulated herbivory suggest that roots shape aboveground responses in Arabidopsis.
    Plant Physiology, 161(2):692-704 (February, 2013). PubMed
  • Grady D., Thanos P.K., Corrada M.M., Barnett Jr. J.C., Ciobanu V., Shustarovich D., Napoli A., Moyzis A.G., Grandy, D., Rubinstein M., Wang G.-J., Kawas C.H., Chen C., Dong Q., Wang E., Volkow N.D., and Moyzis R.K.
    DRD4 genotype predicts longevity in mouse and human.
    Journal of Neuroscience, 33(1):286-291 (January, 2013). PubMed
  • Graziano V., Luo G., Blainey, P.C., Perez-Berna A.J., McGrath W.J., Flint S.J., San Martin C., Xie X.S., and Mangel W.F.
    Regulation of a viral proteinase by a peptide and DNA in one-dimensional space. II. Adenovirus proteinase is activated in an unusual one-dimensional biochemical reaction.
    Journal of Biological Chemistry, 288(3):2068-2080 (January, 2013). PubMed
  • Graziano V., McGrath W.J., Suomalainen M., Greber U.F., Freimuth P., Blainey, P.C., Luo G., Xie X.S., and Mangel W.F.
    Regulation of a viral proteinase by a peptide and DNA in one-dimensional space. I. Binding to DNA and to hexon of the precursor to protein VI, pVI, of human adenovirus.
    Journal of Biological Chemistry, 288(3):2059-2067 (January, 2013). PubMed
  • Hainfeld J.F., Smilowitz H.M., O’Connor M.J., Dilmanian F.A., and Slatkin D.N.
    Gold nanoparticle imaging and radiotherapy of brain tumors in mice.
    Nanomedicine (London, England) (Epub December 24, 2012, in press). PubMed
  • Hajnal A., Thanos P.K., and Volkow N.D.
    Notes on “Roux en Y Gastric Bypass Increases Ethanol Intake in the Rat” by Davis et al.
    Obesity Surgery (Epub May 7, 2013). PubMed
  • Iliff J.J., Lee H., Yu M., Feng T., Logan J., Nedergaard M., and Benveniste H.
    Brain-wide pathway for waste clearance captured by contrast-enhanced MRI.
    Journal of Clinical Investigation, 123(3):1299-1309 (March, 2013). PubMed
  • Kaufmann W.K. and Anderson C.W.
    Compensation, crosstalk and sequestering: The currency of checkpoints in cancer.
    Comment on Palii S. S. et al., Cell Cycle 2013: 12(7), 1105-1118. Cell Cycle (News and Views) 12(8): 1163-1164 (April, 2013). PubMed
  • Kendall A., Bian W., Maris A., Azzo C., Groom J., Williams D., Shi J., Stewart P.L., Wall J.S., and Stubbs G.
    A common structure for the potexviruses.
    Virology, 436(1):173-178 (February, 2013). PubMed
  • Laissue J.A., Bartzsch S., Blattmann H., Brauer-Krisch E., Bravin A., Dallery, D., Djonov V., Hanson A.L., Hopewell J. W., Kaser-Hotz B., Keyrilainen J., Laissue P.P., Miura M., Serduc R., Siegbahn A.E., and Slatkin D.N.
    Response of the rat spinal cord to X ray microbeams.
    Radiotherapy and Oncology, 106(1):106-111 (January, 2013). PubMed
  • Li-Beisson Y., Shorrosh B., Beisson F., Andersson M.X., Arondel V., Bates P.D., Baud S., Bird D., DeBono A., Durrett T.P., Franke R.B., Graham I. A., Katayama K., Kelly, A.A., Larson T., Markham J.E., Miquel M., Molina I., Nishida I., Rowland O., Samuels L., Schmid K.M., Wada H., Welti R., Xu C., Zallot R., and Ohlrogge J.
    Acyl-lipid metabolism.
    The Arabidopsis Book, Vol. 11: e0161, The American Society of Plant Biologists, Rockville MD (January, 2013). PubMed
  • McGrath W.J., Graziano V., Zabrocka K., and Mangel W.F.
    First generation inhibitors of the adenovirus proteinase.
    FEBS Letters (Epub May 24, 2013). PubMed
  • Menendez D., Nguyen T.-A., Freudenberg J.M., Matthew V. J., Anderson C.W., Jothi R., and Resnick M.A.
    Diverse stresses dramatically alter genome-wide p53 binding and transactivation landscape in human cancer cells.
    Nucleic Acids Research (accepted).
  • Michaelides M., Miller M.L., Subrize M., Kim R., Robison L., Hurd Y. L., Wang G.-J., Volkow N.D., and Thanos P.K.
    Limbic activation to novel versus familiar food cues predicts food preference and alcohol intake.
    Brain Research, 1512:37-44 (May, 2013). PubMed
  • Moeller S.J., Beebe-Wang N., Woicik P.A., Konova A.B., Maloney, T. and Goldstein R.Z.
    Choice to view cocaine images predicts concurrent and prospective drug use in cocaine addiction.
    Drug and Alcohol Dependence, 130(1-3):178-185 (June, 2013). PubMed
  • Moeller S.J., Honorio J., Tomasi D., Parvaz M.A., Woicik P.A., Volkow N.D., and Goldstein R.Z.
    Methylphenidate enhances executive function and optimizes prefrontal function in both health and cocaine addiction.
    Cerebral Cortex, (Epub November 16, 2012, in press). PubMed
  • Ornelas A., Korczynska M., Ragumani S., Kumaran D., Narindoshvili T., Shoichet B.K., Swaminathan S., and Raushel F.M.
    Functional annotation and three-dimensional structure of an incorrectly annotated dihydroorotase from cog3964 in the amidohydrolase superfamily.
    Biochemistry 52(1): 228-238 (January, 2013). PubMed
  • Palani K., Burley, S.K., and Swaminathan S.
    Structure of alanine racemase from Oenococcus oeni with bound pyridoxal 5’-phosphate.
    Acta Crystallographica Section F: Structural Biology and Crystallization Communications, 69(Pt1):15-19 (January, 2013). PubMed
  • Pang T.Y. and Maslov S.
    Universal distribution of component frequencies in biological and technological systems.
    Proceedings of the National Academy of Sciences USA, 110(15):6235-6239 (April, 2013). PubMed
  • Saint-Preux F., Rodriguez Bores L., Tulloch I., Ladenheim B., Kim R., Thanos P.K., Volkow N.D., and Lud Cadet J.
    Chronic co-administration of nicotine and methamphetamine causes differential expression of immediate early genes in the dorsal striatum and nucleus accumbens.
    Neuroscience, 243:89-96 (July, 2013). PubMed
  • Samanovic M.I., Li H., and Darwin K.H.
    The Pub-proteasome system of Mycobacterium tuberculosis.
    Regulated Proteolysis in Microorganisms, Part IV: Subcellular Biochemistry, D. A. Dougan, Editor, Chapter 10, Vol. 66, pp. 267-295, Springer Science + Business Media Dordrecht, The Netherlands (March, 2013).
  • Sampath V., Liu B., Tafrov S., Srinivasan M., Rieger R., Chen E.I., and Sternglanz R.
    Biochemical characterization of Hpa2 and Hpa3-two small closely related acetyltransferases from S. cerevisiae.
    J. Biol. Chem., [Epub ahead of print] (2013 Jun 17). PubMed
  • Smilowitz H.M., Slatkin D.N., Micca P.L., and Miura M.
    Microlocalization of lipophilic porphyrins: Nontoxic enhancers of boron neutron-capture therapy.
    International Journal of Radiation Biology (Epub April 25, 2013). PubMed
  • Studier F.W.
    Stable expression clones and auto-induction for protein production in E. coli.
    Structural Genomics: Methods and Protocols, Series: Methods in Molecular Biology, Y. W. Chen, Editor, Springer Science + Business Media LLc New York, NY (accepted).
  • Swaminathan S.
    Structure-based drug discovery for botulinum neurotoxins.
    Current Topics in Microbiology and Immunology: Botulinum Neurotoxins, A. Rummel and Th. Binz, Editors, Vol. 364, pp. 197-218, Springer Life Science/Biomedicine Europe, Heidelberg, Germany (January, 2013). PubMed
  • Thanos P.K., Robison L. S., Robinson J. K., Michaelides M., Wang G.-J., and Volkow N.D.
    Obese rats with deficient leptin signaling exhibit heightened sensitivity to olfactory food cues.
    Synapse, 67(4):171-178 (April, 2013). PubMed
  • Thanos P.K., Robison L., Nestler E.J., Kim R., Michaelides M., Lobo M.-K., and Volkow N.D.
    Mapping brain metabolic connectivity in awake rats with μPET and optogenetic stimulation.
    Journal of Neuroscience, 33(15):6343-6349 (April, 2013). PubMed
  • Thanos P.K., Stamos J., Robison L.S., Heyman G., Tucci A., Wang G.-J., Robinson J.K., Anderson B.J., and Volkow N.D.
    Daily treadmill exercise attenuates cocaine cue-induced reinstatement and cocaine induced locomotor response but increases cocaine-primed reinstatement.
    Behavioural Brain Research, 239:8-14 (February, 2013). PubMed
  • Tomasi D. and Volkow N.D.
    Striatocortical pathway dysfunction in addiction and obesity: Differences and similarities.
    Critical Reviews in Biochemistry and Molecular Biology, 48(1):1 19 (January-February, 2013). PubMed
  • Tomasi D. and Volkow N.D.
    Functional connectivity of substantia nigra and ventral tegmental area: Maturation during adolescence and effects of ADHD.
    Cerebral Cortex (Epub December 12, 2012, in press). PubMed
  • Tomasi D., Wang R., Wang G.-J., and Volkow N.D.
    Functional connectivity and brain activation: A synergistic approach.
    Cerebral Cortex (Epub May 3, 2013, in press). PubMed
  • Vaska P. and Cao T.
    The state of instrumentation of combined positron emission tomography and magnetic resonance imaging.
    Seminars in Nuclear Medicine, 43(1):11-18 (January, 2013). PubMed
  • Volkow N.D., Kim S., Wang G.-J., Alexoff D., Logan J., Muench L., Shea C., Telang F., Fowler J.S., Wong C., Benveniste H., and Tomasi D.
    Acute alcohol intoxication decreases glucose metabolism but increases acetate uptake in the human brain.
    NeuroImage, 64:277-283 (January, 2013). PubMed
  • Volkow N.D., Tomasi D., Wang G.-J., Telang F., Fowler J.S., Goldstein R.Z., Klein N., Wong C., Swanson J.M., and Shumay E.
    Association between dopamine D4 receptor polymorphism and age related changes in brain glucose metabolism.
    PLoS ONE, 8(5):e63492 (May, 2013). PubMed
  • Volkow N.D., Tomasi D., Wang G.-J., Telang F., Fowler J.S., Logan J., Maynard L.J., and Wong C.T.
    Predominance of D2 receptors in mediating dopamine’s effects in brain metabolism: Effects of alcoholism.
    Journal of Neuroscience, 33(10):4527-4535 (March, 2013). PubMed
  • Volkow N.D., Wang G.-J., Tomasi D., and Baler R.D.
    Obesity and addiction: Neurobiological overlaps.
    Obesity Reviews, 14(1):2-18 (January, 2013). PubMed
  • Volkow N.D., Wang G.-J., Tomasi D., and Baler R.D.
    The addictive dimensionality of obesity.
    Biological Psychiatry, 73(9):811-818 (May, 2013). PubMed
  • Volkow N.D., Wang G.-J., Tomasi D., and Baler R.D.
    Unbalanced neuronal circuits in addiction.
    Current Opinion in Neurobiology (Epub February 21, 2013, in press). PubMed
  • Wang G.-J., Volkow N.D., Wigal T., Kollins S.H., Newcorn J.H., Telang F., Logan J., Jayne M., Wong C.T., Han H., Fowler J.S., Zhu W., and Swanson J.M.
    Long-term stimulant treatment affects brain dopamine transporter level in patients with attention deficit hyperactive disorder.
    PLoS ONE 8(5): e63023 (May, 2013). PubMed
  • Xu B., Gou J.-Y., Li F.G., Shangguan X.X., Zhao B., Yang C.Q., Wang L.J., Yuan S., Liu C.-J., and Chen X.Y.
    A cotton BURP domain protein interacts with α-expansin and their co-expression promotes plant growth and fruit production.
    Molecular Plant, 6(3):945-958 (May, 2013).  PubMed
  • Yu K., Soares J.M., Mandal M.K., Wang C., Chanda B., Gifford A.N., Fowler J.S., Navarre D., Kachroo A., and Kachroo P.
    A feedback regulatory loop between G3P and lipid transfer protein DIR1 and AZI1 mediates azelaic-acid-induced systemic immunity.
    Cell Reports, 3(4):1266-1278 (2013). PubMed