Molecular and Structural Biochemistry - 2013

Hassan, H., Fink, R. C., & Evans, M. R. (2013). Attenuated FNR deficient enterobacteria (Patent No. US8435506B2).

Hyde, A. S., Thelen, A. M., Barycki, J. J., & Simpson, M. A. (2013). UDP-glucose Dehydrogenase Activity and Optimal Downstream Cellular Function Require Dynamic Reorganization at the Dimer-Dimer Subunit Interfaces. Journal of Biological Chemistry, 288(49), 35049–35057. https://doi.org/10.1074/JBC.M113.519090

Meilleur, F. (2013). Third School on the Applications of Neutron Scattering Techniques in Structural Biology, Oak Ridge, TN. Neutron News, 24(1), 4–4. https://doi.org/10.1080/10448632.2013.750140

Gruene, T., Hahn, H. W., Luebben, A. V., Meilleur, F., & Sheldrick, G. M. (2013). Refinement of macromolecular structures against neutron data withSHELXL2013. Journal of Applied Crystallography, 47(1), 462–466. https://doi.org/10.1107/s1600576713027659

Ankner, J. F., Heller, W. T., Herwig, K. W., Meilleur, F., & Myles, D. A. A. (2013, April). Neutron Scattering Techniques and Applications in Structural Biology. Current Protocols in Protein Science. https://doi.org/10.1002/0471140864.ps1716s72

Meilleur, F., Munshi, P., Robertson, L., Stoica, A. D., Crow, L., Kovalevsky, A., … Acta crystallographica. Section, D. (2013). The IMAGINE instrument: first neutron protein structure and new capabilities for neutron macromolecular crystallography. Biological Crystallography, 69(Pt 10), 2157–2160, https://doi.org/10.1107/s0907444913019604

Hardin, C., Ascencio-Ibaanez, T., & Knopp, J. (2013). Experimental biochemistry: Theory, experiment, analysis and reporting. Dubuque, Iowa: Kendall Hunt.

Scholl, Z. N., Rabbi, M., Lee, D., Manson, L., S-Gracz, H., & Marszalek, P. E. (2013). Origin of Overstretching Transitions in Single-Stranded Nucleic Acids. PHYSICAL REVIEW LETTERS, 111(18). https://doi.org/10.1103/physrevlett.111.188302

Theil, E. C. (2013). Ferritin: The Protein Nanocage and Iron Biomineral in Health and in Disease. INORGANIC CHEMISTRY, 52(21), 12223–12233. https://doi.org/10.1021/ic400484n

Loziuk, P. L., Wang, J., Li, Q., Sederoff, R. R., Chiang, V. L., & Muddiman, D. C. (2013). Understanding the Role of Proteolytic Digestion on Discovery and Targeted Proteomic Measurements Using Liquid Chromatography Tandem Mass Spectrometry and Design of Experiments. JOURNAL OF PROTEOME RESEARCH, 12(12), 5820–5829. https://doi.org/10.1021/pr4008442

Troxell, B., & Hassan, H. M. (2013). [Review of Transcriptional regulation by Ferric Uptake Regulator (Fur) in pathogenic bacteria]. FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY, 3. https://doi.org/10.3389/fcimb.2013.00059

Albert, V. A., Barbazuk, W. B., dePamphilis, C. W., Der, J. P., Leebens-Mack, J., Ma, H., … Tomsho, L. (2013). The Amborella Genome and the Evolution of Flowering Plants. SCIENCE, 342(6165), 1467-+. https://doi.org/10.1126/science.1241089

Lin, Y.-C., Li, W., Sun, Y.-H., Kumari, S., Wei, H., Li, Q., … Chiang, V. L. (2013). SND1 Transcription Factor-Directed Quantitative Functional Hierarchical Genetic Regulatory Network in Wood Formation in Populus trichocarpa. PLANT CELL, 25(11), 4324–4341. https://doi.org/10.1105/tpc.113.117697

Honarbakhsh, S., Guenther, R. H., Willoughby, J. A., Lommel, S. A., & Pourdeyhimi, B. (2013). Polymeric Systems Incorporating Plant Viral Nanoparticles for Tailored Release of Therapeutics. ADVANCED HEALTHCARE MATERIALS, 2(7), 1001–1007. https://doi.org/10.1002/adhm.201200434

MacKenzie, S. H., Schipper, J. L., England, E. J., Thomas, M. E., III, Blackburn, K., Swartz, P., & Clark, A. C. (2013). Lengthening the Intersubunit Linker of Procaspase 3 Leads to Constitutive Activation. BIOCHEMISTRY, 52(36), 6219–6231. https://doi.org/10.1021/bi400793s

Busch, S., Pardo, L. C., O'Dell, W. B., Bruce, C. D., Lorenz, C. D., & McLain, S. E. (2013). On the structure of water and chloride ion interactions with a peptide backbone in solution. Physical Chemistry Chemical Physics, 15(48), 21023–21033.

Huang, B.-W., Ray, P. D., Iwasaki, K., & Tsuji, Y. (2013). Transcriptional regulation of the human ferritin gene by coordinated regulation of Nrf2 and protein arginine methyltransferases PRMT1 and PRMT4. FASEB JOURNAL, 27(9), 3763–3774. https://doi.org/10.1096/fj.12-226043

Jiang, S., Wright, I., Swartz, P., & Franzen, S. (2013). The role of T56 in controlling the flexibility of the distal histidine in dehaloperoxidase-hemoglobin from Amphitrite ornata. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS, 1834(10), 2020–2029. https://doi.org/10.1016/j.bbapap.2013.06.005

MacKenzie, S. H., & Clark, A. C. (2013). Slow folding and assembly of a procaspase-3 interface variant. Biochemistry, 52(20), 3415–3427.

Reyes, M. I., Nash, T. E., Dallas, M. M., Ascencio-Ibanez, J. T., & Hanley-Bowdoin, L. (2013). Peptide Aptamers That Bind to Geminivirus Replication Proteins Confer a Resistance Phenotype to Tomato Yellow Leaf Curl Virus and Tomato Mottle Virus Infection in Tomato. JOURNAL OF VIROLOGY, 87(17), 9691–9706. https://doi.org/10.1128/jvi.01095-13

Martin, S. L., He, L., Meilleur, F., Guenther, R. H., Sit, T. L., Lommel, S. A., & Heller, W. T. (2013). New insight into the structure of RNA in red clover necrotic mosaic virus and the role of divalent cations revealed by small-angle neutron scattering. ARCHIVES OF VIROLOGY, 158(8), 1661–1669. https://doi.org/10.1007/s00705-013-1650-6

Liu, E., Peng, S., Li, Q., Sun, Y.-H., Chiang, V. L., & Sederoff, R. R. (2013). High-level gene expression in differentiating xylem of tobacco driven by a 2.0 kb Poplar COMT2 promoter and a 4 x 35S enhancer. PLANT BIOTECHNOLOGY, 30(2), 191–198. https://doi.org/10.5511/plantbiotechnology.13.0213a

Heinen, J. L., Coco, M. W., Marcuard, M. S., White, D. N., Peterson, M. N., Martin, R. A., & Langerhans, R. B. (2013). Environmental drivers of demographics, habitat use, and behavior during a post-Pleistocene radiation of Bahamas mosquitofish (Gambusia hubbsi). EVOLUTIONARY ECOLOGY, 27(5), 971–991. https://doi.org/10.1007/s10682-012-9627-6

Iwasaki, K., Ray, P. D., Huang, B.-W., Sakamoto, K., Kobayashi, T., & Tsuji, Y. (2013). Role of AMP-Activated Protein Kinase in Ferritin H Gene Expression by Resveratrol in Human T Cells. BIOCHEMISTRY, 52(30), 5075–5083. https://doi.org/10.1021/bi400399f

Jia, J., Shafiee-Kermani, F., & Miller, W. L. (2013). Gonadotrope-Specific Expression and Regulation of Ovine Follicle Stimulating Hormone Beta: Transgenic and Adenoviral Approaches Using Primary Murine Gonadotropes. PLOS ONE, 8(7). https://doi.org/10.1371/journal.pone.0066852

Hanley-Bowdoin, L., Bejarano, E. R., Robertson, D., & Mansoor, S. (2013). [Review of Geminiviruses: masters at redirecting and reprogramming plant processes]. NATURE REVIEWS MICROBIOLOGY, 11(11), 777–788. https://doi.org/10.1038/nrmicro3117

Babin, V., Wang, D., Rose, R. B., & Sagui, C. (2013). Binding Polymorphism in the DNA Bound State of the Pdx1 Homeodomain. PLOS COMPUTATIONAL BIOLOGY, 9(8). https://doi.org/10.1371/journal.pcbi.1003160

Samaddar, S., Dutta, A., Sinharoy, S., Paul, A., Bhattacharya, A., Saha, S., … DasGupta, M. (2013). Autophosphorylation of gatekeeper tyrosine by symbiosis receptor kinase. FEBS LETTERS, 587(18), 2972–2979. https://doi.org/10.1016/j.febslet.2013.07.050

Reetz, J. A., Caceres, A. V., Suran, J. N., Oura, T. J., Zwingenberger, A. L., & Mai, W. (2013). Sensitivity, positive predictive value, and interobserver variability of computed tomography in the diagnosis of bullae associated with spontaneous pneumothorax in dogs: 19 cases (2003-2012). Journal of the American Veterinary Medical Association, 243(2), 244–251.

Shi, R., Shuford, C. M., Wang, J. P., Sun, Y. H., Yang, Z. C., Chen, H. C., … Chiang, V. L. (2013). Regulation of phenylalanine ammonia-lyase (PAL) gene family in wood forming tissue of Populus trichocarpa. Planta, 238(3), 487–497. https://doi.org/10.1007/s00425-013-1905-1

Lu, S., Li, Q., Wei, H., Chang, M.-J., Tunlaya-Anukit, S., Kim, H., … Chiang, V. L. (2013). Ptr-miR397a is a negative regulator of laccase genes affecting lignin content in Populus trichocarpa. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 110(26), 10848–10853. https://doi.org/10.1073/pnas.1308936110

Bajwa, V. S., Wang, X., Blackburn, R. K., Goshe, M. B., Mitra, S. K., Williams, E. L., … Clouse, S. D. (2013). Identification and Functional Analysis of Tomato BRI1 and BAK1 Receptor Kinase Phosphorylation Sites. PLANT PHYSIOLOGY, 163(1), 30–42. https://doi.org/10.1104/pp.113.221465

Boswell, S. G., Fogle, C. A., Linder, K., & Copple, C. N. (2013, February 1). What Is Your Diagnosis? JAVMA-JOURNAL OF THE AMERICAN VETERINARY MEDICAL ASSOCIATION, Vol. 242, pp. 311–313. https://doi.org/10.2460/javma.242.3.311

Zhao, J., Serrano, V., Zhao, J., Le, P., & Franzen, S. (2013). Structural and Kinetic Study of an Internal Substrate Binding Site in Dehaloperoxidase-Hemoglobin A from Amphitrite ornata. BIOCHEMISTRY, 52(14), 2427–2439. https://doi.org/10.1021/bi301307f

Piper, A., Ribeiro, M., Smith, K. M., Briggs, C. M., Huitt, E., Nanda, K., … Hernandez, R. (2013). Chikungunya Virus Host Range E2 Transmembrane Deletion Mutants Induce Protective Immunity against Challenge in C57BL/6J Mice. JOURNAL OF VIROLOGY, 87(12), 6748–6757. https://doi.org/10.1128/jvi.03357-12

Chen, H.-C., Song, J., Williams, C. M., Shuford, C. M., Liu, J., Wang, J. P., … Chiang, V. L. (2013). Monolignol Pathway 4-Coumaric Acid: Coenzyme A Ligases in Populus trichocarpa: Novel Specificity, Metabolic Regulation, and Simulation of Coenzyme A Ligation Fluxes. PLANT PHYSIOLOGY, 161(3), 1501–1516. https://doi.org/10.1104/pp.112.210971

Koh, S., Thomas, R., Tsai, S., Bischoff, S., Lim, J.-H., Breen, M., … Piedrahita, J. A. (2013). Growth Requirements and Chromosomal Instability of Induced Pluripotent Stem Cells Generated from Adult Canine Fibroblasts. STEM CELLS AND DEVELOPMENT, 22(6), 951–963. https://doi.org/10.1089/scd.2012.0393

Yousef, G. G., Brown, A. F., Funakoshi, Y., Mbeunkui, F., Grace, M. H., Ballington, J. R., … Lila, M. A. (2013). Efficient Quantification of the Health-Relevant Anthocyanin and Phenolic Acid Profiles in Commercial Cultivars and Breeding Selections of Blueberries (Vaccinium spp.). JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY, 61(20), 4806–4815. https://doi.org/10.1021/jf400823s

Hardrict, S. N., Gurarslan, R., Galvin, C. J., Gracz, H., Roy, D., Sumerlin, B. S., … Tonelli, A. E. (2013). Characterizing polymer macrostructures by identifying and locating microstructures along their chains with the kerr effect. JOURNAL OF POLYMER SCIENCE PART B-POLYMER PHYSICS, 51(9), 735–741. https://doi.org/10.1002/polb.23248

Vancini, R., Wang, G., Ferreira, D., Hernandez, R., & Brown, D. T. (2013). Alphavirus Genome Delivery Occurs Directly at the Plasma Membrane in a Time- and Temperature-Dependent Process. JOURNAL OF VIROLOGY, 87(8), 4352–4359. https://doi.org/10.1128/jvi.03412-12

Theil, E. C., & Turano, P. (2013). METALLOENZYMES Cage redesign explains assembly. Nature Chemical Biology, 9(3), 143–144.

Sederoff, R. (2013, May 30). GENOMICS A spruce sequence. NATURE, Vol. 497, pp. 569–570. https://doi.org/10.1038/nature12250

Vancini, R., Kramer, L. D., Ribeiro, M., Hernandez, R., & Brown, D. (2013). Flavivirus infection from mosquitoes in vitro reveals cell entry at the plasma membrane. VIROLOGY, 435(2), 406–414. https://doi.org/10.1016/j.virol.2012.10.013

Copple, C., Robertson, I. D., Thrall, D. E., & Samei, E. (2013). EVALUATION OF TWO OBJECTIVE METHODS TO OPTIMIZE KVP AND PERSONNEL EXPOSURE USING A DIGITAL INDIRECT FLAT PANEL DETECTOR AND SIMULATED VETERINARY PATIENTS. VETERINARY RADIOLOGY & ULTRASOUND, 54(1), 9–16. https://doi.org/10.1111/j.1740-8261.2012.01989.x

Bischoff, S. R., Tsai, S. Q., Hardison, N. E., Motsinger-Reif, A. A., Freking, B. A., Nonneman, D. J., … Piedrahita, J. A. (2013). Differences in X-Chromosome Transcriptional Activity and Cholesterol Metabolism between Placentae from Swine Breeds from Asian and Western Origins. PLOS ONE, 8(1). https://doi.org/10.1371/journal.pone.0055345

Olson, A. L., Liu, F., Tucker, A. T., Goshe, M. B., & Cavanagh, J. (2013). Chemical crosslinking and LC/MS analysis to determine protein domain orientation: Application to AbrB. BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS, 431(2), 253–257. https://doi.org/10.1016/j.bbrc.2012.12.124

Kubisiak, T. L., Nelson, C. D., Staton, M. E., Zhebentyayeva, T., Smith, C., Olukolu, B. A., … Sederoff, R. R. (2013). A transcriptome-based genetic map of Chinese chestnut (Castanea mollissima) and identification of regions of segmental homology with peach (Prunus persica). TREE GENETICS & GENOMES, 9(2), 557–571. https://doi.org/10.1007/s11295-012-0579-3

Dhakal, K., Maltecca, C., Cassady, J. P., Baloche, G., Williams, C. M., & Washburn, S. P. (2013). Calf birth weight, gestation length, calving ease, and neonatal calf mortality in Holstein, Jersey, and crossbred cows in a pasture system. JOURNAL OF DAIRY SCIENCE, 96(1), 690–698. https://doi.org/10.3168/jds.2012-5817