2014 PRISM Publications

Ara, A., Love, R.P. and Chelico, L. (2014) Different Mutagenic Potential of HIV-1 Restriction Factors APOBEC3G and APOBEC3F Is Determined by Distinct Single-Stranded DNA Scanning Mechanisms. PLoS Pathog 10(3): e1004024. doi:10.1371/journal.ppat.1004024.

Feng, Y., Baig, T.T., Love, R.P., and Chelico, L. (2014) Suppression of APOBEC3-mediated restriction of HIV-1 by Vif. Front Microbiol. 26;5:450.

Baig, T.T., Feng, Y., Chelico, L. (2014) Determinants of Efficient Degradation of APOBEC3 Restriction Factors by HIV-1 Vif. J Virol. 15;88(24):14380-95.

Rak, M., Salome, M., Kaminskyj, S.G.W. and Gough, K.M. (2014) X-ray microfluorescence (μXRF) imaging of Aspergillus nidulans cell wall mutants reveals biochemical changes due to gene deletions. Analytical and Bioanalytical Chemistry http://dx.doi.org/10.1007/s00216-014-7726-7

He, X.S., Li, S.J. and Kaminskyj, S.G.W. (2014) Using Aspergillus nidulans to identify antifungal drug resistance mutations. Eukaryotic Cell 13: 288-294.

He, X.S., Li, S.J. and Kaminskyj, S.G.W. (2014) Characterization of Aspergillus nidulans α-glucan synthesis: roles for two synthases and two amylases. Molecular Microbiology 91: 579-595.

Alam, M.K., van Straaten, K., Sanders, D.A.R., and Kaminskyj, S.G.W. (2014) Aspergillus nidulans cell wall composition and function change in response to hosting several Aspergillus fumigatus UDP galactopyranose mutase activity mutants. PLoS ONE 9:e85735.

Gremillion, S.K., Harris, S.D., Jackson-Hayes, L., Kaminskyj, S.G., Loprete, D.M., Gauthier, A.C., Mercer, S., Ravita, A.J., Hill, T.W. (2014) Mutations in proteins of the Conserved Oligomeric Golgi Complex affect polarity, cell wall structure, and glycosylation in the filamentous fungus Aspergillus nidulans. Fungal Genet Biol. 2014 Dec;73:69-82.

Poulin, M.B., Shi, Y., Protsko, C., Dalrymple, S.A. and Sanders, D.A.R., Pinto, M.B., and Lowary, T.L.* (2014) Specificity of a UDP-GalNAc Pyranose-Furanose Mutase. A Potential Therapeutic Target for Campylobacter jejuni Infections. ChemBioChem, 15:47-56

Yao, D., Cherney, M. and Cygler, M. (2014)  Structure of the N-terminal domain of Effector Protein LegC3 from Legionella pneumophila. Acta Cryst. D70, 436-441.

Grishin, A.M.,  Cherney, M., Anderson, D.H.,  Phanse, S., Babu, M. and Cygler, M. (2014) NleH defines a new family of bacterial effector kinases.  Structure, 22, 250-259

Sarraf ,N.S., Shi, R., McDonald, L., Baardsnes, J., Zhang, L., Cygler, M. and Ekiel, I. (2014) Structure of CbpA J-Domain Bound to the Regulatory Protein CbpM Explains Its Specificity and Suggests Evolutionary Link between CbpM and Transcriptional Regulators. PLoS One. 9(6):e100441

Shi, R., McDonald, L., Cygler, M. and Ekiel, I. (2014) Coiled-coil helix rotation selects repressing or activating state of transcriptional regulator DhaR. Structure. 22(3):478-87

Grishin, A.M., Condos, T.E., Barber, K.R., Campbell-Valois, F.X., Parsot, C., Shaw, G.S. and Cygler, M. (2014) Structural basis for the inhibition of host protein ubiquitination by Shigella effector kinase OspG. Structure. 22(6):878-88.

Kalynych, S., Morona, R. and Cygler, M. (2014) Progress in understanding the assembly process of bacterial O-antigen. FEMS Microbiol Rev. doi: 10.1111/1574-6976.12070. [Epub ahead of print]

Garron, M.L. and Cygler, M. (2014) Uronic polysaccharide degrading enzymes. Curr Opin Struct Biol. 28C:87-95.

Yao, D., Zhang, T., Cherney, M., He, Y., Gu., Y., Cygler, M. and Fan, H. (2014). A case study on the treatment of protein SIRAS data. Acta Cryst D70:2686-2691.

Tavassoly, O., Nokhrin, S., Dmitriev, O.Y. and Lee, J.S. (2014) Cu(II) and dopamine bind to á-synuclein and cause large conformational changes. FEBS J. 281(12):2738-53.

Taschuk, R., Marciniuk, K., Määttänen, P., Madampage, C., Hedlin, P., Potter, A., Lee, J.S., Cashman, N.R., Griebel, P. and Napper, S. (2014) Safety, specificity and immunogenicity of a PrPSc-specific prion vaccine based on the YYR disease specific epitope. Prion, 8(1).

Krasniq, B. and Lee, J.S. (2014) RNase A does not translocate the alpha-hemolysin pore. PLoS One. 9(2):e88004. 14 pages.

Madampage, C.A., Marciniuk, K., Määttänen, P., Cashman, N..R, Potter, A., Lee, J.S. and Napper, S. (2014) Nanopore analysis reveals differences in structural stability of ovine PrPC proteins corresponding to scrapie susceptible (VRQ) and resistance (ARR) genotypes. Prion, 7(6).

Tavassoly, O., Kakish, J., Nokhrin, S., Dmitriev, O. and Lee, J.S. (2014) The use of nanopore analysis for discovering drugs which bind to a-synuclein for treatment of Parkinson’s disease. Eur. J. Med. Chem. 88:42-54.

Huang, Y., Nokhrin, S., Hassanzadeh-Ghassabeh, G., Yu, C.H., Yang, H., Barry, A.N., Tonelli, M., Markley, J.L., Muyldermans, S., Dmitriev, O.Y. and Lutsenko, S. (2014) Interactions Between Metal-Binding Domains Modulate Intracellular Targeting of Cu(I)-ATPase ATP7B, as Revealed by Nanobody Binding. J. Biol. Chem. 2014 Sep 24. pii: jbc.M114.580845. [Epub ahead of print]

Pydi, S.P., Sobotkiewca, T., Bilakanti, R., Bhullar, R.P., Loewen, M.C., Chelikani, P., (2014) Amino acid derivatives as bitter taste receptor (T2R) blockers. J. Biol. Chem.  289:25054-25066.

Dorosh, L., Rajagopalan, N., Loewen, M.C., Stepanova, M.  (2014)  Molecular mechanisms in the selective basal activation of pyrabactin receptor 1: comparative analysis of mutants. FEBS Open Bio 4:496-509.

Benson, C.L., Kepka, M., Wunschel., C., Rajagopalan, N., Nelson, K.M., Christmann, A., Abrams, S.R., Griill, E., Loewen, M.C. (2014) Abscisic acid analogs as chemical probes for dissection of abscisic acid responses in Arabidopsis thaliana.  Phytochemistry. EPub ahead of Print, April 2014. DOI: 10.1016/j.phytochem.2014.03.017

Allonby, O., El Zawily, A., Freywald, T., Mousseau, D., Chlan, J., Anderson, D., Benmerah, A., Sidhu, V., Babu, M., DeCoteau, J., Freywald A. (2014) Ligand stimulation induces clathrin- and Rab5- dependent downregulation of the kinase-dead EphB6 receptor preceded by the disruption of EphB6-Hsp90 interaction., Cell Signal 26(12):2645-57.

Satram-Maharaj, T., Nyarko, J., Kuski K., Fehr, K., Pennington, P., Truitt, L., Freywald, A., Lukong, K., Anderson, D., Mousseau, D. (2014) The monoamine oxidase-A inhibitor clorgyline promotes a mesenchymal-to-epithelial transition in the MDA-MB-231 breast cancer cell line., Cell Signal [Epub ahead of print].

Wang, R., Freywald, A., Chen, Y., Xu, J., Tan, X., Xiang, J. (2014) Transgenic 4-1BBL-engineered vaccine stimulates potent Gag-specific therapeutic and long-term immunity via increased priming of CD44+CD62Lhigh IL-7R+ CTLs with up- and downregulation of anti- and pro-apoptosis genes. Cell Mol Immunol. doi: 10.1038/cmi.2014.72. [Epub ahead of print].

Singh, R.S.P., Michel, D., Das, U., Dimmock, J.R., Alcorn, J. (2014) Cytotoxic 1,5-diaryl-3-oxo-1,5-pentadienes: An assessment and comparison of membrane permeability using Caco-2 and MDCK monolayers, Bioorganic and Medicinal Chemistry, 24(22):5199-5202.

Ambros, B., Alcorn, J., Duke-Novakovski, T., Livingston, A., Dowling, P. (2014) Pharmacokinetics and pharmacodynamics of a 5 μg kg-1 h-1 fentanyl infusion in conscious cats. Am J Vet Res 75(8):716-21.

Sampieri, F., Alcorn, J., Allen, A.L., Clark, C.R., Vannucci, F.A., Pusterla, N., Mapes, S., Ball, K.R., Dowling, P.M., Thompson, J., Bernstein, L.R., Gebhart, C.J., Hamilton, D.L. (2014) Pharmacokinetics of gallium maltolate in Lawsonia Intracellularis-infected and uninfected rabbits. J Vet Pharmacol Ther 37(5):486-99.

Sampieri, F., Allen, A.L., Alcorn, J., Clark, C.R., Vannucci, F.A., Pusterla, N., Mapes, S., Ball, K.R., Dowling, P.M., Thompson, J., Bernstein, L.R., Gebhart, C.J., Hamilton, D.L. (2014) Efficacy of gallium maltolate against lawsonia intracellularis infection in a rabbit model.  J Vet Pharmacol Ther 37(6):571-8.

Kaur Mukker, J., Michel, D., Muir, A.D., Krol, E.S. and Alcorn, J. (2014). Permeability and conjugative metabolism of flaxseed lignans by Caco-2 human intestinal cells. Journal of Natural Products. 24;77(1):29-34.

Vanderlinde, E.M., Zhong, S., Li, G., Martynowski, D., Grochulski, P. and Howard, S.P. (2014) Assembly of the type two secretion system in Aeromonas hydrophila involves direct interaction between the periplasmic domains of the assembly factor ExeB and the secretin ExeD. PLoS One. 9(7).

Fodje, M., Grochulski, P., Janzen, K., Labiuk, S., Gorin, J., and Berg, R. (2014) 08B1-1: an automated beamline for macromolecular crystallography experiments at the Canadian Light Source. J Synchrotron Radiat. 21(3):633.

Anzar, M., Grochulski, P. and Bonnet, B. (2014) Synchrotron x-ray diffraction to detect glass or ice formation in the vitrified bovine cumulus-oocyte complexes and morulae. PLoS One. 9(12):e114801.

Zamyatkin, D., Rao, C., Hoffarth, E., Jurca, G., Rho, H., Parra, F., Grochulski, P. and Ng, K.K. (2014) Structure of a backtracked state reveals conformational changes similar to the state following nucleotide incorporation in human norovirus polymerase. Acta Crystallogr D Biol Crystallogr. 2014 Dec 1;70(Pt 12):3099-109.

Bertwistle, D., Vogt, L., Aamudalapalli, H.B., Palmer, D.R., Sanders, D.A.R. (2014) Purification, crystallization and room-temperature X-ray diffraction of inositol dehydrogenase LcIDH2 from Lactobacillus casei BL23. Acta Crystallogr F Struct Biol Commun. 70(7):979-83.

Conly, C.J.T., Skovpen, Y.V., Li, S., Palmer, D.R.J. and Sanders, D.A.R. (2014) Tyrosine 110 Plays a Critical Role in Regulating the Allosteric Inhibition of Campylobacter jejuni Dihydrodipicolinate Synthase by Lysine. Biochemistry, 53:7067-7075.

Menzel, J., Malo, M.E., Chan, C., Prusinkiewicz, M., Arnason, T.G., Harkness, T.A. (2014) The anaphase promoting complex regulates yeast lifespan and rDNA stability by targeting Fob1 for degradation. Genetics. 196(3):693-709.

Postnikoff, S.D., Harkness, T.A. (2014) Replicative and chronological life-span assays. Methods Mol Biol. 1163:223-7.

Davies, G.F., Berg, A., Postnikoff, S.D., Wilson, H.L., Arnason, T.G., Kusalik, A., Harkness, T.A. (2014) TFPI1 mediates resistance to doxorubicin in breast cancer cells by inducing a hypoxic-like response. PLoS One. 9(1):e84611.

Ball, L.G., Xu, X., Blackwell, S., Hanna, M.D., Lambrecht, A.D. and Xiao, W. (2014) The Rad5 helicase activity is dispensable for error-free DNA post-replication repair. DNA Repair 16: 74-83.

Ball, L.G., Hanna, M.D., Lambrecht, A.D., Mitchell, B., Ziola, B., Cobb, J.A. and Xiao, W. (2014) The Mre11-Rad50-Xrs2 complex is required for yeast DNA postreplication repair. PLoS One 9:e109292.

Wen, R., Wang, S., Xiang, D., Venglat, P., Shi, X., Zang, Y., Datla, R., Xiao, W. and Wang, H. (2014) UBC13, an E2 enzyme for Lys63-linked ubiquitination, regulates root development by affecting auxin signaling and Aux/IAA protein stability. Plant J. 80:424-436.

Wu, Z., Shen, S., Zhang, Z., Zhang, W. and Xiao, W. (2014) Ubiquitin-conjugating enzyme complex Uev1A-Ubc13 promotes breast cancer metastasis through nuclear factor-kB mediated matrix metalloproteinase-1 gene regulation. Breast Cancer Res. 16:R75.

Cao, L., Tang, X., Zhang, X., Zhang, J., Tian, X., Wang, J., Xiong, M. and Xiao, W. (2014) Two-stage transcriptional reprogramming in Saccharomyces cerevisiae for optimizing ethanol production from xylose. Metab. Eng. 24:150-159.

Rout, M.K., Hodge, C.D., Markin, C.J., Xu, X., Glover, J.N.M., Xiao, W. and Spyracopoulos, L. (2014) Stochastic gate dynamics regulate the catalytic activity of ubiquitination enzymes. J. Am. Chem. Soc. 136:17446-17458.

Ahuja, G., Jaiswal, S., Hucl, P. and Chibbar, R.N. (2014) Wheat genome specific granule-bound starch synthase 1 differentially influence grain starch synthesis. Carbohydrate Polymers 114: 87-94.

Kannan, U., Ganeshan, S. and Chibbar, R.N. (2014) Hexadecyltrimethylammonium Bromide (CTAB)-based protocol to isolate high-quality RNA in adequate quantities for gene expression analyses in developing seeds of lentils (Lens culinaris Medik.) Gene Expression to Genetical Genomics 7:7-16.

Ahuja, G., Jaiswal, S., Hucl, P. and Chibbar, R.N. (2014) Differences in starch granule composition and structure influence in vitro enzymatic hydrolysis of grain meal and extracted starch I two classes of Canadian wheat (Triticum aestivum L.).  Cereal Chem. 91:233-239

Jaiswal, S., Båga, M., Ahuja, G., Rossnagel, B.G. and Chibbar, R.N. (2014) Development of barley (Hordeum vulgare L.) lines with altered starch granule size distribution. J. Agric Food Chem. 62: 2289-2296.

Gangola, M.P., Jaiswal, S., Khedikar, Y.P. and Chibbar, R.N. (2014) A reliable and rapid HPAEC-PAD method for soluble sugar and RFO analysis in chickpea. Food Chemistry 154: 127-133.

Paul, J.M., Templeton, S.D., Baharani, A., Freywald, A., and Vizeacoumar, F.J. (2014) Building high-resolution synthetic lethal networks: a 'Google map' of the cancer cell. Trends Mol Med. 20(12):704-715.

Barreto, K. and Geyer, C.R. (2014) Screening combinatorial libraries of cyclic peptides using the yeast two-hybrid assay. Methods Mol Biol. 1163:273-309.

Truitt, L., Hutchinson, C., DeCoteau, J.F. and Geyer, C.R. (2014) Chaetocin antileukemia activity against chronic myelogenous leukemia cells is potentiated by bone marrow stromal factors and overcomes innate imatinib resistance. Oncogenesis. 3:e122. doi: 10.1038/oncsis.2014.37.

Hu, Q., Wu, Y., Tang, J., Zheng, W., Wang, Q., Nahirney, D., Duszyk, M., Wang, S., Tu, J.C. and Chen, X.Z. (2014) Expression of polycystins and fibrocystin on primary cilia of lung cells. Biochem Cell Biol.  12:1-8. PMID: 25367197.

Guo, M., Vidhyasagar, V., Ding, H., Wu, Y., (2014) Insight into the Roles of Helicase Motif Ia by Characterizing Fanconi Anemia Group J Protein (FANCJ) Patient Mutations. J Biol Chem. 289(15):10551-10565.

Bharti, S.K., Khan, I., Banerjee, T., Sommers, J.A., Wu, Y., Brosh, R.M. Jr. (2014) Molecular Functions and Cellular Roles of the ChlR1 (DDX11) Helicase  Defective in the Rare Cohesinopathy Warsaw Breakage Syndrome. Cell Mol Life Sci. 71(14):2625-39.

Henderson, A., Wu, Y., Huang, Y., Chavez, L., Platt, J., Johnson, F.B., Brosh, R., Sen, D., and Lansdorp, P.M. (2014) Detection of G-quadruplex DNA in mammalian cells.  Nucleic Acids Res. 42:860-869.

Du L & Luo Y. (2014) Thiolation-enhanced substrate recognition by D-alanyl carrier protein ligase DltA from Bacillus cereus. F1000Research, 3:106

Rao DE & Luo Y. (2014) PH-Dependent Activities and Structural Stability of Loop-2- Anchoring Helix of RadA Recombinase from Methanococcus Voltae. Protein Pept Lett. 21, 679-87

Book Chapter  Mobile DNA III

Kobryn K, Chaconas G. 2014. Hairpin telomere resolvases. Microbiol Spectrum 2(6):MDNA3-0023-2014. doi:10.1128/microbiolspec.MDNA3-0023-2014