Skip to content Skip to main navigation Report an accessibility issue

Faculty Publications

BCMB faculty published more than 40 papers in the academic year 2018-2019. 

  • Al Temimi AHK, van der Wekken-de Bruijne R, Proietti G, Guo H, Qian P, Mecinović J. (2019) γ-Thialysine versus Lysine: An Insight into the Epigenetic Methylation of Histones. Bioconjug Chem. 30(6):1798-1804. doi: 10.1021/acs.bioconjchem.9b00313.
  • Allen CJ, Lacey RF, Binder Bickford AB, Beshears CP, Gilmartin CJ, Binder BM. (2019) Cyanobacteria Respond to Low Levels of Ethylene. Front Plant Sci. 10:950. doi: 10.3389/fpls.2019.00950.
  • Alves DS, Westerfield JM, Shi X, Nguyen VP, Stefanski KM, Booth KR, Kim S, Morrell-Falvey J, Wang BC, Abel SM, Smith AW, Barrera FN. (2018) A novel pH-dependent membrane peptide that binds to EphA2 and inhibits cell migration. Elife. 7. pii: e36645. doi: 10.7554/eLife.36645.
  • Asaduzzaman A, Riccardi D, Afaneh AT, Cooper SJ, Smith JC, Wang F, Parks JM, Schreckenbach G. (2019) Environmental Mercury Chemistry – In Silico. Acc Chem Res. 52(2):379-388. doi: 10.1021/acs.accounts.8b00454
  • Ashkar R, Bilheux HZ, Bordallo H, Briber R, Callaway DJE, Cheng X, Chu XQ, Curtis JE, Dadmun M, Fenimore P, Fushman D, Gabel F, Gupta K, Herberle F, Heinrich F, Hong L, Katsaras J, Kelman Z, Kharlampieva E, Kneller GR, Kovalevsky A, Krueger S, Langan P, Lieberman R, Liu Y, Losche M, Lyman E, Mao Y, Marino J, Mattos C, Meilleur F, Moody P, Nickels JD, O’Dell WB, O’Neill H, Perez-Salas U, Peters J, Petridis L, Sokolov AP, Stanley C, Wagner N, Weinrich M, Weiss K, Wymore T, Zhang Y, Smith JC. (2018) Neutron scattering in the biological sciences: progress and prospects. Acta Crystallogr D Struct Biol. 74(Pt 12):1129-1168. doi: 10.1107/S2059798318017503.
  • Bobik K, Fernandez JC, Hardin SR, Ernest B, Ganusova EE, Staton ME, Burch-Smith TM. (2019) The essential chloroplast ribosomal protein uL15c interacts with the chloroplast RNA helicase ISE2 and affects intercellular trafficking through plasmodesmata. New Phytol. 221(2):850-865. doi: 10.1111/nph.15427
  • Chen X, Chen H, Yuan JS, Köllner TG, Chen Y, Guo Y, Zhuang X, Chen X, Zhang YJ, Fu J, Nebenführ A, Guo Z, Chen F. (2018) The rice terpene synthase gene OsTPS19 functions as an (S)-limonene synthase in planta, and its overexpression leads to enhanced resistance to the blast fungus Magnaporthe oryzae. Plant Biotechnol J. 16(10):1778-1787. doi: 10.1111/pbi.12914
  • Cheng X, Smith JC. (2019) Biological Membrane Organization and Cellular Signaling. Chem Rev. 119(9):5849-5880. doi: 10.1021/acs.chemrev.8b00439.
  • Darzynkiewicz ZM, Green AT, Abdali N, Hazel A, Fulton RL, Kimball J, Gryczynski Z, Gumbart JC, Parks JM, Smith JC, Zgurskaya HI. (2019) Identification of Binding Sites for Efflux Pump Inhibitors of the AcrAB-TolC Component AcrA. Biophys J. 116(4):648-658. doi: 10.1016/j.bpj.2019.01.010.
  • Demerdash O, Shrestha UR, Petridis L, Smith JC, Mitchell JC, Ramanathan A. (2019) Using Small-Angle Scattering Data and Parametric Machine Learning to Optimize Force Field Parameters for Intrinsically Disordered Proteins. Front Mol Biosci. 6:64. doi: 10.3389/fmolb.2019.00064.
  • Dockendorff TC, Labrador M. (2019) The Fragile X Protein and Genome Function. Mol Neurobiol. 56(1):711-721. doi: 10.1007/s12035-018-1122-9.
  • Duff MR Jr, Desai N, Craig MA, Agarwal PK, Howell EE. (2019) Crowders Steal Dihydrofolate Reductase Ligands through Quinary Interactions. Biochemistry. 58(9):1198-1213. doi: 10.1021/acs.biochem.8b01110.
  • Elmas M, Alexiades V, O’Neal L, Alexandre G. (2019) Modeling aerotaxis band formation in Azospirillum brasilense. BMC Microbiol. 19(1):101. doi: 10.1186/s12866-019-1468-9.
  • Evangelista Falcon W, Ellingson SR, Smith JC, Baudry J. (2019) Ensemble Docking in Drug Discovery: How Many Protein Configurations from Molecular Dynamics Simulations are Needed To Reproduce Known Ligand Binding? J Phys Chem B. 23(25):5189-5195. doi: 10.1021/acs.jpcb.8b11491.
  • Fernandez JC, Burch-Smith TM. (2019) Chloroplasts as mediators of plant biotic interactions over short and long distances. Curr Opin Plant Biol. 50:148-155. doi: 10.1016/j.pbi.2019.06.002.
  • Ganusova EE, Burch-Smith TM. (2019) Review: Plant-pathogen interactions through the plasmodesma prism. Plant Sci. 279:70-80. doi: 10.1016/j.plantsci.2018.05.017.
  • Kocaman S, Serpersu EH. (2019) The Thermodynamics of Ligand Binding to the Aminoglycoside O-Nucleotidyltransferase(4′) and Variants Yields Clues about Thermophilic Properties. Biochemistry. 58(12):1579-1586. doi: 10.1021/acs.biochem.8b01201
  • Kosentka PZ, Overholt A, Maradiaga R, Mitoubsi O, Shpak ED. (2019) EPFL Signals in the Boundary Region of the SAM Restrict Its Size and Promote Leaf Initiation. Plant Physiol. 179(1):265-279. doi: 10.1104/pp.18.00714.
  • Lee G, Sehgal R, Wang Z, Park JH. (2019) Ultraspiracle-independent anti-apoptotic function of ecdysone receptors is required for the survival of larval peptidergic neurons via suppression of grim expression in Drosophila melanogaster. Apoptosis. 24(3-4):256-268. doi: 10.1007/s10495-019-01514-2.
  • Lindsay RJ, Pham B, Shen T, McCord RP. (2018) Characterizing the 3D structure and dynamics of chromosomes and proteins in a common contact matrix framework. Nucleic Acids Res. 46(16):8143-8152. doi: 10.1093/nar/gky604.
  • Liu Z, Lemmonds S, Huang J, Tyagi M, Hong L, Jain N. (2018) Entropic contribution to enhanced thermal stability in the thermostable P450 CYP119. Proc Natl Acad Sci U S A. 115(43):E10049-E10058. doi: 10.1073/pnas.1807473115.
  • Mukherjee T, Elmas M, Vo L, Alexiades V, Hong T, Alexandre G. (2019) Multiple CheY Homologs Control Swimming Reversals and Transient Pauses in Azospirillum brasilense. Biophys J. 116(8):1527-1537. doi: 10.1016/j.bpj.2019.03.006.
  • Nguyen MHL, DiPasquale M, Rickeard BW, Doktorova M, Heberle FA, Scott HL, Barrera FN, Taylor G, Collier CP, Stanley CB, Katsaras J, Marquardt D. (2019) Peptide-Induced Lipid Flip-Flop in Asymmetric Liposomes Measured by Small Angle Neutron Scattering. Langmuir. doi: 10.1021/acs.langmuir.9b01625.
  • Nguyen VP, Dixson AC, Barrera FN. (2019) The Effect of Phosphatidylserine on a pH-Responsive Peptide Is Defined by Its Noninserting End. Biophys J. 117(4):659-667. doi: 10.1016/j.bpj.2019.07.023.
  • Nguyen VP, Palanikumar L, Kennel SJ, Alves DS, Ye Y, Wall JS, Magzoub M, Barrera FN. (2019) Mechanistic insights into the pH-dependent membrane peptide ATRAM. J Control Release. 298:142-153. doi: 10.1016/j.jconrel.2019.02.010
  • O’Neal L, Akhter S, Alexandre G. (2019) A PilZ-Containing Chemotaxis Receptor Mediates Oxygen and Wheat Root Sensing in Azospirillum brasilense. Front Microbiol. 10:312. doi: 10.3389/fmicb.2019.00312.
  • O’Neal L, Mukherjee T, Alexandre G. (2018) Analyzing Chemotaxis and Related Behaviors of Azospirillum Brasilense. Curr Protoc Microbiol. 48:3E.3.1-3E.3.11. doi: 10.1002/cpmc.49.
  • Onwubiko UN, Mlynarczyk PJ, Wei B, Habiyaremye J, Clack A, Abel SM, Das ME. (2019) A Cdc42 GEF, Gef1, through endocytosis organizes F-BAR Cdc15 along the actomyosin ring and promotes concentric furrowing. J Cell Sci. 132(5). pii: jcs223776. doi: 10.1242/jcs.223776.
  • Papon N, Binder BM. (2019) An Evolutionary Perspective on Ethylene Sensing in Microorganisms. Trends Microbiol. 27(3):193-196. doi: 10.1016/j.tim.2018.12.002.
  • Pham B, Lindsay RJ, Shen T. (2019) Effector-Binding-Directed Dimerization and Dynamic Communication between Allosteric Sites of Ribonucleotide Reductase. Biochemistry. 58(6):697-705. doi: 10.1021/acs.biochem.8b01131.
  • Piya S, Binder BM, Hewezi T. (2019) Canonical and noncanonical ethylene signaling pathways that regulate Arabidopsis susceptibility to the cyst nematode Heterodera schachtii. New Phytol. 221(2):946-959. doi: 10.1111/nph.15400.
  • Reagan BC, Ganusova EE, Fernandez JC, McCray TN, Burch-Smith TM. (2018) RNA on the move: The plasmodesmata perspective. Plant Sci. 275:1-10. doi: 10.1016/j.plantsci.2018.07.001.
  • Routray P, Li T, Yamasaki A, Yoshinari A, Takano J, Choi WG, Sams CE, Roberts DM. (2018) Nodulin Intrinsic Protein 7;1 Is a Tapetal Boric Acid Channel Involved in Pollen Cell Wall Formation. Plant Physiol. 178(3):1269-1283. doi: 10.1104/pp.18.00604.
  • Scott HL, Heberle FA, Katsaras J, Barrera FN. (2019) Phosphatidylserine Asymmetry Promotes the Membrane Insertion of a Transmembrane Helix. Biophys J. 116(8):1495-1506. doi: 10.1016/j.bpj.2019.03.003.
  • Shmarakov IO, Jiang H, Liu J, Fernandez EJ, Blaner WS. (2019) Hepatic stellate cell activation: A source for bioactive lipids. Biochim Biophys Acta Mol Cell Biol Lipids. 64(5):629-642. doi: 10.1016/j.bbalip.2019.02.004
  • Ulmschneider JP, Smith JC, White SH, Ulmschneider MB. (2018) The importance of the membrane interface as the reference state for membrane protein stability. Biochim Biophys Acta Biomembr. 1860(12):2539-2548. doi: 10.1016/j.bbamem.2018.09.012.
  • Watanabe K, Panchy N, Noguchi S, Suzuki H, Hong T. (2019) Combinatorial perturbation analysis reveals divergent regulations of mesenchymal genes during epithelial-to-mesenchymal transition. NPJ Syst Biol Appl. 5:21. doi: 10.1038/s41540-019-0097-0
  • Westerfield J, Gupta C, Scott HL, Ye Y, Cameron A, Mertz B, Barrera FN. (2019) Ions Modulate Key Interactions between pHLIP and Lipid Membranes. Biophys J. S0006-3495(19)30623-X. doi: 10.1016/j.bpj.2019.07.034.
  • Yamada Y, Prosser RA. (2018) Copper in the suprachiasmatic circadian clock: A possible link between multiple circadian oscillators. Eur J Neurosci. doi: 10.1111/ejn.14181.
  • Yaw AM, Prosser RA, Jones PC, Garcia BJ, Jacobson DA, Glass JD. (2019) Epigenetic effects of paternal cocaine on reward stimulus behavior and accumbens gene expression in mice. Behav Brain Res. 367:68-81. doi: 10.1016/j.bbr.2019.02.043
  • Ye Y, Kang X, Bailey J, Li C, Hong T. (2019) An enriched network motif family regulates multistep cell fate transitions with restricted reversibility. PLoS Comput Biol. 15(3):e1006855. doi: 10.1371/journal.pcbi.1006855.
  • Yin H, Guo HB, Weston DJ, Borland AM, Ranjan P, Abraham PE, Jawdy SS, Wachira J, Tuskan GA, Tschaplinski TJ, Wullschleger SD, Guo H, Hettich RL, Gross SM, Wang Z, Visel A, Yang X. (2018) Diel rewiring and positive selection of ancient plant proteins enabled evolution of CAM photosynthesis in Agave. BMC Genomics. 2018 Aug 6;19(1):588. doi: 10.1186/s12864-018-4964-7.
  • Zhang C, Chen X, Crandall-Stotler B, Qian P, Köllner TG, Guo H, Chen F. (2019) Biosynthesis of methyl (E)-cinnamate in the liverwort Conocephalum salebrosum and evolution of cinnamic acid methyltransferase. Phytochemistry. 164:50-59. doi: 10.1016/j.phytochem.2019.04.013.