Publications

Baker, J. L., Sudarsan, N., Weinberg, Z., Roth, A., Stockbridge, R. B., and Breaker, R. R. (2012). "Widespread genetic switches and toxicity resistance proteins for fluoride." Science 335(6065): 233-235.

Abstract: Most riboswitches are metabolite-binding RNA structures located in bacterial messenger RNAs where they control gene expression. We have discovered a riboswitch class in many bacterial and archaeal species whose members are selectively triggered by fluoride but reject other small anions, including chloride. These fluoride riboswitches activate expression of genes that encode putative fluoride transporters, enzymes that are known to be inhibited by fluoride, and additional proteins of unknown function. Our findings indicate that most organisms are naturally exposed to toxic levels of fluoride and that many species use fluoride-sensing RNAs to control the expression of proteins that alleviate the deleterious effects of this anion.

  • The haves and the have nots. Marder E. Elife. 2013 Jan 1;2(0). doi:pii: e01515. 10.7554/eLife.01515.

  • Self-compassion as a predictor of interleukin-6 response to acute psychosocial stress. Breines JG, Thoma MV, Gianferante D, Hanlin L, Chen X, Rohleder N. Brain Behav Immun. 2013 Nov 14. doi:pii: S0889-1591(13)00537-0. 10.1016/j.bbi.2013.11.006.

  • Open questions: Zombie projects, translational research, and the real secret of the inside of the cell. Petsko GA. BMC Biol. 2013 Sep 2;11:97. doi: 10.1186/1741-7007-11-97.

  • Directed Evolution of 2G12-Targeted Nonamannose Glycoclusters by SELMA. Temme JS, Drzyzga MG, Macpherson IS, Krauss IJ. Chemistry. 2013 Nov 13. doi: 10.1002/chem.201303848.

  • Synthesis of the Spiroiminal Moiety and Approaches to the Synthesis of Marineosins A and B. Cai XC, Snider BB. J Org Chem. 2013 Nov 21.

  • New approaches for studying synaptic development, function, and plasticity using Drosophila as a model system. Frank CA, Wang X, Collins CA, Rodal AA, Yuan Q, Verstreken P, Dickman DK. J Neurosci. 2013 Nov 6;33(45):17560-8. doi: 10.1523/JNEUROSCI.3261-13.2013.

  • Long-term inhibitory plasticity in visual cortical layer 4 switches sign at the opening of the critical period. Lefort S, Gray AC, Turrigiano GG. Proc Natl Acad Sci U S A. 2013 Nov 19;110(47):E4540-7. doi: 10.1073/pnas.1319571110.

  • A highly conserved cysteine of neuronal calcium sensing proteins controls cooperative binding of Ca2+ to recoverin. Ranaghan MJ, Kumar RP, Chakrabarti KS, Buosi V, Kern D, Oprian DD. J Biol Chem. 2013 Nov 4.

  • Small RNA library construction from minute biological samples. Matts JA, Sytnikova Y, Chirn GW, Igloi GL, Lau NC. Methods Mol Biol. 2014;1093:123-36. doi: 10.1007/978-1-62703-694-8_10.

  • Noninnocent Behavior of Bidentate Amidophosphido [NP](2-) Ligands upon Coordination to Copper. Bezpalko MW, Foxman BM, Thomas CM. Inorg Chem. 2013 Nov 4;52(21):12329-31. doi: 10.1021/ic402257z.

  • Firing rate homeostasis in visual cortex of freely behaving rodents. Hengen KB, Lambo ME, Van Hooser SD, Katz DB, Turrigiano GG. Neuron. 2013 Oct 16;80(2):335-42. doi: 10.1016/j.neuron.2013.08.038.

  • The neuromuscular transform of the lobster cardiac system explains the opposing effects of a neuromodulator on muscle output. Williams AH, Calkins A, O'Leary T, Symonds R, Marder E, Dickinson PS. J Neurosci. 2013 Oct 16;33(42):16565-75. doi: 10.1523/JNEUROSCI.2903-13.2013.

  • Construction of a microfluidic chip, using dried-down reagents, for LATE-PCR amplification and detection of single-stranded DNA. Jia Y, Mak PI, Massey C, Martins RP, Wangh LJ. Lab Chip. 2013 Oct 29;13(23):4635-41. doi: 10.1039/c3lc51049b.

  • Tris(phosphinoamide)-Supported Uranium-Cobalt Heterobimetallic Complexes Featuring Co ? U Dative Interactions. Napoline JW, Kraft SJ, Matson EM, Fanwick PE, Bart SC, Thomas CM. Inorg Chem. 2013 Oct 10.

  • Short neuropeptide F is a sleep-promoting inhibitory modulator. Shang Y, Donelson NC, Vecsey CG, Guo F, Rosbash M, Griffith LC. Neuron. 2013 Oct 2;80(1):171-83. doi: 10.1016/j.neuron.2013.07.029.

  • An Empirical Test of Convergent Evolution in Rhodopsins. Mackin KA, Roy RA, Theobald DL. Mol Biol Evol. 2013 Oct 22.

  • Alternative spliceosome assembly pathways revealed by single-molecule fluorescence microscopy. Shcherbakova I, Hoskins AA, Friedman LJ, Serebrov V, CorrĂȘa IR Jr, Xu MQ, Gelles J, Moore MJ. Cell Rep. 2013 Oct 17;5(1):151-65. doi: 10.1016/j.celrep.2013.08.026.

  • Dietary carbohydrate dictates development of Type 2 diabetes in the Nile rat. Bolsinger J, Pronczuk A, Hayes K. J Nutr Biochem. 2013 Nov;24(11):1945-52. doi: 10.1016/j.jnutbio.2013.06.004.

  • Probing Nanoscale Self-Assembly of Nonfluorescent Small Molecules inside Live Mammalian Cells. Gao Y, Berciu C, Kuang Y, Shi J, Nicastro D, Xu B. ACS Nano. 2013 Oct 22;7(10):9055-63. doi: 10.1021/nn403664n.

  • Primary cilia and dendritic spines: Different but similar signaling compartments. Nechipurenko IV, Doroquez DB, Sengupta P. Mol Cells. 2013 Oct;36(4):288-303. doi: 10.1007/s10059-013-0246-z.

  • Age differences in neural response to stereotype threat and resiliency for self-referenced information. Colton G, Leshikar ED, Gutchess AH. Front Hum Neurosci. 2013 Sep 6;7:537. doi: 10.3389/fnhum.2013.00537.

  • Fluoride-dependent interruption of the transport cycle of a CLC Cl(-)/H(+) antiporter. Lim HH, Stockbridge RB, Miller C. Nat Chem Biol. 2013 Nov;9(11):721-5. doi: 10.1038/nchembio.1336.

  • Sema4D localizes to synapses and regulates GABAergic synapse development as a membrane-bound molecule in the mammalian hippocampus. Raissi AJ, Staudenmaier EK, David S, Hu L, Paradis S. Mol Cell Neurosci. 2013 Sep 10;57C:23-32. doi: 10.1016/j.mcn.2013.08.004.

  • Active Cross-Linkers that Lead to Active Gels. Zhang Y, Zhou N, Akella S, Kuang Y, Kim D, Schwartz A, Bezpalko M, Foxman BM, Fraden S, Epstein IR, Xu B. Angew Chem Int Ed Engl. 2013 Oct 25;52(44):11494-8. doi: 10.1002/anie.201304437.

  • Three-color single molecule imaging shows WASP detachment from Arp2/3 complex triggers actin filament branch formation. Smith BA, Padrick SB, Doolittle LK, Daugherty-Clarke K, CorrĂȘa IR Jr, Xu MQ, Goode BL, Rosen MK, Gelles J. Elife. 2013 Sep 3;2:e01008. doi: 10.7554/eLife.01008.

  • Quantitative assessment of pheromone-induced Dauer formation in Caenorhabditis elegans. Neal SJ, Kim K, Sengupta P. Methods Mol Biol. 2013;1068:273-83. doi: 10.1007/978-1-62703-619-1_20.

  • Rapid detection and identification of hepatitis C virus (HCV) sequences using mismatch-tolerant hybridization probes: A general method for analysis of sequence variation. Pierce KE, Wangh LJ. Biotechniques. 2013 Sep;55(3):125-32. doi: 10.2144/000114076.

  • Valence-based age differences in medial prefrontal activity during impression formation. Cassidy BS, Leshikar ED, Shih JY, Aizenman A, Gutchess AH. Soc Neurosci. 2013;8(5):462-73. doi: 10.1080/17470919.2013.832373.

  • Forcing of Turing patterns in the chlorine dioxide-iodine-malonic acid reaction with strong visible light. Nagao R, Epstein IR, Dolnik M. J Phys Chem A. 2013 Sep 26;117(38):9120-6. doi: 10.1021/jp4073069.

 

11/26/13

 
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