Publications

Found 142 results
2015
I. Gállego, Grover, M. A., and Hud, N. V., “Folding and imaging of DNA nanostructures in anhydrous and hydrated deep-eutectic solvents.”, Angew Chem Int Ed Engl, vol. 54, no. 23, pp. 6765-9, 2015.
A. S. Petrov, Gulen, B., Norris, A. M., Kovacs, N. A., Bernier, C. R., Lanier, K. A., Fox, G. E., Harvey, S. C., Wartell, R. M., Hud, N. V., and Williams, L. Dean, “History of the ribosome and the origin of translation”, Proceedings of the National Academy of Sciences, vol. 112, no. 50, pp. 15396 - 15401, 2015.
J. C. Bowman, Hud, N. V., and Williams, L. Dean, “The ribosome challenge to the RNA world.”, J Mol Evol, vol. 80, no. 3-4, pp. 143-61, 2015.
B. J. Cafferty and Hud, N. V., “Was a Pyrimidine-Pyrimidine Base Pair the Ancestor of Watson-Crick Base Pairs? Insights from a Systematic Approach to the Origin of RNA”, Israel Journal of Chemistry, vol. 55, no. 8, pp. 891 - 905, 2015.
2014
B. J. Cafferty and Hud, N. V., “Abiotic synthesis of RNA in water: a common goal of prebiotic chemistry and bottom-up synthetic biology.”, Curr Opin Chem Biol, vol. 22, pp. 146-57, 2014.
I. Mamajanov, MacDonald, P. J., Ying, J., Duncanson, D. M., Dowdy, G. R., Walker, C. A., Engelhart, A. E., ndez, F. M. á, Grover, M. A., Hud, N. V., and F. Schork, J., “Ester Formation and Hydrolysis during Wet–Dry Cycles: Generation of Far-from-Equilibrium Polymers in a Model Prebiotic Reaction”, Macromolecules, vol. 47, no. 4, pp. 1334 - 1343, 2014.
A. S. Petrov, Bernier, C. R., Hsiao, C., Norris, A. M., Kovacs, N. A., Waterbury, C. C., Stepanov, V. G., Harvey, S. C., Fox, G. E., Wartell, R. M., Hud, N. V., and Williams, L. Dean, “Evolution of the ribosome at atomic resolution.”, Proc Natl Acad Sci U S A, vol. 111, no. 28, pp. 10251-6, 2014.
G. Portella, Germann, M. W., Hud, N. V., and Orozco, M., “MD and NMR analyses of choline and TMA binding to duplex DNA: on the origins of aberrant sequence-dependent stability by alkyl cations in aqueous and water-free solvents.”, J Am Chem Soc, vol. 136, no. 8, pp. 3075-86, 2014.
A. S. Petrov, Bernier, C. R., Gulen, B., Waterbury, C. C., Hershkovits, E., Hsiao, C., Harvey, S. C., Hud, N. V., Fox, G. E., Wartell, R. M., and Williams, L. Dean, “Secondary structures of rRNAs from all three domains of life.”, PLoS One, vol. 9, no. 2, p. e88222, 2014.
M. C. Chen, Cafferty, B. J., Mamajanov, I., Gállego, I., Khanam, J., Krishnamurthy, R., and Hud, N. V., “Spontaneous prebiotic formation of a β-ribofuranoside that self-assembles with a complementary heterocycle.”, J Am Chem Soc, vol. 136, no. 15, pp. 5640-6, 2014.
B. J. Cafferty, Avirah, R. R., Schuster, G. B., and Hud, N. V., “Ultra-sensitive pH control of supramolecular polymers and hydrogels: pK a matching of biomimetic monomers”, Chem. Sci., vol. 5, no. 12, pp. 4681 - 4686, 2014.
2013
B. J. Cafferty, Gállego, I., Chen, M. C., Farley, K. I., Eritja, R., and Hud, N. V., “Efficient self-assembly in water of long noncovalent polymers by nucleobase analogues.”, J Am Chem Soc, vol. 135, no. 7, pp. 2447-50, 2013.
E. Kuruvilla, Schuster, G. B., and Hud, N. V., “Enhanced nonenzymatic ligation of homopurine miniduplexes: support for greater base stacking in a pre-RNA world.”, ChemBioChem, vol. 14, no. 1, pp. 45-8, 2013.
S. S. Athavale, J Gossett, J., Bowman, J. C., Hud, N. V., Williams, L. Dean, and Harvey, S. C., “In vitro secondary structure of the genomic RNA of satellite tobacco mosaic virus.”, PLoS One, vol. 8, no. 1, p. e54384, 2013.
C. Hsiao, Lenz, T. K., Peters, J. K., Fang, P. - Y., Schneider, D. M., Anderson, E. J., Preeprem, T., Bowman, J. C., O'Neill, E. B., Lie, L., Athavale, S. S., J Gossett, J., Trippe, C., Murray, J., Petrov, A. S., Wartell, R. M., Harvey, S. C., Hud, N. V., and Williams, L. Dean, “Molecular paleontology: a biochemical model of the ancestral ribosome.”, Nucleic Acids Res, vol. 41, no. 5, pp. 3373-85, 2013.
N. V. Hud, Cafferty, B. J., Krishnamurthy, R., and Williams, L. Dean, “The origin of RNA and "My Grandfather's Axe".”, Chem Biol, vol. 20, no. 4, pp. 466-74, 2013.
T. M. Parker, Hohenstein, E. G., Parrish, R. M., Hud, N. V., and C Sherrill, D., “Quantum-mechanical analysis of the energetic contributions to π stacking in nucleic acids versus rise, twist, and slide.”, J Am Chem Soc, vol. 135, no. 4, pp. 1306-16, 2013.
C. Hsiao, Chou, I. - C., C Okafor, D., Bowman, J. C., O'Neill, E. B., Athavale, S. S., Petrov, A. S., Hud, N. V., Wartell, R. M., Harvey, S. C., and Williams, L. Dean, “RNA with iron(II) as a cofactor catalyses electron transfer.”, Nat Chem, vol. 5, no. 6, pp. 525-8, 2013.
A. S. Petrov, Bernier, C. R., Hershkovits, E., Xue, Y., Waterbury, C. C., Hsiao, C., Stepanov, V. G., Gaucher, E. A., Grover, M. A., Harvey, S. C., Hud, N. V., Wartell, R. M., Fox, G. E., and Williams, L. Dean, “Secondary structure and domain architecture of the 23S and 5S rRNAs.”, Nucleic Acids Res, vol. 41, no. 15, pp. 7522-35, 2013.
2012
T. Maehigashi, Hsiao, C., Woods, K. Kruger, Moulaei, T., Hud, N. V., and Williams, L. Dean, “B-DNA structure is intrinsically polymorphic: even at the level of base pair positions.”, Nucleic Acids Res, vol. 40, no. 8, pp. 3714-22, 2012.
J. C. Bowman, Lenz, T. K., Hud, N. V., and Williams, L. Dean, “Cations in charge: magnesium ions in RNA folding and catalysis.”, Curr Opin Struct Biol, vol. 22, no. 3, pp. 262-72, 2012.
S. S. Athavale, J Gossett, J., Hsiao, C., Bowman, J. C., O'Neill, E., Hershkovitz, E., Preeprem, T., Hud, N. V., Wartell, R. M., Harvey, S. C., and Williams, L. Dean, “Domain III of the T. thermophilus 23S rRNA folds independently to a near-native state.”, RNA, vol. 18, no. 4, pp. 752-8, 2012.
F. M. Lannan, Mamajanov, I., and Hud, N. V., “Human telomere sequence DNA in water-free and high-viscosity solvents: G-quadruplex folding governed by Kramers rate theory.”, J Am Chem Soc, vol. 134, no. 37, pp. 15324-30, 2012.
A. E. Engelhart, Cafferty, B. J., C Okafor, D., Chen, M. C., Williams, L. Dean, Lynn, D. G., and Hud, N. V., “Nonenzymatic ligation of DNA with a reversible step and a final linkage that can be used in PCR.”, ChemBioChem, vol. 13, no. 8, pp. 1121-4, 2012.
S. S. Athavale, Petrov, A. S., Hsiao, C., Watkins, D., Prickett, C. D., J Gossett, J., Lie, L., Bowman, J. C., O'Neill, E., Bernier, C. R., Hud, N. V., Wartell, R. M., Harvey, S. C., and Williams, L. Dean, “RNA folding and catalysis mediated by iron (II).”, PLoS One, vol. 7, no. 5, p. e38024, 2012.

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