Publications

2022

Munyaradzi, O.; Rundell, S.; Bong, D. Impact of bPNA Backbone Structural Constraints and Composition on Triplex Hybridization with DNA. Chembiochem 2022. https://doi.org/10.1002/cbic.202100707.

2021

Rundell, S.; Munyaradzi, O.; Bong, D. Enhanced Triplex Hybridization of DNA and RNA via Syndiotactic Side Chain Presentation in Minimal bPNAs. Biochemistry 2021. https://doi.org/10.1021/acs.biochem.1c00693.

Liang, Y.; Miao, S.; Mao, J.; Devari, S.; Gonzalez, M.; Bong, D. Screening of Minimalist Noncanonical Sites in Duplex DNA and RNA Reveals Context and Motif-Selective Binding by Fluorogenic Base Probes. Chemistry 2021. https://doi.org/10.1002/chem.202103616.

Miao, S.; Bhunia, D.; Devari, S.; Liang, Y.; Munyaradzi, O.; Rundell, S.; Bong, D. Bifacial PNAs Destabilize MALAT1 by 3’ A-Tail Displacement from the U-Rich Internal Loop. ACS Chem. Biol. 2021. https://doi.org/10.1021/acschembio.1c00575.

Miao, S.; Liang, Y.; Rundell, S.; Bhunia, D.; Devari, S.; Munyaradzi, O.; Bong, D. Unnatural Bases for Recognition of Noncoding Nucleic Acid Interfaces. Biopolymers 2021, 112 (1), e23399. https://doi.org/10.1002/bip.23399.

2020

Liang, Y.; Miao, S.; Mao, J.; DeSantis, C.; Bong, D. Context-Sensitive Cleavage of Folded DNAs by Loop-Targeting bPNAs. Biochemistry 2020, 59 (26), 2410–2418. https://doi.org/10.1021/acs.biochem.0c00362.

2019

Liang, Y., Mao, J., and Bong, D. (2019). Synthetic bPNAs as allosteric triggers of hammerhead ribozyme catalysis. In Methods in Enzymology, (Academic Press), DOI:10.1016/bs.mie.2019.04.028.

Xia, X., Zhou, Z., DeSantis, C., Rossi, J.J., and Bong, D. (2019). Triplex Hybridization of siRNA with Bifacial Glycopolymer Nucleic Acid Enables Hepatocyte-Targeted Silencing. ACS Chem. Biol., DOI: 10.1021/acschembio.9b00273

Miao, S., Liang, Y., Marathe, I., Mao, J., DeSantis, C., and Bong, D. (2019). Duplex stem replacement with bPNA+ triplex hybrid stems enables reporting on tertiary interactions of internal RNA domains. J. Am. Chem. Soc. DOI: 10.1021/jacs.9b03435

2017

Mao, J., DeSantis, C., and Bong, D. (2017). Small Molecule Recognition Triggers Secondary and Tertiary Interactions in DNA Folding and Hammerhead Ribozyme Catalysis. J. Am. Chem. Soc. 139, 9815–9818.

2016

Zhang, Y., Beckstead, A.A., Hu, Y., Piao, X., Bong, D., and Kohler, B. (2016). Excited-State Dynamics of Melamine and Its Lysine Derivative Investigated by Femtosecond Transient Absorption Spectroscopy. Molecules 21.

Zhou, Z., Munyaradzi, O., Xia, X., Green, D., and Bong, D. (2016). High-Capacity Drug Carriers from Common Polymer Amphiphiles. Biomacromolecules 17, 3060–3066.

Pratumyot, Y., Torres, O.B., and Bong, D. (2016). Assessment of RNA carrier function in peptide amphiphiles derived from the HIV fusion peptide. Peptides 79, 27–30.

2015

Zhou, Z., Xia, X., and Bong, D. (2015). Synthetic Polymer Hybridization with DNA and RNA Directs Nanoparticle Loading, Silencing Delivery, and Aptamer Function. J. Am. Chem. Soc. 137, 8920–8923.

Mao, J., and Bong, D. (2015). Synthesis of DNA-Binding Peptoids. Synlett 26, 1581–1585.

Piao, X., Xia, X., Mao, J., and Bong, D. (2015). Peptide ligation and RNA cleavage via an abiotic template interface. J. Am. Chem. Soc. 137, 3751–3754.

2014

Xia, X., Piao, X., and Bong, D. (2014). Bifacial peptide nucleic acid as an allosteric switch for aptamer and ribozyme function. J. Am. Chem. Soc. 136, 7265–7268.

2013

Piao, X., Xia, X., and Bong, D. (2013). Bifacial Peptide Nucleic Acid Directs Cooperative Folding and Assembly of Binary, Ternary, and Quaternary DNA Complexes. Biochemistry 52, 6313–6323.

Zhou, Z., and Bong, D. (2013). Small-Molecule/Polymer Recognition Triggers Aqueous-Phase Assembly and Encapsulation. Langmuir 29, 144–150.

Ma, M., and Bong, D. (2013). Controlled Fusion of Synthetic Lipid Membrane Vesicles. Acc. Chem. Res. 46, 2988–2997.

Xia, X., Piao, X., Fredrick, K., and Bong, D. (2013). Bifacial PNA complexation inhibits enzymatic access to DNA and RNA. Chembiochem 15, 31–36.

2012

Bandyopadhyay, S., Xia, X., Maiseiyeu, A., Mihai, G., Rajagopalan, S., and Bong, D. (2012). Z-Group ketone chain transfer agents for RAFT polymer nanoparticle modification via hydrazone conjugation. Macromolecules 45, 6766–6773.

Zeng, Y., Pratumyot, Y., Piao, X., and Bong, D. (2012). Discrete assembly of synthetic peptide-DNA triplex structures from polyvalent melamine-thymine bifacial recognition. J. Am. Chem. Soc. 134, 832–835.

2011

Bandyopadhyay, S., and Bong, D. (2011). Synthesis of Trifunctional Phosphatidylserine Probes for Identification of Lipid-Binding Proteins. Eur. J. Org. Chem. 2011, 751–758.

Ma, M., and Bong, D. (2011). Determinants of cyanuric acid and melamine assembly in water. Langmuir 27, 8841–8853.

Ma, M., Chatterjee, S., Zhang, M., and Bong, D. (2011). Stabilization of vesicular and supported membranes by glycolipid oxime polymers. Chem. Commun. 47, 2853–2855.

Torres, O., and Bong, D. (2011). Determinants of Membrane Activity from Mutational Analysis of the HIV Fusion Peptide. Biochemistry 50, 5195–5207.

Ma, M., and Bong, D. (2011). Directed peptide assembly at the lipid-water interface cooperatively enhances membrane binding and activity. Langmuir 27, 1480–1486.

Bandyopadhyay, S., and Bong, D. (2011). Synthesis of Trifunctional Phosphatidylserine Probes for Identification of Lipid-Binding Proteins. Eur. J. Org. Chem. 2011, 751–758.

2010

Ma, M., and Bong, D. (2010). Directed Peptide Assembly at the Lipid- Water Interface Cooperatively Enhances Membrane Binding and Activity†. Langmuir 27, 1480–1486.

2009

Ma, M., Gong, Y., and Bong, D. (2009). Lipid Membrane Adhesion and Fusion Driven by Designed, Minimally Multivalent Hydrogen-Bonding Lipids. J. Am. Chem. Soc. 131, 16919–16926.

2008

Ma, M., Paredes, A., and Bong, D. (2008). Intra- and intermembrane pairwise molecular recognition between synthetic hydrogen-bonding phospholipids. J. Am. Chem. Soc. 130, 14456–14458.

Torres, O., Yüksel, D., Bernardina, M., Kumar, K., and Bong, D. (2008). Peptide tertiary structure nucleation by side-chain crosslinking with metal complexation and double “click” cycloaddition. Chembiochem 9, 1701–1705.

Gong, Y., Ma, M., Luo, Y., and Bong, D. (2008). Functional determinants of a synthetic vesicle fusion system. J. Am. Chem. Soc. 130, 6196–6205.

2006

Gong, Y., Luo, Y., and Bong, D. (2006). Membrane activation: selective vesicle fusion via small molecule recognition. J. Am. Chem. Soc. 128, 14430–14431.

Prior to OSU

Bong, D., Tam, I., and Breslow, R. (2004). Oligothiophene isocyanides for platinum-based molecular electronic applications. J. Am. Chem. Soc. 126, 11796–11797.

Bong, D.T.-Y., Chan, E.W.L., Diercks, R., Dosa, P.I., Haley, M.M., Matzger, A.J., Miljanic, O.Š., Vollhardt, K.P.C., Bond, A.D., Teat, S.J., et al. (2004b). Syntheses of syn and anti doublebent [5] phenylene. Org. Lett. 6, 2249–2252.

Bong, D.T., Gentric, L., Holmes, D., Matzger, A.J., Scherhag, F., and Vollhardt, K.P. (2002). Synthesis of bent [4]phenylene (cyclobuta[1,2-α:3,4-β’]bisbiphenylene) and structure of a bis(trimethylsilyl) derivative: the last [4]phenylene isomer. Chem. Commun. 278–279.

Bong, D.T., and Ghadiri, M.R. (2001a). Chemoselective Pd(0)-catalyzed peptide coupling in water. Org. Lett. 3, 2509–2511.

Bong, D.T., Clark, T.D., Granja, J.R., and Ghadiri, M.R. (2001). Self-Assembling Organic Nanotubes. Angew. Chem. Int. Ed. 40, 988–1011.

Bong, D.T., and Ghadiri, M.R. (2001b). Self-assembling cyclic peptide cylinders as nuclei for crystal engineering. Angew. Chem. Int. Ed. 40, 2163–2166.

Bong, D.T., Janshoff, A., Steinem, C., and Ghadiri, M.R. (2000). Membrane partitioning of the cleavage peptide in flock house virus. Biophys. J. 78, 839–845.

Bong, D.T., Steinem, C., Janshoff, A., Johnson, J.E., and Reza Ghadiri, M. (1999). A highly membrane-active peptide in Flock House virus: implications for the mechanism of nodavirus infection. Chem. Biol. 6, 473–481.

Janshoff, A., Bong, D.T., Steinem, C., Johnson, J.E., and Ghadiri, M.R. (1999). An animal virus-derived peptide switches membrane morphology: possible relevance to nodaviral transfection processes. Biochemistry 38, 5328–5336.