Collaborators

Campus Overview in the Fall

Professor Sheila S. David (UC-Davis) is an expert in DNA repair, and co-PI of our NCI grant to investigate the chemistry and biology of oxidized quanine lesions particularly through the examination of base excision repair enzymology of lesion-containing DNA.

Recent Papers:

X. Zhao, N. Krishnamurthy, C. J. Burrows, and S. S. David, "Mutation versus repair: NEIL1 removal of hydantoin lesions in single-stranded, bulge, bubble and duplex DNA contexts," Biochemistry2010, 49, 1658-1666.

N. Krishnamurthy, X. Zhao, C. J. Burrows, and S. S. David, "Superior removal of hydantoin lesions relative to other oxidized bases by the human DNA glycosylase hNEIL1," Biochemistry2008, 47, 7137-7146.

Professor Peter A. Beal (UC-Davis) and his group study the chemistry and biochemistry of double-stranded RNA, and together we are interested in chemical modifications of synthetic siRNAs that may find utility in the RNA interference pathway. Our collaboration is funded by NIGMS.

Recent Papers:

H. Peacock, A. Kannan, P. A. Beal, and C. J. Burrows, "Chemical modification of siRNA bases to probe and enhance RNA interface," J. Org. Chem. 2011, 76, 7295-7300.

A. Kannan, E. Fostvedt, P. A. Beal, and C. J. Burrows, "8-Oxoguanosine switches modulate the activity of alkylated siRNAs by controlling steric effects in the major vs. minor grooves," J. Am. Chem. Soc.2011, 133, 6343-6351.

Professor H. Bernhard Schlegel, a pioneer of "Gaussian" and Dr. Barbara H. Munk (Wayne State) are theorists with expertise in computational DFT; for her thesis research, Barbara has analyzed many of our experimentally proposed reaction mechanisms for guanine oxidation and cross-linking.

Recent Papers:

Y. Ye, B. H. Munk, J. G. Muller, A. Cogbill, C. J. Burrows, and H. B. Schlegel, "Mechanistic and kinetic aspects of the formation of guanidinohydantoin from spiroiminodihydantoin under acid conditions," Chem. Res. Toxicol., 2009, 22, 526-535.

B. H. Munk, C. J. Burrows, and H. B. Schlegel, "An exploration of mechanisms for the transformation of 8-oxoguanine to guanidinohydantoin and spiroiminodihydantoin by density functional theory," J. Am. Chem. Soc., 2008, 130, 5245-5256.

Professor Henry S. White (University of Utah) and the Burrows lab have a joint venture in detecting DNA damage using nanopore technology. The White lab constitutes an expert team of electrochemists who have created very stable platforms for lipid bilayer supported protein nanopores.

Recent Papers:

A. E. P. Schibel, A. M. FLeming, Q. Jin, N. An, J. Liu, C. P. Blakemore, H. S. White, and C. J. Burrows, "Sequence-specific single-molecule analysis of 8-oxo-7,8-dihydroguanine lesions in DNA based on unzipping kinetics of complementary probes in ion channel recordings," J. Am. Chem. Soc.2011, 133, 14778-14784.

A. E. P. Schibel, N. An, Q. Jin, A. M. Fleming, C. J. Burrows, and H. S. White, "Nanopore detection of 8-oxo-7,8-dihydro-2'-deoxyguanosine in immobilized single-stranded DNA via adduct formation to the DNA damage site," J. Am. Chem. Soc., 2010, 132, 17992-17995.

Professors Susan Wallace and Sylvia Doublié (University of Vermont) are world leaders in DNA repair and crystallographic studies of DNA-processing enzymes, respectively. We have collaborated with the Wallace lab on NEIL and related BER enzymes and with the Doublié lab on crystallographic studies.

Recent Papers:

P. Aller, Y. Ye, S. S. Wallace, C. J. Burrows, and S. Doublié, "Crystal structure of a replicative DNA polymerase bound to the oxidized guanine lesion guanidinohydantoin," Biochemistry, 2010, 49, 2502-2509.

Y. Guo, V. Bandaru, P. Jaruga, X. Zhao, C. J. Burrows, S. Iwai, M. Dizdaroglu, J. P. Bond, and S. S. Wallace, "The DNA glycosylases of Mycobacterium tuberculosis exhibit different substrate specificities from their Escherichia coli counterparts," DNA Repair 2010, 9, 177-190.

M. Liu, V. Bandaru, J. P. Bond, P. Jaruga, X. Zhao, P. P. Christov, C. J. Burrows, M. Dizdaroglu, C. J. Rizzo, and S. S. Wallace, "The mouse ortholog of NEIL3 is a functional DNA glycosylase in vitro and in vivo," Proc. Natl. Acad. Sci. (USA)2010, 107, 4925-4930.

S. D. Kathe, R. Barrantes-Reynolds, P. Jarugal, M. R. Newton, C. J. Burrows, V. Bandaru, M. Dizdaroglu, J. P. Bond, and S. S. Wallace, "Plant and fungal Fpg homologs are formamidopyrimidine DNA glycosylases but not 8-oxoguanine DNA glycosylases," DNA Repair2009, 8, 643-653.

Professor Ron Naaman (Weizmann Institute) and his group study electron transmission through thin films of DNA. Together we examined the electronic structure of 8-oxoguanosine-containing DNA.

Recent Papers:

T. Markus, S. Daube, R. Naaman, A. M. Fleming, J. G. Muller, C. J. Burrows, "The electronic structure of DNA: The unique properties of 8-oxoguanosine," J. Am. Chem. Soc.2009, 131, 89-95.

Dr. Bernard Meunier (formerly CNRS Toulouse, presently Palumed) directed a group of foremost chemists in the field of biomimetic oxidation chemistry. Together we investigated mechanisms of DNA oxidation by transition metal-mediated processes.

Papers:

M. Pitie, C. J. Burrows, B. Meunier, "Mechanisms of DNA cleavage by copper complexes of 3-Clip-Phen and of its conjugate with a distamycin analog," Nucleic Acids Res.2000, 28, 4856-4864.

M. Pitie, J. D. Van Horn, D. Brion, C. J. Burrows, and B. Meunier, "Targeting the DNA CLeavage Activity of Copper Phenanthroline and Clip-Phen to AT Tracts via Linkage to a Poly-N-methylpyrrole," Bioconj. Chem.2000, 12, 892-900.

K. Wietzerbin, J. G. Muller, R. A. Jameton, G. Pratviel, J. Bernadou, B. Meunier, and C. J. Burrows, "Hydroxylation, Epoxidation and DNA Cleavage Reactions Mediated by the Biomimetic MnTMPyP/O2/Sulfite Oxidation System," Inorg. Chem., 1999, 38, 4123-4127.

Professor Steven A. Rokita (U. Maryland) is credited with sparking our interest in DNA chemistry, particularly guanine oxidation in various structural contexts, and he is also a great chef.

Papers:

S. E. Rokita and C. J. Burrows, "Nickel- and Cobalt-dependent Oxidation and Cross-linking of Proteins," in Metal Ions in Biological Systems, Vol. 38, H. Sigel and A. Sigel, Eds., M. Dekker: New York, 2001, 289-311.

H.-C. Shih, H. Kassahun, C. J. Burrows, and S. E. Rokita, "Selective Association between a Macrocyclic Nickel Complex and Extrahelical Guanine Residues," Biochemistry, 1999, 38, 15034-15042.

N. Tang, J. G. Muller, C. J. Burrows, and S. E. Rokita, "Nickel and Cobalt Reagents Promote Selective Oxidation of Z-DNA," Biochemistry, 1999, 38, 16648-16654.

J. G. Muller, L. A. Kayser, S. J. Paikoff, V. Duarte, N. Tang, S. E. Rokita, and C. J. Burrows, "Formation of DNA adducts using nickel(II) complexes of redox-active ligands: A comparison of salen and peptide complexes," Coord. Chem. Rev.1999, 185-186, 761-774.

S. E. Rokita and C. J. Burrows, "Probing nucleic acid structure with nickel and cobalt-based reagents," Current Protocols in Nucleic Acid Chemistry, 2000, 6.4.1-6.4.7

R. P. Hickerson, V. Duarte, J. D. Van Horn, R. J. Perez, J. G. Muller, S. E. Rokita, and C. J. Burrows, "DNA cleavage vs. cross-linking using nickel peptides: Mechanistic aspects," Metals and Genetics, B. Sarkar, Ed., Plenum: New York, 1999, 183-196.

P. Zheng, C. J. Burrows, and S. E. Rokita, "Nickel- and Cobalt-Dependent Reagents Identify Structural Features of RNA that are not Detected by Dimethyl Sulfate or RNase T1," Biochemistry1998, 37, 2207-2214.

H.-C. Shih, N. Tang, C. J. Burrows and S. E. Rokita, "Nickel-based Probes of Nucleic Acid Structure Bind to Guanine N7 but do not Perturb the Dynamic Equilibrium of Extrahelical Guanine Residues," J. Am. Chem. Soc.1998, 120, 3284-3288.

C. J. Burrows, J. G. Muller, G. T. Poulter and S. E. Rokita, "Nickel-Catalyzed Oxidations: From Hydrocarbons to DNA," Acta Chem. Scand.1996, 50, 337-344.

C.-C. Cheng, J. Gulia, S. E. Rokita, and C. J. Burrows, "Dioxygen Chemistry of Nickel(II) Dioxopentaazamacrocyclic Complexes: Substituent and Medium Effects," J. Mol. Catal., A1996, 113, 379-391.

G. Gill, A. A. Richter-Rusli, C. J. Burrows, and S. E. Rokita, "Nickel-Dependent Crosslinking of a Protein," J. Chem. Toxicol.1997, 10, 302-309.

G. A. McLachlan, J. G. Muller, S. E. Rokita, and C. J. Burrows, "Metal-Mediated Oxidation of Guanines in DNA and RNA: A Comparison of Cobalt(II), Nickel(II), and Copper(II) Complexes," Inorg. Chem. Acta1998, 251, 193-199.

J. G. Muller, P. Zheng, S. E. Rokita, and C. J. Burrows, "DNA and RNA Modification Promoted by [Co(H2O)6]Cl2: Guanine Selectivity, Temperature Dependence and Mechanism," J. Am. Chem. Soc.1996, 118, 2320-2325.

C. J. Burrows and S. E. Rokita, "Nickel Complexes as Probes of Guanine Sites in Nucleic Acid Folding," in Metal Ions in Biological Systems, Vol.33, H. Sigel and A. Sigel, Eds., M. Dekker: New York, 1995, Chap. 18, pp537-560.

C. J. Burrows, J. G. Muller, H.-C. Shih, and S. E. Rokita, "Interaction of Metal Complexes with B vs. September 7, 2004 Z DNA," in "Supramolecular Stereochemistry," J. S. Siegel, Ed.; Kluwer: Dordrecht, 1995, pp 57-62.

S. E. Rokita, P. Zheng, N. Tang, C.-C. Cheng, R.-H. Yeh, J. G. Muller and C. J. Burrows, "Nickel Complexes in Modification of Nucleic Acids," In Genetic Response to Metals, B. Sarkar, Ed.; M. Dekker: New York, 1995, pp 201-216.

S. A. Woodson, J. G. Muller, C. J. Burrows and S. E. Rokita, "A Primer Extension Assay for Modification of Guanine N7 by Ni(II) Complexes," Nucl. Acids Res.1993, 21, 5524-5525.

C. J. Burrows and S. E. Rokita, "Recognition of Guanine Structure in Nucleic Acids by Nickel Complexes," Acc. Chem. Res.1994, 27, 295-301.

J. G. Muller, S. J. Paikoff, S. E. Rokita and C. J. Burrows, "DNA Modification Promoted by Water-Soluble Nickel(II) Salen Complexes: A Switch to DNA Alkylation," J. Inorg. Biochem.1994, 54, 199-206.

X. Chen, S. Woodson, C. J. Burrows and S. E. Rokita, "A Highly Sensitive Probe for Guanine N7 in Folded Structures of RNA: Application to tRNAphe and Tetrahymena Group I Intron," Biochemistry, 1993, 32, 7610-7616.

J. G. Muller, X. Chen, A. C. Dadiz, S. E. Rokita, and C. J. Burrows, "Ligand Effects Associated with the Intrinsic Selectivity of DNA Oxidation Promoted by Nickel(II) Macrocyclic Complexes," J. Am. Chem. Soc.1992, 114, 6407-6411.

C. C. Cheng, S. E. Rokita, and C. J. Burrows, "Nickel(III)-Promoted DNA Scission using Ambient Dioxygen" Angew. Chem.1993, 105, 290-292, and Angew. Chem. (Int. Ed. Engl.)1993, 32, 277-278.

J. G. Muller, X. Chen, A. C. Dadiz, S. E. Rokita, and C. J. Burrows, "Macrocyclic Nickel Complexes in DNA Recognition and Oxidation," Pure Appl. Chem. 1993, 65, 545-550.

X. Chen, C. J. Burrows, and S. E. Rokita, "Conformation Specific Oxidation of Guanosine in DNA: Ends, Mismatches, Bulges, and Loops," J. Am. Chem. Soc. 1992, 114, 322-325.

X. Chen, S. E. Rokita and C. J. Burrows, "DNA Modification: Intrinsic Selectivity of Nickel(II) Complexes," J. Am. Chem. Soc.1991, 113, 5884-5886.