Recent publications from the Bloomfield research group

2005

V.A. Bloomfield, "Civic Engagement and Graduate Education", CGS Communicator, April 2005.
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V.A. Bloomfield, "Public Scholarship: An Administrator's View", Ch. 11 in Peters, S.J., Jordan, N.R., Adamek, M. and Alter, T.R. (Eds.) Engaging Campus and Community: The Practice of Public Scholarship in the American Land-Grant University System. Dayton, OH: The Kettering Foundation Press, 2005..

Probe Diffusion in Concentrated Polyelectrolyte Solutions: Effect of Background Interactions on Competition between Electrostatic and Viscous Forces
S.S. Jena and V.A. Bloomfield, Macromolecules 38, 10551 - 10556 (2005)

Probe Diffusion in Concentrated Polyelectrolyte Solutions: Effect of Probe Charge on Large Deviations from Stokes-Einstein Behavior
S.S. Jena and V.A. Bloomfield, , Macromolecules 38, 10557 - 10560 (2005)

2003

Binding of Mg2+ to Single-stranded Polynucleotides: Hydration and Optical Studies
B. I. Kankia (2003), Biophys. Chem. 104, 643-654.

Mg2+-induced Triplex Formation of An Equimolar Mixture of Poly(rA) and Poly(rU)
B. I. Kankia (2003), Nucleic Acids Res. 31, 5101-5107.

2002

Thermodynamics of DNA Interactions from Single Molecule Stretching Experiments
V.A. Bloomfield, M.C. Williams, and I. Rouzina (2002), Accts. Chem. Res. 35: 159-166. pdf

Salt Dependence of the Elasticity and Overstretching Transition of Single DNA Molecules
J.R. Wenner, M.C. Williams, I. Rouzina, and V.A. Bloomfield (2002) Biophys. J. 82: 3160-3169 pdf

Assessing accumulated solvent near a macromolecular solute by preferential interaction coefficients
K.S. Tang and V.A. Bloomfield (2002), Biophys. J. 82: 2876-2891 pdf

Thermodynamics of Cationic Lipid Binding to DNA and DNA Condensation: Roles of Electrostatics and Hydrophobicity
Daumantas Matulis, Ioulia Rouzina, and Victor A. Bloomfield (2002) J. Amer. Chem. Soc. 124: 7331-7342 pdf

2001

The effect of pH on the overstretching transition of dsDNA: Evidence of force-induced DNA melting
Williams, M.C., Wenner, J.R., Rouzina, I. and Bloomfield, V.A. (2001) Biophys. J. 80: 874-881 pdf

Force-induced melting of the DNA double helix. 1. Thermodynamic analysis
Rouzina, I. and Bloomfield, V.A. (2001) Biophys. J. 80: 882-893 pdf

Force-induced melting of the DNA double helix. 2. Effect of solution conditions
Rouzina, I. and Bloomfield, V.A. (2001) Biophys. J. 80: 894-900 pdf

Entropy and Heat Capacity of DNA Melting from Temperature Dependence of Single Molecule Stretching
Williams, M.C., Wenner, J..R., Rouzina, I. and Bloomfield, V.A. (2001) Biophys. J., 80: 1932-1939 pdf

Role of zinc fingers in nucleic acid chaperone activity of HIV-1 nucleocapsid protein revealed by single molecule stretching
M.C. Williams, J.R. Wenner, I. Rouzina, R.J. Gorelick, K. Musier-Forsyth, and V.A. Bloomfield (2001) Proc. Natl. Acad. Sci. 98: 6121-6126. pdf

Hexamminecobalt(III)-induced condensation of calf thymus DNA. Circular dichroism, ultrasonic and density measurements
B.I. Kankia, V. Buckin and V.A. Bloomfield (2001) Nucleic Acids Res., 29: 2795-2801. pdf

Thermodynamics of the Hydrophobic Effect. I. Coupling of Aggregation and pKa Shifts in Solutions of Aliphatic Amines
D. Matulis and V.A. Bloomfield (2001) Biophy. Chem., 93: 37-51. pdf

Thermodynamics of the Hydrophobic Effect. II. Calorimetric Measurement of Enthalpy, Entropy, and Heat Capacity of Aggregation of Alkylamines and Long Aliphatic Chains
D. Matulis and V.A. Bloomfield (2001) Biophys. Chem., 93: 53-65. pdf

Thermodynamics of the Hydrophobic Effect. III. Condensation and Aggregation of Alkanes, Alcohols, and Alkylamines
D. Matulis (2001) Biophy. Chem., 93: 67-82. pdf

2000

Condensation of DNA by Multivalent Cations: Experimental Studies of Condensation Kinetics
He, S., P.G. Arscott, and V.A. Bloomfield (2000) , Biopolymers 53: 329-341.pdf

Isothermal Titration Calorimetry and Electrostatic Mechanism
D. Matulis, I. Rouzina, and V.A. Bloomfield (2000) , J. Mol. Biol. 296: 1053-1063.pdf

Stretching of Single Collapsed DNA Molecules
C.G. Baumann, V.A. Bloomfield, S.B. Smith, C. Bustamante, M.D. Wang, and S.M. Block (2000), Biophys. J., 78: 1965-1978.pdf

Static and Dynamic Light Scattering from Aggregating Particles
Bloomfield, V.A. (2000), Biopolymers 54: 168-172.pdf

Tracer Diffusion of Proteins in DNA Solutions. 2. Green Fluorescent Protein in Crowded DNA Solutions
Busch, N.A., T. Kim, and V.A. Bloomfield (2000), Macromolecules 33: 5932-5937. pdf

The Greater Negative Charge Density of DNA in Tris-Borate Buffers Does Not Enhance DNA Condensation by Multivalent Cations
J.J. Schwinefus and V.A. Bloomfield (2000), Biopolymers 54: 572-577. pdf

Interactions of Spermidine and Spermine with Genomic B DNA of Differing GC/AT Content: Investigation by Raman Spectroscopy
H. Deng, V. A. Bloomfield, J. M. Benevides and G. J. Thomas, Jr. (2000) Nucleic Acids Res.28: 3379-3385.pdf

Excluded volume in solvation: sensitivity of scaled-particle theory to solvent size
Tang, K.E.S. and Bloomfield, V.A. (2000), Biophys. J., 79: 2222-2234. pdf

1999

1-Anilino-8-Naphthalene Sulfonate as a Protein Conformational Tightening Agent.
Matulis, D., Baumann, C.G., Bloomfield, V.A. and Lovrien, R. (1999) Biopolymers 49: 451-458. pdf

Buffer Effects on EcoRV Cleavage and Binding to Plasmid DNA.
Wenner, J.R. and Bloomfield, V.A. (1999) Anal. Biochem. 268: 201-212. pdf

Structural effects of cobalt-amine compounds on DNA condensation.
Deng, H. and Bloomfield, V.A. (1999) Biophys. J. 77: 1556-1561. pdf

Dependence of the Raman signature of genomic B DNA on nucleotide base sequence.
Deng, H., Bloomfield, V.A., Benevides, J. and Thomas, G.J., Jr. (1999) Biopolymers, 50: 656-666. pdf

Heat Capacity Effects on the Melting of DNA. 1. General Aspects
Rouzina, I. and V.A. Bloomfield (1999), Biophys. J. 77: 3242-3251. pdf

Heat Capacity Effects on the Melting of DNA. 2. Analysis of Nearest Neighbor Base Pair Effects.
Rouzina, I. and V.A. Bloomfield (1999), Biophys. J. 77: 3252-3255. pdf

Crowding Effects on EcoRV Kinetics and Binding,
Wenner, J.R. and V.A. Bloomfield (1999), Biophys. J., 77: 3234-3241. pdf

Osmotic Pressure Effects on EcoRV Cleavage and Binding,
Wenner, J.R. and V.A. Bloomfield (1999), J. Biomol. Struct. Dynam.17: 461-471.

1998

Practical use of the Poisson-Boltzmann equation to analyze ion binding to DNA.
Bloomfield, V.A. and Rouzina, I. (1998) Meth. Enzymol., 265: 364-378.

Insertion of Telomere Repeat Sequence Decreases Plasmid DNA Condensation by Cobalt (III) Hexaammine.
Schnell, J.R., Berman, J., and Bloomfield, V.A. (1998) Biophys. J. 74: 1484-1491.

DNA Condensation by Multivalent Cations.
Bloomfield, V.A. (1998) Biopolymers/Nucleic Acid Sci. 44: 269-282.

DNA bending by small, mobile multivalent cations.
Rouzina, I. and Bloomfield, V.A. (1998) Biophys. J. 74: 3152-3164.

The Homo-Dimeric Form of ADP-Ribosyl Cyclase in Solution.
Munshi, C., Baumann, C., Levitt, D., Bloomfield, V.A. and Lee, H.C. (1998) Biochim. Biophys. Acta 1388: 428-436.

1997

Competitive Electrostatic Binding of Charged Ligands to Polyelectrolytes: Practical Approach Using the Nonlinear Poisson-Boltzmann Equation.
Rouzina, I. and Bloomfield, V.A. (1997) Biophys. Chem. 64: 139-155.

Ionic Effects on the Elasticity of Single DNA Molecules.
Baumann, C.G., Smith, S.B., Bloomfield, V.A. and Bustamante, C. (1997) Proc. Nat. Acad. Sci. USA 94: 6185-6190.

1996

Competitive Electrostatic Binding of Charged Ligands to Polyelectrolytes: Planar and Cylindrical Geometries.
Rouzina, I. and Bloomfield, V.A. (1996) J. Phys. Chem. 100: 4292-4304.

Influence of ligand spatial organization on competitive electrostatic binding to DNA.
Rouzina, I. and Bloomfield, V.A. (1996) J. Phys. Chem. 100: 4305-4313.

DNA condensation .
Bloomfield, V.A. (1996) Curr. Opinion Struct. Biol. 6: 334-341. pdf

Electrostatic effects on the stability of condensed DNA in the presence of divalent cations .
Duguid, J.G., and Bloomfield, V.A. (1996) Biophys. J. 70: 2838-2846.

Macroion Attraction Due to Electrostatic Correlation Between Screening Counterions. I. MobileSurface-Adsorbed Ions and Diffuse Ion Cloud.
Rouzina, I. and Bloomfield, V.A. (1996) J. Phys. Chem. 100: 9977-9989.

DNA melting studied by differential scanning calorimetry and Raman spectroscopy.
Duguid, J.G., Bloomfield, V.A., Benevides, J.M., Thomas, G.J. Jr. (1996) Biophys. J. 71: 3350-3360.

1995

Gel Electrophoresis Measurement of Counterion Condensation on DNA
Ma, C. and Bloomfield, V.A. (1995) Biopolymers 35: 211-216.

Condensation of plasmids enhanced by Z-DNA conformation of d(CG)n inserts
Ma, C. and Bloomfield, V.A. (1995) Biochemistry 34: 3521-3528.

Brownian dynamics simulation of protein diffusion in a crowded DNA environment.
Dwyer, J.D. and Bloomfield, V.A. (1995) Biophys. Chem. 57: 55-64.

DNA condensation in alcohol-water mixtures: Dielectric constant and other solvent effects
Arscott, P.G., Ma, C. Wenner, J. and Bloomfield, V.A. (1995) Biopolymers 36: 345-365.

Large-scale purification of plasmid DNA for biophysical and molecular biology studies.
Baumann, C.B. and Bloomfield, V.A. (1995) BioTechniques 19:884-890.

Raman Spectroscopy of DNA-Metal Complexes.II. The Thermal Denaturation of DNA in the Presence of Sr2+, Ba2+, Mg2+, Ca2+, Mn2+, Co2+, Ni2+ and Cd2+
Duguid, J.G., Bloomfield, V.A., Benevides, J.M., Thomas, G.J. Jr. (1995) Biophys. J. 69:2623-2641.

Aggregation of melted DNA by divalent metal ion-mediated crosslinking
Duguid, J.G., and Bloomfield, V.A. (1995) Biophys. J. 69: 2642-2648.

Condensation of Supercoiled DNA Induced by MnCl2.
Ma, C. and Bloomfield, V.A. (1994) Biophys. J. 67: 1678-1681.

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Last updated 12/11/05