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Arthur K. Solomon Professor of Biophysics

David Nelson

Arthur K. Solomon Professor of Biophysics

Professor of Physics and Applied Physics

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Research

Much of Nelson’s recent research has focused on problems that bridge the gap between the physical and biological sciences. Early work explored population dynamics in the presence of varying growth rates and convection, leading to universal predictions for the spreading and transverse profile of populations in space- and time-dependent environments. Together with his student, David Lubensky, Nelson developed a theory of force-induced denaturation of double-stranded DNA. Sequence heterogeneity dominates the dynamics of the un-zipping fork (with possible implications for DNA replication in prokaryotes) over a large of forces above an unzipping transition. Energy barriers near the transition scale as the square root of the genome size. Recent observations of jumps and plateaus in the unzipping of lambda phage DNA at constant force (the result of a collaboration with his colleague, Mara Prentiss) are consistent with these predictions. Sequence heterogeneity was also predicted to have a re-markable effect on the dynamics of motor proteins such as helicases, exonulceases and RNA polymerases, leading to sublinear drift in time of these complex enzymes and a possible expla-nation for the nearly horizontal velocity-force curves observed near the stall force in experi-ments on RNA polymerase. Nelson and colleagues have also studied the shapes of viruses, showing that the icosahedral packing of protein capsomeres of spherical viruses becomes un-stable to faceting for sufficiently large virus size. A parametization of the architecture of virus shells in terms of single dimensionless “von Karman number” shows why small viruses are round and large ones are faceted, and allows important information about the elastic constants to be extracted from electron micrographs.

Selected Publications

M. J. I. Mueller, B. I. Negeboren, D. R. Nelson and A. W. Murray, “Genetic drift opposes mutualism during spatial population expansion”, Proc. of the Nat. Acad. Sci. 111, 1037 (2014).

A. Amir and D. R. Nelson, “Dislocation-mediated growth of bacterial cell walls”, Proc. Natl. Acad. Sci. USA 109, 9833 (2012).

K. S. Korolev, M. J. I. Mueller, N. Karahan, A. W. Murray, O. Hallatschek and D. R. Nelson, “Selective sweeps in growing microbial colonies”, Physical Biology 9, 026008 (2012).

O. Hallatschek, P. Hersen, S. Ramanathan and D. R. Nelson, Genetic drift at expanding frontiers promotes gene segregation, Proceedings of the National Academy of Sciences 104, 19926 (2007).

J. Lidmar, L. Mirny and D. R. Nelson, “Virus shapes and buckling transitions in spherical shells”, Phys. Rev. E68, 051910 (2003).

C. Danilowicz, V. W. Coljee, C. Bouzigues, D. K. Lubensky, D. R. Nelson and M. Prentiss, “DNA unzipped under a constant force exhibits multiple metastable intermediates”, Proc. Natl. Acad. Sci. V100, 1694 (2003).