Unravelling Hidden Abilities Encoded in the Structure of DNA

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• Alexei Kornyshev (Imperial College London)
• Wednesday 11 October 2023, 10:20-11:00
• Seminar Room 1, Newton Institute.

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SPLW03 - Biological condensates: cellular mechanisms governed by phase transitions

DNA molecule continues to surprise us with new abilities encoded in its structure. I will overview some of the latest findings of the theory and experiments related with the structural effects on DNA -DNA interactions is solutions, with a focus on (i) DNA condensation and DNA mesophases, and (ii) the ability of homologous genes to recognize each other from a distance prior homologous recombination. The latter will be the main point of the talk, as it refers to one of the great mysteries of molecular genetics: how two homologous genes find each other in the genomic haystack. I will emphasize new experiments performed at Imperial College and Harvard University, separately or together, which bring new light on this fascinating ability. The talk will summarize activities of a large team of people, including groups at NIH (S. Leikin), Imperial (J. Baldwin, J. Seddon, D.J. Lee, and AAK ); Harvard (M. Prentiss, C. Danilowicz), University of Minnesota (A. Wynveen) and few others. Literature

A. A. Kornyshev, D. J. Lee, S. Leikin, A. Wynveen, Structure and interactions of biological helices, Reviews of Modern Physics 79, 943-996 (2007) A. A. Kornyshev, Physics of DNA : unravelling hidden abilities encoded in the structure of ‘the most important molecule’, PCCP 39 , 12352-12378 (2010)  G. Baldwin, N. Brooks, R. Robson, A. Goldar, A. Wynveen, S. Leikin, J. Seddon, A.A. Kornyshev Duplex DNA recognize sequence homology in protein free environment, J. Phys. Chem. B 112 , 1060-1064 (2008) A. Falaschi, Commentary: Similia similibus: pairing of homologous chromosomes driven by the physicochemical properties of DNA , HFSP Journal, October 2, 257–261 (2008) http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2639946/ D.J.(O’) Lee, C. Danilowicz, C. Rochester, A.A. Kornyshev, M. Prentiss, Evidence of protein-free homology recognition in magnetic bead force-extension experiments, Proc. Roy.Soc. A 472 , #20160186 (2016) 10.1098/rspa.2016.0186 D.J(O’) Lee, A. Wynveen, A.A. Kornyshev, Theory of phase segregation in DNA assemblies containing two different base-pair sequence types, New J. Phys. 19 # 015014 (2017) 10.1088/1367-2630/aa5482 D. J. Lee, A. Wynveen, T. Albrecht, A.A. Kornyshev, Which way up? Recognition of homologous DNA segments in parallel and antiparallel alignment, J.Chem.Phys. 142  #045101 (2015) https://doi.org/10.1063/1.4905291 A.A. Kornyshev, D.J. Lee, A. Wynveen, S. Leikin, Signatures of DNA flexibility, interactions and sequence-related structural variations in classical X-ray diffraction patterns, Nucleic Acids Research 39, 7289-7299 (2011)https://doi.org/10.1093/nar/gkr260

R. Cortini, A. A. Kornyshev, D. J. Lee, S. Leikin, Electrostatic braiding and homologous pairing of DNA double helices

Biophys. J. 101, 875-84 (2011) https://doi.org/10.1016/j.bpj.2011.06.058

This talk is part of the Isaac Newton Institute Seminar Series series.

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