Instytut Podstawowych Problemów Techniki
Polskiej Akademii Nauk

Partnerzy

Jonathan Fogg


Ostatnie publikacje
1.  Waszkiewicz R., Ranasinghe M., Fogg J., Catanese Jr. Daniel J., Ekiel-Jeżewska M.L., Lisicki M., Demeler B., Zechiedrich L., Szymczak P., DNA supercoiling-induced shapes alter minicircle hydrodynamic properties, Nucleic Acids Research, ISSN: 0305-1048, DOI: 10.1093/nar/gkad183, Vol.51, No.8, pp.4027-4042, 2023

Streszczenie:
DNA in cells is organized in negatively supercoiled loops. The resulting torsional and bending strain allows DNA to adopt a surprisingly wide variety of 3-D shapes. This interplay between negative supercoiling, looping, and shape influences how DNA is stored, replicated, transcribed, repaired, and likely every other aspect of DNA activity. To understand the consequences of negative supercoiling and curvature on the hydrodynamic properties of DNA, we submitted 336 bp and 672 bp DNA minicircles to analytical ultracentrifugation (AUC). We found that the diffusion coefficient, sedimentation coefficient, and the DNA hydrodynamic radius strongly depended on circularity, loop length, and degree of negative supercoiling. Because AUC cannot ascertain shape beyond degree of non-globularity, we applied linear elasticity theory to predict DNA shapes, and combined these with hydrodynamic calculations to interpret the AUC data, with reasonable agreement between theory and experiment. These complementary approaches, together with earlier electron cryotomography data, provide a framework for understanding and predicting the effects of supercoiling on the shape and hydrodynamic properties of DNA.

Afiliacje autorów:
Waszkiewicz R. - inna afiliacja
Ranasinghe M. - inna afiliacja
Fogg J. - inna afiliacja
Catanese Jr. Daniel J. - inna afiliacja
Ekiel-Jeżewska M.L. - IPPT PAN
Lisicki M. - inna afiliacja
Demeler B. - inna afiliacja
Zechiedrich L. - inna afiliacja
Szymczak P. - Uniwersytet Warszawski (PL)
200p.

Prace konferencyjne
1.  Waszkiewicz R., Lisicki M., Catanese D.J., Fogg J., Gruziel M., Ekiel-Jeżewska M.L., Demeler B., Zechiedrich E.L., Szymczak P., Shape and sedimentation coefficients of supercoiled DNA minicircles, BPS2021,Biophysical Society 65th Annual Meeting, DOI: 10.1016/j.bpj.2020.11.1482, Vol.120, No.3, pp.221a, 202120p.

Abstrakty konferencyjne
1.  Waszkiewicz R., Lisicki M., Catanese D.J., Fogg J., Gruziel-Słomka M., Ekiel-Jeżewska M.L., Demeler B., Ranasinghe M., Zechiedrich E.L., Szymczak P., Looped DNA: supercoiling dependent shape and hydrodynamics, Bulletin of the American Physical Society, ISSN: 0003-0503, Vol.66, pp.M11.10, 2021

Kategoria A Plus

IPPT PAN

logo ippt            ul. Pawińskiego 5B, 02-106 Warszawa
  +48 22 826 12 81 (centrala)
  +48 22 826 98 15
 

Znajdź nas

mapka
© Instytut Podstawowych Problemów Techniki Polskiej Akademii Nauk 2024