Anomalous diffusion, spatial coherence, and viscoelasticity from the energy landscape of human chromosomes

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dc.citation.firstpage7753en_US
dc.citation.issueNumber30en_US
dc.citation.journalTitlePNASen_US
dc.citation.lastpage7758en_US
dc.citation.volumeNumber115en_US
dc.contributor.authorDi Pierro, Micheleen_US
dc.contributor.authorPotoyan, Davit A.en_US
dc.contributor.authorWolynes, Peter G.en_US
dc.contributor.authorOnuchic, José Nelsonen_US
dc.date.accessioned2018-11-01T14:28:09Zen_US
dc.date.available2018-11-01T14:28:09Zen_US
dc.date.issued2018en_US
dc.description.abstractThe nucleus of a eukaryotic cell is a nonequilibrium system where chromatin is subjected to active processes that continuously rearrange it over the cell's life cycle. Tracking the motion of chromosomal loci provides information about the organization of the genome and the physical processes shaping that organization. Optical experiments report that loci move with subdiffusive dynamics and that there is spatially coherent motion of the chromatin. We recently showed that it is possible to predict the 3D architecture of genomes through a physical model for chromosomes that accounts for the biochemical interactions mediated by proteins and regulated by epigenetic markers through a transferable energy landscape. Here, we study the temporal dynamics generated by this quasi-equilibrium energy landscape assuming Langevin dynamics at an effective temperature. Using molecular dynamics simulations of two interacting human chromosomes, we show that the very same interactions that account for genome architecture naturally reproduce the spatial coherence, viscoelasticity, and the subdiffusive behavior of the motion in interphase chromosomes as observed in numerous experiments. The agreement between theory and experiments suggests that even if active processes are involved, an effective quasi-equilibrium landscape model can largely mimic their dynamical effects.en_US
dc.identifier.citationDi Pierro, Michele, Potoyan, Davit A., Wolynes, Peter G., et al.. "Anomalous diffusion, spatial coherence, and viscoelasticity from the energy landscape of human chromosomes." <i>PNAS,</i> 115, no. 30 (2018) National Academy of Sciences of the United States of America: 7753-7758. https://doi.org/10.1073/pnas.1806297115.en_US
dc.identifier.digitalAnomalous-diffusionen_US
dc.identifier.doihttps://doi.org/10.1073/pnas.1806297115en_US
dc.identifier.urihttps://hdl.handle.net/1911/103261en_US
dc.language.isoengen_US
dc.publisherNational Academy of Sciences of the United States of Americaen_US
dc.rightsThis open access article is distributed under Creative Commons Attribution-NonCommercial-NoDerivatives License 4.0 (CC BY-NC-ND).en_US
dc.rights.urihttps://creativecommons.org/licenses/by-nc-nd/4.0/en_US
dc.subject.keywordanomalous diffusionen_US
dc.subject.keywordchromatin dynamicsen_US
dc.subject.keyworddynamically associated domainsen_US
dc.subject.keywordgenome architectureen_US
dc.subject.keywordphase separationen_US
dc.titleAnomalous diffusion, spatial coherence, and viscoelasticity from the energy landscape of human chromosomesen_US
dc.typeJournal articleen_US
dc.type.dcmiTexten_US
dc.type.publicationpublisher versionen_US
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