Literature DB >> 27145880

Transcription Dynamics in Living Cells.

Tineke L Lenstra1, Joseph Rodriguez1, Huimin Chen1, Daniel R Larson1.   

Abstract

The transcription cycle can be roughly divided into three stages: initiation, elongation, and termination. Understanding the molecular events that regulate all these stages requires a dynamic view of the underlying processes. The development of techniques to visualize and quantify transcription in single living cells has been essential in revealing the transcription kinetics. They have revealed that (a) transcription is heterogeneous between cells and (b) transcription can be discontinuous within a cell. In this review, we discuss the progress in our quantitative understanding of transcription dynamics in living cells, focusing on all parts of the transcription cycle. We present the techniques allowing for single-cell transcription measurements, review evidence from different organisms, and discuss how these experiments have broadened our mechanistic understanding of transcription regulation.

Entities:  

Keywords:  bursting; fluorescence; heterogeneity; imaging; kinetics; single-cell; single-molecule

Mesh:

Substances:

Year:  2016        PMID: 27145880      PMCID: PMC6300980          DOI: 10.1146/annurev-biophys-062215-010838

Source DB:  PubMed          Journal:  Annu Rev Biophys        ISSN: 1936-122X            Impact factor:   12.981


  48 in total

Review 1.  Chromatin loops and causality loops: the influence of RNA upon spatial nuclear architecture.

Authors:  Iain A Sawyer; Miroslav Dundr
Journal:  Chromosoma       Date:  2017-06-07       Impact factor: 4.316

2.  Promoter-mediated diversification of transcriptional bursting dynamics following gene duplication.

Authors:  Edward Tunnacliffe; Adam M Corrigan; Jonathan R Chubb
Journal:  Proc Natl Acad Sci U S A       Date:  2018-07-30       Impact factor: 11.205

3.  Statistics of Nascent and Mature RNA Fluctuations in a Stochastic Model of Transcriptional Initiation, Elongation, Pausing, and Termination.

Authors:  Tatiana Filatova; Nikola Popovic; Ramon Grima
Journal:  Bull Math Biol       Date:  2020-12-22       Impact factor: 1.758

4.  The Long Noncoding RNA Pnky Is a Trans-acting Regulator of Cortical Development In Vivo.

Authors:  Rebecca E Andersen; Sung Jun Hong; Justin J Lim; Miao Cui; Brock A Harpur; Elizabeth Hwang; Ryan N Delgado; Alexander D Ramos; Siyuan John Liu; Benjamin J Blencowe; Daniel A Lim
Journal:  Dev Cell       Date:  2019-05-20       Impact factor: 12.270

5.  Quantitative imaging of RNA polymerase II activity in plants reveals the single-cell basis of tissue-wide transcriptional dynamics.

Authors:  Simon Alamos; Armando Reimer; Krishna K Niyogi; Hernan G Garcia
Journal:  Nat Plants       Date:  2021-08-09       Impact factor: 15.793

Review 6.  Molecular basis and biological function of variability in spatial genome organization.

Authors:  Elizabeth H Finn; Tom Misteli
Journal:  Science       Date:  2019-09-06       Impact factor: 47.728

7.  Stochastic dynamics of genetic broadcasting networks.

Authors:  Davit A Potoyan; Peter G Wolynes
Journal:  Phys Rev E       Date:  2017-11-03       Impact factor: 2.529

8.  Intrinsic Dynamics of a Human Gene Reveal the Basis of Expression Heterogeneity.

Authors:  Joseph Rodriguez; Gang Ren; Christopher R Day; Keji Zhao; Carson C Chow; Daniel R Larson
Journal:  Cell       Date:  2018-12-13       Impact factor: 41.582

9.  Dynamic Crowding Regulates Transcription.

Authors:  Anne R Shim; Rikkert J Nap; Kai Huang; Luay M Almassalha; Hiroaki Matusda; Vadim Backman; Igal Szleifer
Journal:  Biophys J       Date:  2019-11-15       Impact factor: 4.033

10.  A Mechanochemical Model of Transcriptional Bursting.

Authors:  Alena Klindziuk; Billie Meadowcroft; Anatoly B Kolomeisky
Journal:  Biophys J       Date:  2020-01-28       Impact factor: 4.033

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