Literature DB >> 33951451

Towards a 'Spot On' Understanding of Transcription in the Nucleus.

Simona Patange1, David A Ball1, Tatiana S Karpova1, Daniel R Larson2.   

Abstract

Regulation of transcription by RNA Polymerase II (RNAPII) is a rapidly evolving area of research. Technological developments in microscopy have revealed insight into the dynamics, structure, and localization of transcription components within single cells. A frequent observation in many studies is the appearance of 'spots' in cell nuclei associated with the transcription process. In this review we highlight studies that characterize the temporal and spatial characteristics of these spots, examine possible pitfalls in interpreting these kind of imaging data, and outline directions where single-cell imaging may advance in ways to further our understanding of transcription regulation. Published by Elsevier Ltd.

Entities:  

Keywords:  fluorescence; microscopy; single-cell; splicing; transcription

Mesh：

Substances：

Year:  2021        PMID： 33951451      PMCID： PMC8184600          DOI： 10.1016/j.jmb.2021.167016

Source DB:  PubMed          Journal:  J Mol Biol        ISSN： 0022-2836            Impact factor:   6.151


  76 in total

1.  Real-time dynamics of RNA polymerase II clustering in live human cells.

Authors:  Ibrahim I Cisse; Ignacio Izeddin; Sebastien Z Causse; Lydia Boudarene; Adrien Senecal; Leila Muresan; Claire Dugast-Darzacq; Bassam Hajj; Maxime Dahan; Xavier Darzacq
Journal:  Science       Date:  2013-07-04       Impact factor: 47.728

Review 2.  A Phase Separation Model for Transcriptional Control.

Authors:  Denes Hnisz; Krishna Shrinivas; Richard A Young; Arup K Chakraborty; Phillip A Sharp
Journal:  Cell       Date:  2017-03-23       Impact factor: 41.582

3.  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

4.  MINFLUX nanoscopy delivers 3D multicolor nanometer resolution in cells.

Authors:  Klaus C Gwosch; Jasmin K Pape; Francisco Balzarotti; Philipp Hoess; Jan Ellenberg; Jonas Ries; Stefan W Hell
Journal:  Nat Methods       Date:  2020-01-13       Impact factor: 28.547

5.  Transcription Factors Activate Genes through the Phase-Separation Capacity of Their Activation Domains.

Authors:  Ann Boija; Isaac A Klein; Benjamin R Sabari; Alessandra Dall'Agnese; Eliot L Coffey; Alicia V Zamudio; Charles H Li; Krishna Shrinivas; John C Manteiga; Nancy M Hannett; Brian J Abraham; Lena K Afeyan; Yang E Guo; Jenna K Rimel; Charli B Fant; Jurian Schuijers; Tong Ihn Lee; Dylan J Taatjes; Richard A Young
Journal:  Cell       Date:  2018-11-15       Impact factor: 41.582

6.  Probing the target search of DNA-binding proteins in mammalian cells using TetR as model searcher.

Authors:  Davide Normanno; Lydia Boudarène; Claire Dugast-Darzacq; Jiji Chen; Christian Richter; Florence Proux; Olivier Bénichou; Raphaël Voituriez; Xavier Darzacq; Maxime Dahan
Journal:  Nat Commun       Date:  2015-07-07       Impact factor: 14.919

7.  Multivalency governs HP1α association dynamics with the silent chromatin state.

Authors:  Sinan Kilic; Andreas L Bachmann; Louise C Bryan; Beat Fierz
Journal:  Nat Commun       Date:  2015-06-18       Impact factor: 14.919

8.  Dense Bicoid hubs accentuate binding along the morphogen gradient.

Authors:  Mustafa Mir; Armando Reimer; Jenna E Haines; Xiao-Yong Li; Michael Stadler; Hernan Garcia; Michael B Eisen; Xavier Darzacq
Journal:  Genes Dev       Date:  2017-09-01       Impact factor: 11.361

9.  Single-molecule imaging correlates decreasing nuclear volume with increasing TF-chromatin associations during zebrafish development.

Authors:  Matthias Reisser; Anja Palmer; Achim P Popp; Christopher Jahn; Gilbert Weidinger; J Christof M Gebhardt
Journal:  Nat Commun       Date:  2018-12-06       Impact factor: 14.919
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  6 in total

1.  MYC amplifies gene expression through global changes in transcription factor dynamics.

Authors:  Simona Patange; David A Ball; Yihan Wan; Tatiana S Karpova; Michelle Girvan; David Levens; Daniel R Larson
Journal:  Cell Rep       Date:  2022-01-25       Impact factor: 9.423

Review 2.  The Mediator kinase module: an interface between cell signaling and transcription.

Authors:  Olivia Luyties; Dylan J Taatjes
Journal:  Trends Biochem Sci       Date:  2022-02-19       Impact factor: 13.807

Review 3.  Transcriptional enhancers at 40: evolution of a viral DNA element to nuclear architectural structures.

Authors:  Sreejith J Nair; Tom Suter; Susan Wang; Lu Yang; Feng Yang; Michael G Rosenfeld
Journal:  Trends Genet       Date:  2022-07-07       Impact factor: 11.821

Review 4.  Merging Established Mechanisms with New Insights: Condensates, Hubs, and the Regulation of RNA Polymerase II Transcription.

Authors:  Megan Palacio; Dylan J Taatjes
Journal:  J Mol Biol       Date:  2021-08-30       Impact factor: 5.469

Review 5.  Following the tracks: How transcription factor binding dynamics control transcription.

Authors:  Wim J de Jonge; Heta P Patel; Joseph V W Meeussen; Tineke L Lenstra
Journal:  Biophys J       Date:  2022-03-23       Impact factor: 3.699

Review 6.  The Mediator complex as a master regulator of transcription by RNA polymerase II.

Authors:  William F Richter; Shraddha Nayak; Janet Iwasa; Dylan J Taatjes
Journal:  Nat Rev Mol Cell Biol       Date:  2022-06-20       Impact factor: 113.915
  6 in total

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