Literature DB >> 24311681

Functional roles of pulsing in genetic circuits.

Joe H Levine1, Yihan Lin, Michael B Elowitz.   

Abstract

A fundamental problem in biology is to understand how genetic circuits implement core cellular functions. Time-lapse microscopy techniques are beginning to provide a direct view of circuit dynamics in individual living cells. Unexpectedly, we are discovering that key transcription and regulatory factors pulse on and off repeatedly, and often stochastically, even when cells are maintained in constant conditions. This type of spontaneous dynamic behavior is pervasive, appearing in diverse cell types from microbes to mammalian cells. Here, we review recent work showing how pulsing is generated and controlled by underlying regulatory circuits and how it provides critical capabilities to cells in stress response, signaling, and development. A major theme is the ability of pulsing to enable time-based regulation analogous to strategies used in engineered systems. Thus, pulsatile dynamics is emerging as a central, and still largely unexplored, layer of temporal organization in the cell.

Entities:  

Mesh:

Year:  2013        PMID: 24311681      PMCID: PMC4100686          DOI: 10.1126/science.1239999

Source DB:  PubMed          Journal:  Science        ISSN: 0036-8075            Impact factor:   47.728


  45 in total

1.  Logic of the yeast metabolic cycle: temporal compartmentalization of cellular processes.

Authors:  Benjamin P Tu; Andrzej Kudlicki; Maga Rowicka; Steven L McKnight
Journal:  Science       Date:  2005-10-27       Impact factor: 47.728

Review 2.  Persister cells, dormancy and infectious disease.

Authors:  Kim Lewis
Journal:  Nat Rev Microbiol       Date:  2006-12-04       Impact factor: 60.633

3.  Stochastic switching as a survival strategy in fluctuating environments.

Authors:  Murat Acar; Jerome T Mettetal; Alexander van Oudenaarden
Journal:  Nat Genet       Date:  2008-03-23       Impact factor: 38.330

4.  Recurrent initiation: a mechanism for triggering p53 pulses in response to DNA damage.

Authors:  Eric Batchelor; Caroline S Mock; Irun Bhan; Alexander Loewer; Galit Lahav
Journal:  Mol Cell       Date:  2008-05-09       Impact factor: 17.970

5.  Synaptic modifications in cultured hippocampal neurons: dependence on spike timing, synaptic strength, and postsynaptic cell type.

Authors:  G Q Bi; M M Poo
Journal:  J Neurosci       Date:  1998-12-15       Impact factor: 6.167

6.  Clonal analysis of oligodendrocyte development in culture: evidence for a developmental clock that counts cell divisions.

Authors:  S Temple; M C Raff
Journal:  Cell       Date:  1986-03-14       Impact factor: 41.582

7.  Encoding NF-kappaB temporal control in response to TNF: distinct roles for the negative regulators IkappaBalpha and A20.

Authors:  Shannon L Werner; Jeffrey D Kearns; Victoria Zadorozhnaya; Candace Lynch; Ellen O'Dea; Mark P Boldin; Averil Ma; David Baltimore; Alexander Hoffmann
Journal:  Genes Dev       Date:  2008-08-01       Impact factor: 11.361

8.  Robust, tunable biological oscillations from interlinked positive and negative feedback loops.

Authors:  Tony Yu-Chen Tsai; Yoon Sup Choi; Wenzhe Ma; Joseph R Pomerening; Chao Tang; James E Ferrell
Journal:  Science       Date:  2008-07-04       Impact factor: 47.728

9.  Oscillations in notch signaling regulate maintenance of neural progenitors.

Authors:  Hiromi Shimojo; Toshiyuki Ohtsuka; Ryoichiro Kageyama
Journal:  Neuron       Date:  2008-04-10       Impact factor: 17.173

10.  Frequency-modulated nuclear localization bursts coordinate gene regulation.

Authors:  Long Cai; Chiraj K Dalal; Michael B Elowitz
Journal:  Nature       Date:  2008-09-25       Impact factor: 49.962

View more
  161 in total

Review 1.  Molecular regulation of effector and memory T cell differentiation.

Authors:  John T Chang; E John Wherry; Ananda W Goldrath
Journal:  Nat Immunol       Date:  2014-12       Impact factor: 25.606

2.  Isolating live cells after high-throughput, long-term, time-lapse microscopy.

Authors:  Scott Luro; Laurent Potvin-Trottier; Burak Okumus; Johan Paulsson
Journal:  Nat Methods       Date:  2019-11-25       Impact factor: 28.547

3.  Encoding Growth Factor Identity in the Temporal Dynamics of FOXO3 under the Combinatorial Control of ERK and AKT Kinases.

Authors:  Somponnat Sampattavanich; Bernhard Steiert; Bernhard A Kramer; Benjamin M Gyori; John G Albeck; Peter K Sorger
Journal:  Cell Syst       Date:  2018-06-06       Impact factor: 10.304

4.  Transcriptional Bursting and Co-bursting Regulation by Steroid Hormone Release Pattern and Transcription Factor Mobility.

Authors:  Diana A Stavreva; David A Garcia; Gregory Fettweis; Prabhakar R Gudla; George F Zaki; Vikas Soni; Andrew McGowan; Geneva Williams; Anh Huynh; Murali Palangat; R Louis Schiltz; Thomas A Johnson; Diego M Presman; Matthew L Ferguson; Gianluca Pegoraro; Arpita Upadhyaya; Gordon L Hager
Journal:  Mol Cell       Date:  2019-08-14       Impact factor: 17.970

5.  High-throughput microfluidics to control and measure signaling dynamics in single yeast cells.

Authors:  Anders S Hansen; Nan Hao; Erin K O'Shea
Journal:  Nat Protoc       Date:  2015-07-09       Impact factor: 13.491

6.  A noisy linear map underlies oscillations in cell size and gene expression in bacteria.

Authors:  Yu Tanouchi; Anand Pai; Heungwon Park; Shuqiang Huang; Rumen Stamatov; Nicolas E Buchler; Lingchong You
Journal:  Nature       Date:  2015-06-03       Impact factor: 49.962

Review 7.  Computational analysis of signaling patterns in single cells.

Authors:  Denise M Davis; Jeremy E Purvis
Journal:  Semin Cell Dev Biol       Date:  2014-09-26       Impact factor: 7.727

8.  Single-cell analyses reveal an attenuated NF-κB response in the Salmonella-infected fibroblast.

Authors:  Estel Ramos-Marquès; Samuel Zambrano; Alberto Tiérrez; Marco E Bianchi; Alessandra Agresti; Francisco García-Del Portillo
Journal:  Virulence       Date:  2016-08-30       Impact factor: 5.882

Review 9.  Single cell protein analysis for systems biology.

Authors:  Ezra Levy; Nikolai Slavov
Journal:  Essays Biochem       Date:  2018-10-26       Impact factor: 8.000

10.  Network Topologies That Can Achieve Dual Function of Adaptation and Noise Attenuation.

Authors:  Lingxia Qiao; Wei Zhao; Chao Tang; Qing Nie; Lei Zhang
Journal:  Cell Syst       Date:  2019-09-18       Impact factor: 10.304

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.