化学自复制最小模型中的自我调节
Self-regulation in a minimal model of chemical self-replication.
作者信息
Lou Sylvia J, Peacock-López Enrique
机构信息
Department of Chemistry, Williams College, Williamstown, MA 01267 USA.
出版信息
J Biol Phys. 2012 Mar;38(2):349-64. doi: 10.1007/s10867-011-9252-6. Epub 2011 Dec 24.
Abstract
In biological systems, regulation plays an important role in keeping metabolite concentrations within physiological ranges. To study the dynamical implications of self-regulation, we consider a functional form used in genetic networks and couple it to a mechanism associated with chemical self-replication. For the two-variable minimal model, we find that activation can yield chemical toggles similar to those reported for gene repression in E. coli as well as more complex dynamics.
摘要
在生物系统中，调节在将代谢物浓度维持在生理范围内起着重要作用。为了研究自我调节的动力学影响，我们考虑了遗传网络中使用的一种函数形式，并将其与化学自我复制相关的机制相结合。对于双变量最小模型，我们发现激活可以产生类似于大肠杆菌中基因抑制所报道的化学开关以及更复杂的动力学。
相似文献
1
Self-regulation in a minimal model of chemical self-replication.化学自复制最小模型中的自我调节
J Biol Phys. 2012 Mar;38(2):349-64. doi: 10.1007/s10867-011-9252-6. Epub 2011 Dec 24.
2
Bistability and Bifurcation in Minimal Self-Replication and Nonenzymatic Catalytic Networks.最小自复制与非酶催化网络中的双稳性和分岔
Chemphyschem. 2017 Jul 5;18(13):1842-1850. doi: 10.1002/cphc.201601293. Epub 2017 Mar 21.
3
Macromolecular crowding: chemistry and physics meet biology (Ascona, Switzerland, 10-14 June 2012).大分子拥挤现象：化学与物理邂逅生物学（瑞士阿斯科纳，2012年6月10日至14日）
Phys Biol. 2013 Aug;10(4):040301. doi: 10.1088/1478-3975/10/4/040301. Epub 2013 Aug 2.
4
Determinants of bistability in induction of the Escherichia coli lac operon.大肠杆菌乳糖操纵子诱导中双稳态的决定因素。
IET Syst Biol. 2008 Sep;2(5):293-303. doi: 10.1049/iet-syb:20080095.
5
Coupling oscillations and switches in genetic networks.基因网络中的耦合振荡与开关
Biosystems. 2010 Jan;99(1):60-9. doi: 10.1016/j.biosystems.2009.08.009. Epub 2009 Sep 6.
6
Modeling genetic networks and their evolution: a complex dynamical systems perspective.建模遗传网络及其进化：复杂动力系统视角
Biol Chem. 2001 Sep;382(9):1289-99. doi: 10.1515/BC.2001.161.
7
Determining the bistability parameter ranges of artificially induced lac operon using the root locus method.使用根轨迹法确定人工诱导型乳糖操纵子的双稳性参数范围。
Comput Biol Med. 2015 Jun;61:75-91. doi: 10.1016/j.compbiomed.2015.03.009. Epub 2015 Mar 24.
8
Boolean models can explain bistability in the lac operon.布尔模型可以解释乳糖操纵子中的双稳态。
J Comput Biol. 2011 Jun;18(6):783-94. doi: 10.1089/cmb.2011.0031. Epub 2011 May 12.
9
Microscopic mechanism for self-organized quasiperiodicity in random networks of nonlinear oscillators.
Phys Rev E Stat Nonlin Soft Matter Phys. 2014 Oct;90(4):042918. doi: 10.1103/PhysRevE.90.042918. Epub 2014 Oct 20.
10
Robust dynamical pattern formation from a multifunctional minimal genetic circuit.基于多功能最小遗传回路的稳健动态模式形成
BMC Syst Biol. 2010 Apr 22;4:48. doi: 10.1186/1752-0509-4-48.
本文引用的文献
1
Transcriptional bursting from the HIV-1 promoter is a significant source of stochastic noise in HIV-1 gene expression.HIV-1 启动子的转录爆发是 HIV-1 基因表达中随机噪声的重要来源。
Biophys J. 2010 Apr 21;98(8):L32-4. doi: 10.1016/j.bpj.2010.03.001.
2
Simple, realistic models of complex biological processes: positive feedback and bistability in a cell fate switch and a cell cycle oscillator.简单、现实的复杂生物过程模型：细胞命运转换和细胞周期振荡器中的正反馈和双稳态。
FEBS Lett. 2009 Dec 17;583(24):3999-4005. doi: 10.1016/j.febslet.2009.10.068.
3
Environmentally-modulated changes in fluorescence distribution in cells with oscillatory genetic network dynamics.具有振荡遗传网络动力学的细胞中荧光分布的环境调节变化。
J Biotechnol. 2009 Mar 25;140(3-4):203-17. doi: 10.1016/j.jbiotec.2009.01.011. Epub 2009 Jan 31.
4
The mean frequency of transcriptional bursting and its variation in single cells.转录爆发的平均频率及其在单细胞中的变化。
J Math Biol. 2010 Jan;60(1):27-58. doi: 10.1007/s00285-009-0258-7. Epub 2009 Mar 10.
5
Self-sustained replication of an RNA enzyme.一种RNA酶的自我维持复制
Science. 2009 Feb 27;323(5918):1229-32. doi: 10.1126/science.1167856. Epub 2009 Jan 8.
6
Small-scale copy number variation and large-scale changes in gene expression.小规模拷贝数变异与基因表达的大规模变化。
Proc Natl Acad Sci U S A. 2008 Oct 28;105(43):16659-64. doi: 10.1073/pnas.0806239105. Epub 2008 Oct 22.
7
Reconstruction of transcription-translation dynamics with a model of gene networks.用基因网络模型重建转录-翻译动力学
J Theor Biol. 2008 Dec 21;255(4):378-86. doi: 10.1016/j.jtbi.2008.09.006. Epub 2008 Sep 18.
8
Sustained oscillations in extended genetic oscillatory systems.扩展基因振荡系统中的持续振荡。
Biophys J. 2008 Jun;94(11):4270-6. doi: 10.1529/biophysj.107.128017. Epub 2008 Mar 7.
9
Effects of molecular memory and bursting on fluctuations in gene expression.分子记忆和爆发对基因表达波动的影响。
Science. 2008 Jan 18;319(5861):339-43. doi: 10.1126/science.1144331.
10
Bifurcation diagrams and Turing patterns in a chemical self-replicating reaction-diffusion system with cross diffusion.具有交叉扩散的化学自复制反应扩散系统中的分岔图和图灵模式
J Chem Phys. 2007 Nov 7;127(17):174903. doi: 10.1063/1.2784554.
Zotero 插件