群体合成遗传振荡器的同步。
Entrainment of a population of synthetic genetic oscillators.
机构信息
Department of Bioengineering, University of California, San Diego, La Jolla, CA 92093-0412, USA.
San Diego Center for Systems Biology, University of California, San Diego, La Jolla, CA 92093-0412, USA.
出版信息
Science. 2011 Sep 2;333(6047):1315-1319. doi: 10.1126/science.1205369.
Abstract
Biological clocks are self-sustained oscillators that adjust their phase to the daily environmental cycles in a process known as entrainment. Molecular dissection and mathematical modeling of biological oscillators have progressed quite far, but quantitative insights on the entrainment of clocks are relatively sparse. We simultaneously tracked the phases of hundreds of synthetic genetic oscillators relative to a common external stimulus to map the entrainment regions predicted by a detailed model of the clock. Synthetic oscillators were frequency-locked in wide intervals of the external period and showed higher-order resonance. Computational simulations indicated that natural oscillators may contain a positive-feedback loop to robustly adapt to environmental cycles.
摘要
生物钟是自我维持的振荡器，通过一个被称为“同步”的过程，使其相位适应每日的环境周期。生物钟的分子剖析和数学建模已经取得了相当大的进展，但对时钟同步的定量理解相对较少。我们同时跟踪了数百个合成遗传振荡器相对于共同外部刺激的相位，以绘制时钟详细模型预测的同步区域图。合成振荡器在外部周期的宽间隔内被锁定在频率上，并表现出高阶共振。计算模拟表明，天然振荡器可能包含正反馈回路，以稳健地适应环境周期。
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1
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Nature. 2011 Jan 13;469(7329):212-5. doi: 10.1038/nature09565. Epub 2010 Dec 8.
2
Coupling governs entrainment range of circadian clocks.耦合控制着生物钟的驯化范围。
Mol Syst Biol. 2010 Nov 30;6:438. doi: 10.1038/msb.2010.92.
3
Clocks not winding down: unravelling circadian networks.时钟不停：揭示生物钟网络。
Nat Rev Mol Cell Biol. 2010 Nov;11(11):764-76. doi: 10.1038/nrm2995.
4
Intra- and intercellular fluctuations in Min-protein dynamics decrease with cell length.细胞内和细胞间 Min 蛋白动力学的波动随细胞长度的增加而减少。
Proc Natl Acad Sci U S A. 2010 Apr 6;107(14):6134-9. doi: 10.1073/pnas.0911708107. Epub 2010 Mar 22.
5
The mammalian circadian timing system: organization and coordination of central and peripheral clocks.哺乳动物的生物钟计时系统：中枢和外周时钟的组织和协调。
Annu Rev Physiol. 2010;72:517-49. doi: 10.1146/annurev-physiol-021909-135821.
6
A synchronized quorum of genetic clocks.一个同步的遗传时钟多数派。
Nature. 2010 Jan 21;463(7279):326-30. doi: 10.1038/nature08753.
7
Synthetic biology: understanding biological design from synthetic circuits.合成生物学：从合成电路理解生物设计。
Nat Rev Genet. 2009 Dec;10(12):859-71. doi: 10.1038/nrg2697. Epub 2009 Nov 10.
8
A tunable synthetic mammalian oscillator.一种可调谐的合成哺乳动物振荡器。
Nature. 2009 Jan 15;457(7227):309-12. doi: 10.1038/nature07616.
9
A fast, robust and tunable synthetic gene oscillator.一种快速、稳健且可调节的合成基因振荡器。
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