Repulsive expansion dynamics in colony growth and gene expression.
Repulsive expansion dynamics in colony growth and gene expression.
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群体生长和基因表达中的排斥性扩张动力学。
DOI：
10.1371/journal.pcbi.1008168
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发表时间：
2021-03
影响因子：
4.3
通讯作者：
You L
中科院分区：
文献类型：
--
作者：
Cao Y;Neu J;Blanchard AE;Lu T;You L
微生物、植物细胞和哺乳动物细胞的生长可以引起细胞种群的空间扩张。它是正常或功能失调的组织发育的基础，可以作为规划空间模式的基础。这种扩张通常是由菌落内细胞的持续生长和分裂推动的，这反过来又将外围细胞向外推。这一过程在群体内的每个位置产生了排斥速度场。在这里，我们表明，这个过程可以近似为粗晶排斥膨胀动力学。这一框架能够准确和有效地模拟具有均匀z向分布的径向对称菌落中的生长和基因表达动态。即使细胞不是球形的并且大小不同，它也是健壮的。由此产生的数学框架的简单性也极大地促进了机械洞察力的产生。时空动力学在生物学中是普遍存在的。要理解自然界中的这些现象或使用合成基因电路对它们进行编程，关键是要求助于数学建模来推导机械洞察力或探索似乎合理的结果。从历史上看，时空动力学的建模依赖于基于主体的模型或由偏微分方程组成的连续介质模型的使用。在这里，我们证明了一类菌落扩张可以被看作是由生长和潜水细胞产生的空间力驱动的。这种近似导致了一个仅由常微分方程式组成的极大简化的框架。该框架极大地提高了计算效率，并促进了对菌落生长和模式形成动力学的机械性见解的发展。
Spatial expansion of a population of cells can arise from growth of microorganisms, plant cells, and mammalian cells. It underlies normal or dysfunctional tissue development, and it can be exploited as the foundation for programming spatial patterns. This expansion is often driven by continuous growth and division of cells within a colony, which in turn pushes the peripheral cells outward. This process generates a repulsion velocity field at each location within the colony. Here we show that this process can be approximated as coarse-grained repulsive-expansion kinetics. This framework enables accurate and efficient simulation of growth and gene expression dynamics in radially symmetric colonies with homogenous z-directional distribution. It is robust even if cells are not spherical and vary in size. The simplicity of the resulting mathematical framework also greatly facilitates generation of mechanistic insights. Spatiotemporal dynamics are ubiquitous in biology. To understand these phenomena in nature or to program them using synthetic gene circuits, it is critical to resort to mathematical modeling to deduce mechanistic insights or to explore plausible outcomes. Historically, modeling of spatiotemporal dynamics depends on the use of agent-based models or their continuum counterparts consisting of partial differential equations. Here, we show that a class of colony expansion can be treated as being driven by the steric force generated by growing and diving cells. This approximation leads to a drastically simplified framework consisting of only ordinary differential equations. This framework greatly improves the computational efficiency and facilitates development of mechanistic insights into the dynamics of colony growth and pattern formation.
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影响因子：
4.7
作者：
Katira P;Bonnecaze RT;Zaman MH
通讯作者：
Zaman MH
集体空间感应在工程细菌中协调图案缩放。
影响因子：
64.5
作者：
Cao Y;Ryser MD;Payne S;Li B;Rao CV;You L
通讯作者：
You L
影响因子：
1.9
作者：
Byrne, HM
通讯作者：
Byrne, HM
DOI：
10.1126/science.1171643
发表时间：
2009-06-26
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Discher DE;Mooney DJ;Zandstra PW
通讯作者：
Zandstra PW
影响因子：
--
作者：
Blanchard AE;Lu T
通讯作者：
Lu T