缓慢生长的大肠杆菌细胞大小调节机制:加法器之外的判别模型。

IF 3.5 2区 生物学 Q1 MATHEMATICAL & COMPUTATIONAL BIOLOGY
César Nieto, César Augusto Vargas-García, Juan Manuel Pedraza, Abhyudai Singh
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引用次数: 0

摘要

在理想条件下,大肠杆菌细胞在增加固定的细胞大小后进行分裂,这种策略被称为加数分裂。这一概念适用于各种微生物,通常被解释为经过一定阶段后发生的分裂,与前体蛋白的积累速度与细胞大小成正比。然而,在贫瘠的培养基条件下,大肠杆菌细胞表现出不同的大小调节。它们的体积更小,并遵循类似于分化器的分裂策略,即增加的体积与出生时的体积成反比。我们探讨了造成这种偏差的三个潜在原因:前体蛋白的降解和两种积累倾向取决于细胞大小的模型:非线性积累率和从称为承诺大小的临界大小开始的积累。这些模型符合平均趋势,但预测的出生大小分布不同。为了量化模型解释数据的精确度,我们使用了阿凯克信息准则,并将它们与不同培养基中缓慢生长的大肠杆菌细胞的公开数据集进行了比较。我们发现,没有一个模型能单独解释数据。然而,降解模型能更好地解释细胞较大时的分裂策略,而与大小相关的模型(幂律模型和承诺大小模型)则能解释较小细胞的分裂策略。我们的方法提出了一种基于数据的方法,可以对不同的机制进行系统测试。
本文章由计算机程序翻译,如有差异,请以英文原文为准。

Mechanisms of cell size regulation in slow-growing Escherichia coli cells: discriminating models beyond the adder.

Mechanisms of cell size regulation in slow-growing Escherichia coli cells: discriminating models beyond the adder.

Under ideal conditions, Escherichia coli cells divide after adding a fixed cell size, a strategy known as the adder. This concept applies to various microbes and is often explained as the division that occurs after a certain number of stages, associated with the accumulation of precursor proteins at a rate proportional to cell size. However, under poor media conditions, E. coli cells exhibit a different size regulation. They are smaller and follow a sizer-like division strategy where the added size is inversely proportional to the size at birth. We explore three potential causes for this deviation: degradation of the precursor protein and two models where the propensity for accumulation depends on the cell size: a nonlinear accumulation rate, and accumulation starting at a threshold size termed the commitment size. These models fit the mean trends but predict different distributions given the birth size. To quantify the precision of the models to explain the data, we used the Akaike information criterion and compared them to open datasets of slow-growing E. coli cells in different media. We found that none of the models alone can consistently explain the data. However, the degradation model better explains the division strategy when cells are larger, whereas size-related models (power-law and commitment size) account for smaller cells. Our methodology proposes a data-based method in which different mechanisms can be tested systematically.

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来源期刊
NPJ Systems Biology and Applications
NPJ Systems Biology and Applications Mathematics-Applied Mathematics
CiteScore
5.80
自引率
0.00%
发文量
46
审稿时长
8 weeks
期刊介绍: npj Systems Biology and Applications is an online Open Access journal dedicated to publishing the premier research that takes a systems-oriented approach. The journal aims to provide a forum for the presentation of articles that help define this nascent field, as well as those that apply the advances to wider fields. We encourage studies that integrate, or aid the integration of, data, analyses and insight from molecules to organisms and broader systems. Important areas of interest include not only fundamental biological systems and drug discovery, but also applications to health, medical practice and implementation, big data, biotechnology, food science, human behaviour, broader biological systems and industrial applications of systems biology. We encourage all approaches, including network biology, application of control theory to biological systems, computational modelling and analysis, comprehensive and/or high-content measurements, theoretical, analytical and computational studies of system-level properties of biological systems and computational/software/data platforms enabling such studies.
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