大肠杆菌群体分裂次数与非功能蛋白分配方案的计算机分析。

Q2 Medicine
Abhishekh Gupta, Jason Lloyd-Price, Andre S Ribeiro
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引用次数: 6

摘要

最近的证据表明,细胞在分裂中采用功能不对称的分配方案来应对衰老。我们利用大肠杆菌的随机模型探索了多种方案,包括基因表达、非功能性蛋白质生成、聚集和极性保留以及分裂过程中的分子分配。该模型是在SGNS2中实现的,它允许在分层的、瞬态的、相互连接的隔间内随机的、多延迟的反应。在设置了非功能蛋白的生成参数值和再现现实细胞内和群体动态的影响后,我们研究了非功能蛋白的空间组织如何影响谱系中细胞群体的平均分裂时间,从而影响细胞数量随时间的平均数量。我们发现,随着非对称划分的增加,除法次数会减少。此外,增加非功能蛋白的聚类可以减少分裂次数。增加极性偏析的偏压会进一步减少分裂次数,特别是当偏压倾向于较老的极点并且聚合体的极性保持较强时。最后,我们表明,通过类核闭塞,遗传的非功能蛋白质在老极的非能量消耗保留是功能不对称的一个来源,因此,是有利的。我们的研究结果表明,非功能蛋白的细胞内组织机制,包括聚类和极性保留,影响了大肠杆菌群体的活力。
本文章由计算机程序翻译,如有差异,请以英文原文为准。

In silico analysis of division times of Escherichia coli populations as a function of the partitioning scheme of non-functional proteins.

In silico analysis of division times of Escherichia coli populations as a function of the partitioning scheme of non-functional proteins.

In silico analysis of division times of Escherichia coli populations as a function of the partitioning scheme of non-functional proteins.

In silico analysis of division times of Escherichia coli populations as a function of the partitioning scheme of non-functional proteins.

Recent evidence suggests that cells employ functionally asymmetric partitioning schemes in division to cope with aging. We explore various schemes in silico, with a stochastic model of Escherichia coli that includes gene expression, non-functional proteins generation, aggregation and polar retention, and molecule partitioning in division. The model is implemented in SGNS2, which allows stochastic, multi-delayed reactions within hierarchical, transient, interlinked compartments. After setting parameter values of non-functional proteins' generation and effects that reproduce realistic intracellular and population dynamics, we investigate how the spatial organization of non-functional proteins affects mean division times of cell populations in lineages and, thus, mean cell numbers over time. We find that division times decrease for increasingly asymmetric partitioning. Also, increasing the clustering of non-functional proteins decreases division times. Increasing the bias in polar segregation further decreases division times, particularly if the bias favors the older pole and aggregates' polar retention is robust. Finally, we show that the non-energy consuming retention of inherited non-functional proteins at the older pole via nucleoid occlusion is a source of functional asymmetries and, thus, is advantageous. Our results suggest that the mechanisms of intracellular organization of non-functional proteins, including clustering and polar retention, affect the vitality of E. coli populations.

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来源期刊
In Silico Biology
In Silico Biology Computer Science-Computational Theory and Mathematics
CiteScore
2.20
自引率
0.00%
发文量
1
期刊介绍: The considerable "algorithmic complexity" of biological systems requires a huge amount of detailed information for their complete description. Although far from being complete, the overwhelming quantity of small pieces of information gathered for all kind of biological systems at the molecular and cellular level requires computational tools to be adequately stored and interpreted. Interpretation of data means to abstract them as much as allowed to provide a systematic, an integrative view of biology. Most of the presently available scientific journals focus either on accumulating more data from elaborate experimental approaches, or on presenting new algorithms for the interpretation of these data. Both approaches are meritorious.
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