Systems Biology Lab, AIMMS, VU University, Amsterdam, The Netherlands.
FEBS J. 2022 Aug;289(16):4925-4934. doi: 10.1111/febs.16401. Epub 2022 Mar 17.
Fitness-enhancing adaptations of protein expression and its regulation are an important aspect of bacterial evolution. A key question is whether evolution has led to optimal protein expression that maximizes immediate growth rate (short-term fitness) in a robust manner (consistently across diverse conditions). Alternatively, they could display suboptimal short-term fitness, because they cannot do better or because they instead strive for long-term fitness maximization by, for instance, preparing for future conditions. To address this question, we focus on the ATP-producing enzyme F F H -ATPase, which is an abundant enzyme and ubiquitously expressed across conditions. Its expression is highly regulated and dependent on growth rate and nutrient conditions. For instance, during growth on sugars, when metabolism is overflowing acetate, glycolysis supplies most ATP, while H -ATPase is the main source of ATP synthesis during growth on acetate. We tested the optimality of H -ATPase expression in Escherichia coli across different nutrient conditions. In all tested conditions, wild-type E. coli expresses its H -ATPase remarkably close (within a few per cent) to optimal concentrations that maximize immediate growth rate. This work indicates that bacteria can indeed achieve robust optimal protein expression for immediate growth-rate maximization.
蛋白质表达及其调控的适应性增强是细菌进化的一个重要方面。一个关键问题是,进化是否导致了蛋白质表达的最佳化,以稳健的方式(在不同条件下保持一致)最大化即时增长率(短期适应性)。或者,它们可能表现出次优的短期适应性,因为它们无法做得更好,或者因为它们转而通过例如为未来的条件做准备来追求长期适应性最大化。为了解决这个问题,我们关注产生 ATP 的酶 FF H -ATPase,它是一种丰富的酶,在各种条件下广泛表达。它的表达受到高度调控,依赖于生长速率和营养条件。例如,在糖上生长时,当代谢溢出乙酸盐时,糖酵解供应大部分 ATP,而在乙酸盐上生长时,H -ATPase 是 ATP 合成的主要来源。我们测试了不同营养条件下大肠杆菌中 H -ATPase 表达的最优性。在所有测试的条件下,野生型大肠杆菌的 H -ATPase 表达非常接近(在几个百分点内)最佳浓度,以最大化即时生长速率。这项工作表明,细菌确实可以实现稳健的最佳蛋白质表达,以最大化即时生长速率。