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Zhang, Q; Li, R; Li, JB; Shi, HL
Optimal Allocation of Bacterial Protein Resources under Nonlethal Protein Maturation Stress
发表期刊BIOPHYSICAL JOURNAL
语种英语
关键词ESCHERICHIA-COLI PROTEOME SIGMA-FACTOR COMPETITION GENE-EXPRESSION RNA-POLYMERASE OXIDATIVE STRESS GROWTH-INHIBITION CELL-GROWTH TRANSLATION RATES OVERPRODUCTION
摘要Under different environmental stresses, bacteria optimize the allocation of cellular resources through a variety of mechanisms. Recently, researchers have used phenomenological models to quantitatively characterize the allocation of bacterial protein resources under metabolic and translational limitations. Some stresses interfere with protein maturation, thereby enhancing the expression of chaperones and proteases. However, the reallocation of protein resources caused by such environmental stresses has not been modeled quantitatively. Here, we developed a dynamic model of coarse-grained protein resource fluxes based on a self-replicator that includes protein maturation and degradation. Through flux balance analysis, it produces a constrained optimization problem that can be solved analytically. Accordingly, we predicted protein allocation fractions as functions of growth rate under different limitations, which are basically in line with empirical data. We cultured Escherichia coli in media containing different concentrations of chloramphenicol, acetic acid, and paraquat and measured the functional relationship between the expression level of beta-galactosidase driven by a constitutive promoter and the bacterial growth rate, respectively. Taking into account the possible mode of stress limitation on the fluxes, our model reproduces this experimentally measured relationship. In addition, our model is in good agreement with the experimental relationship between growth rate and proteome fraction of unnecessary protein in E. coli, considering the unoptimized upregulation of chaperones with useless protein overexpression. The results provide a more systematic view of bacterial stress adaptation that may help in designing for bioengineering or medical interventions.
2018
ISSN0006-3495
卷号115期号:5页码:896-910
学科领域Biophysics
学科门类Biophysics
DOI10.1016/j.bpj.2018.07.021
收录类别SCIE
引用统计
文献类型期刊论文
条目标识符http://ir.itp.ac.cn/handle/311006/22826
专题理论物理所科研产出_SCI论文
作者单位1.Chinese Acad Sci, Inst Theoret Phys, Key Lab Theoret Phys, Beijing, Peoples R China
2.Chinese Acad Sci, Inst Chem, Beijing, Peoples R China
3.Univ Chinese Acad Sci, Sch Phys Sci, Beijing, Peoples R China
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GB/T 7714
Zhang, Q,Li, R,Li, JB,et al. Optimal Allocation of Bacterial Protein Resources under Nonlethal Protein Maturation Stress[J]. BIOPHYSICAL JOURNAL,2018,115(5):896-910.
APA Zhang, Q,Li, R,Li, JB,&Shi, HL.(2018).Optimal Allocation of Bacterial Protein Resources under Nonlethal Protein Maturation Stress.BIOPHYSICAL JOURNAL,115(5),896-910.
MLA Zhang, Q,et al."Optimal Allocation of Bacterial Protein Resources under Nonlethal Protein Maturation Stress".BIOPHYSICAL JOURNAL 115.5(2018):896-910.
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