Macroscopic kinetic effect of cell-to-cell variation in biochemical reactions.

Genetically identical cells under the same environmental conditions can show strong variations in protein copy numbers due to inherently stochastic events in individual cells. We here develop a theoretical framework to address how variations in enzyme abundance affect the collective kinetics of metabolic reactions observed within a population of cells. Kinetic parameters measured at the cell population level are shown to be systematically deviated from those of single cells, even within populations of homogeneous parameters. Because of these considerations, Michaelis-Menten kinetics can even be inappropriate to apply at the population level. Our findings elucidate a novel origin of discrepancy between in vivo and in vitro kinetics, and offer potential utility for analysis of single-cell metabolomic data.

[1]  E. O’Shea,et al.  Noise in protein expression scales with natural protein abundance , 2006, Nature Genetics.

[2]  C-M Ghim,et al.  Two-component genetic switch as a synthetic module with tunable stability. , 2009, Physical review letters.

[3]  A. Oudenaarden,et al.  Nature, Nurture, or Chance: Stochastic Gene Expression and Its Consequences , 2008, Cell.

[4]  Kunihiko Kaneko,et al.  Ubiquity of log-normal distributions in intra-cellular reaction dynamics , 2005, Biophysics.

[5]  Farren J. Isaacs,et al.  Phenotypic consequences of promoter-mediated transcriptional noise. , 2006, Molecular cell.

[6]  X. Xie,et al.  When does the Michaelis-Menten equation hold for fluctuating enzymes? , 2006, The journal of physical chemistry. B.

[7]  R. Rosenfeld Nature , 2009, Otolaryngology--head and neck surgery : official journal of American Academy of Otolaryngology-Head and Neck Surgery.

[8]  B. Daignan-Fornier,et al.  Lethal Accumulation of Guanylic Nucleotides in Saccharomyces cerevisiae HPT1-Deregulated Mutants , 2008, Genetics.

[9]  宁北芳,et al.  疟原虫var基因转换速率变化导致抗原变异[英]/Paul H, Robert P, Christodoulou Z, et al//Proc Natl Acad Sci U S A , 2005 .

[10]  James C. W. Locke,et al.  Using movies to analyse gene circuit dynamics in single cells , 2009, Nature Reviews Microbiology.

[11]  Barbara M. Bakker,et al.  Can yeast glycolysis be understood in terms of in vitro kinetics of the constituent enzymes? Testing biochemistry. , 2000, European journal of biochemistry.

[12]  P. Swain,et al.  Gene Regulation at the Single-Cell Level , 2005, Science.

[13]  R. Grima,et al.  Noise-induced breakdown of the Michaelis-Menten equation in steady-state conditions. , 2009, Physical review letters.

[14]  Antje Chang,et al.  BRENDA, enzyme data and metabolic information , 2002, Nucleic Acids Res..

[15]  R. Milo,et al.  Dynamic Proteomics of Individual Cancer Cells in Response to a Drug , 2008, Science.

[16]  Takeharu Nagai,et al.  Visualization of ATP levels inside single living cells with fluorescence resonance energy transfer-based genetically encoded indicators , 2009, Proceedings of the National Academy of Sciences.

[17]  Kendall A. Smith,et al.  The quantal theory of immunity , 2006, Cell Research.

[18]  Matthew J. Brauer,et al.  Conservation of the metabolomic response to starvation across two divergent microbes , 2006, Proceedings of the National Academy of Sciences.

[19]  G. Shivashankar,et al.  Tracking operator state fluctuations in gene expression in single cells. , 2004, Biophysical journal.

[20]  Ramon Grima,et al.  Investigating the robustness of the classical enzyme kinetic equations in small intracellular compartments , 2009, BMC Systems Biology.

[21]  F. Young Biochemistry , 1955, The Indian Medical Gazette.

[22]  J. Derisi,et al.  Single-cell proteomic analysis of S. cerevisiae reveals the architecture of biological noise , 2006, Nature.

[23]  T. G. Watson Amino-acid pool composition of Saccharomyces cerevisiae as a function of growth rate and amino-acid nitrogen source. , 1976, Journal of general microbiology.

[24]  S. Leibler,et al.  Phenotypic Diversity, Population Growth, and Information in Fluctuating Environments , 2005, Science.