On the Matching and Proportional Laws of Cybernetic Models

The Matching and Proportional Laws are heuristic control policies that have found widespread use in cybernetic models of biological systems. Within this context, the laws serve as optimization surrogates for predicting the response of metabolic control circuits that modulate enzyme levels and activities. The key result of the current contribution is to demonstrate clearly the optimality properties of these laws and the assumptions that underlie their development. In doing so, we arrive at generalized versions of the Matching and Proportional Laws that are shown to collapse to the forms originally derived by Kompala et al. ( Biotechnol. Bioeng. 1986, 28 , 1044–1055) when certain simplifications are applied. As a further line of investigation, we show how Kompala et al.apos;s cybernetic laws compare with alternative control policies in their ability to describe diauxic growth behavior of microbial cultures. We find that Kompala et al.apos;s model describes the experimental observations more accurately than other limiting‐case models that are either too aggressive or too passive in capturing the mixed‐substrate growth rates and intermediate lag periods. Monte Carlo analysis of computational growth experiments in which strains obeying different regulatory policies directly compete for available nutrients reveals that the Matching and Proportional Law policy does not maximize the average growth rate of the culture. However, it allocates metabolic resources more frugally than other policies that outperform it and may be more realistic in reflecting the cellapos;s true fitness‐to‐cost tradeoff as judged by its agreement with experimental growth data.

[1]  Jamey Dale Young A system-level mathematical description of metabolic regulation combining aspects of elementary mode analysis with cybernetic control laws , 2005 .

[2]  K. F. Tipton,et al.  Biochemical systems analysis: A study of function and design in molecular biology , 1978 .

[3]  W. E. Stewart,et al.  Discrimination and goodness of fit of multiresponse mechanistic models , 1998 .

[4]  D. Ramkrishna A Cybernetic Perspective of Microbial Growth , 1983 .

[5]  R Ramakrishna,et al.  Cybernetic modeling of growth in mixed, substitutable substrate environments: Preferential and simultaneous utilization. , 1996, Biotechnology and bioengineering.

[6]  A. Burgard,et al.  Optimization-based framework for inferring and testing hypothesized metabolic objective functions. , 2003, Biotechnology and bioengineering.

[7]  A. Narang,et al.  New patterns of mixed-substrate utilization during batch growth of Escherichia coli K12. , 1997, Biotechnology and bioengineering.

[8]  Doraiswami Ramkrishna,et al.  Cybernetic Modeling and Regulation of Metabolic Pathways. Growth on Complementary Nutrients , 1994 .

[9]  D. Ramkrishna,et al.  Metabolic Engineering from a Cybernetic Perspective. 1. Theoretical Preliminaries , 1999, Biotechnology progress.

[10]  A N,et al.  The Dynamics of Microbial Growth on Mixtures of Substrates in Batch Reactors , 1997 .

[11]  J. Ferrell Self-perpetuating states in signal transduction: positive feedback, double-negative feedback and bistability. , 2002, Current opinion in cell biology.

[12]  Doraiswami Ramkrishna,et al.  Dynamic analysis of the cybernetic model for diauxic growth , 1997 .

[13]  Doraiswami Ramkrishna,et al.  Unveiling steady‐state multiplicity in hybridoma cultures: The cybernetic approach , 2003, Biotechnology and bioengineering.

[14]  日本自動制御協会,et al.  システムと制御 = Systems and control , 1971 .

[15]  F. Neidhardt,et al.  Physiology of the bacterial cell : a molecular approach , 1990 .

[16]  M. Reuss,et al.  In vivo analysis of metabolic dynamics in Saccharomyces cerevisiae: II. Mathematical model. , 1997, Biotechnology and bioengineering.

[17]  Frank L. Lewis,et al.  Optimal Control , 1986 .

[18]  C. Chassagnole,et al.  Dynamic modeling of the central carbon metabolism of Escherichia coli. , 2002, Biotechnology and bioengineering.

[19]  Eberhard O. Voit,et al.  Canonical nonlinear modeling : S-system approach to understanding complexity , 1991 .

[20]  Mukund Thattai,et al.  Metabolic switching in the sugar phosphotransferase system of Escherichia coli. , 2003, Biophysical journal.

[21]  Abhijit Anand Namjoshi,et al.  Multiplicity and stability of steady states in continuous bioreactors: dissection of cybernetic models , 2001 .

[22]  G. T. Tsao,et al.  Cybernetic modeling of microbial growth on multiple substrates , 1984, Biotechnology and bioengineering.

[23]  D. Fell Understanding the Control of Metabolism , 1996 .

[24]  Ertugrul M. Ozbudak,et al.  Multistability in the lactose utilization network of Escherichia coli , 2004, Nature.

[25]  D. Ramkrishna,et al.  Metabolic regulation in bacterial continuous cultures: I. , 1991, Biotechnology and bioengineering.

[26]  F. Doyle,et al.  A benchmark for methods in reverse engineering and model discrimination: problem formulation and solutions. , 2004, Genome research.

[27]  G. T. Tsao,et al.  Investigation of bacterial growth on mixed substrates: Experimental evaluation of cybernetic models , 1986, Biotechnology and bioengineering.

[28]  T. Ström On Logarithmic Norms , 1975 .

[29]  G. T. Tsao,et al.  Are Microbes Optimal Strategists? , 1987 .

[30]  Weichang Zhou,et al.  Controlling mammalian cell metabolism in bioreactors , 1998 .

[31]  H. Michalska,et al.  Receding horizon control of nonlinear systems , 1988, Proceedings of the 28th IEEE Conference on Decision and Control,.

[32]  L. Ingram,et al.  Development of Industrial‐Medium‐Required Elimination of the 2,3‐Butanediol Fermentation Pathway To Maintain Ethanol Yield in an Ethanologenic Strain of Klebsiellaoxytoca , 2005, Biotechnology progress.

[33]  Doraiswami Ramkrishna,et al.  Modeling of Bacterial Growth under Multiply‐Limiting Conditions. Experiments under Carbon‐ or/and Nitrogen‐Limiting Conditions , 1994 .

[34]  J. Varner,et al.  Large-scale prediction of phenotype: concept. , 2000, Biotechnology and bioengineering.

[35]  B. Palsson,et al.  Thirteen Years of Building Constraint-Based In Silico Models of Escherichia coli , 2003, Journal of bacteriology.

[36]  M. J. Guardia,et al.  Cybernetic Modeling and Regulation of Metabolic Pathways in Multiple Steady States of Hybridoma Cells , 2000, Biotechnology progress.

[37]  G. Church,et al.  Analysis of optimality in natural and perturbed metabolic networks , 2002 .

[38]  G. T. Tsao,et al.  A cybernetic view of microbial growth: Modeling of cells as optimal strategists , 1985, Biotechnology and bioengineering.

[39]  M M Domach,et al.  Computer model for glucose‐limited growth of a single cell of Escherichia coli B/r‐A , 1984, Biotechnology and bioengineering.

[40]  May C. Chen Toward a New Philosophy of Biology: Observations of an Evolutionist , 1990, The Yale Journal of Biology and Medicine.

[41]  E. Ruppin,et al.  Regulatory on/off minimization of metabolic flux changes after genetic perturbations. , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[42]  G Stephanopoulos,et al.  Metabolic flux analysis of hybridoma continuous culture steady state multiplicity. , 1999, Biotechnology and bioengineering.