Metabolic regulation: a control analytic perspective

A possible basis for a quantitative theory of metabolic regulation is outlined. Regulation is defined here as the alteration of reaction properties to augment or counteract the mass-action trend in a network reactions. In living systems the enzymes that catalyze these reactions are the "handles" through which such alteration is effected. It is shown how the elasticity coefficients of an enzyme-catalyzed reaction with respect to substrates and products are the sum of a mass-action term and a regulatory kinetic term; these coefficients therefore distinguish between mass-action effects and regulatory effects and are recognized as the key to quantifying regulation. As elasticity coefficients are also basic ingredients of metabolic control analysis, it is possible to relate regulation to such concepts as control, signalling, stability, and homeostasis. The need for care in the choice of relative or absolute changes when considering questions of metabolic regulation is stressed. Although the concepts are illustrated in terms of a simple coupled reaction system, they apply equally to more complex systems. When such systems are divided into reaction blocks, co-response coefficients can be used to measure the elasticities of these blocks.     

Metabolic control and metabolic capacity: two aspects of creatine kinase functioning in the cells

In this short review, the merits and limits of three theoretical concepts explaining the functional role of the creatine kinase system in muscle and brain cells are analysed. In addition to the usual concept of an energy buffer system and the recently proposed metabolic capacity theory (Sweeney, H.L. (1994) Med. Sci. Sports Exerc. 26, 30-36), it is proposed that coupled creatine kinase systems are involved in effective metabolic regulation of energy fluxes and oxidative phosphorylation, beside their energy transfer function. This aspect of the system is considered on the basis of metabolic control analysis. It is shown by using the results of mathematical modelling that, due to amplification of ADP fluxes from the cytoplasm by the mechanism of metabolic channelling, coupled mitochondrial creatine kinase may exert a flux control coefficient significantly exceeding 1.     

Staining of cell surface human CD4 with 2'-F-pyrimidine-containing RNA aptamers for flow cytometry

We have used recombinant human CD4 presented on beads as an affinity matrix to screen a 2'-F-pyrimidine-containing RNA library with a complexity of approximately 10(14) molecules. Affinity-selected aptamers bind recombinant CD4 with low nanomolar equilibrium dissociation constants. These high-affinity aptamers conjugated to different fluorophores such as fluorescein and phycoerythrin were used to stain cells, expressing human CD4 on cell surface, for analysis by flow cytometry. Aptamers, conjugated to fluorophores, stained mouse T cells that express human CD4 on the surface, but not the control mouse T cells lacking human CD4. The control cells, however, do express mouse CD4 whose extracellular domain has 55% sequence identity to the human form. These human CD4-specific aptamers selectively stained CD4(+) T cells in a preparation of human peripheral blood mononuclear cells. These results and others suggest that aptamers are emerging as a versatile class of molecules that can be used for various diagnostic applications performed under different formats or platforms.     

板形闭环控制系统的最优化算法

为了快速、精确地确定轧机的板形调节机构的最优调节量,实现最大限度地消除带钢的在线板形偏差,建立了一种以板形调控功效为基础的板形闭环控制新方法,即矩阵分析法。矩阵分析法是将板形调节机构的多目标评价函数转化为标准二次型函数,分别求取m个变量在可行域内绝对值最小对应的值,经过矩阵逆变换求得执行机构的最佳调节量,以达到对评价函数进行可行域内最小值求解。为了验证矩阵分析法的正确性,分别将最小二乘法和矩阵分析法应用于1450冷连轧机系统的板形调节机构的最优调节量求解。计算结果表明:在执行机构调节量超范围情况下,与最小二乘法相比,矩阵分析法可以求得全域第二最优解,实现了对板形的最优控制。     

MMCX—An expert system for metal matrix composite selection and design

Metal Matrix Composites (MMCs) are a relatively new class of engineering materials that offer the designer an opportunity to tailor properties to meet specific requirements. The paper summarizes the development of an expert system which supports engineers in the selection and design of metal matrix composites. The system consists of a dynamic hypertext interface integrated into an expert system developed within the COMDALE/X environment. Mechanical and thermophysical property data for matrix alloys, reinforcement materials, and MMCs are stored in databases accessed by the expert system. Mathematical models which utilize constituent material properties to determine effective composite properties are managed by the system to design metal matrix composites and fill property gaps. Effective elastic modulus, thermal conductivity, coefficient of thermal expansion. Poisson's ratio, shear and bulk moduli mathematical models for particulate, whisker, short fiber and fiber composites are contained in a spread sheet managed by the system. Although the physical and mechanical properties may often limit the constituent selection, it is the chemical reactivity of the ceramic reinforcement with the matrix alloy either during fabrication or service which will generally control the final matrix/reinforcement combination. As a result, constituent material compatibility has been determined and incorporated in the system. A database of appropriate reinforcement coatings for applicable matrix/reinforcement systems is also helpful. The system also includes information on suitable manufacturing techniques. A case study demonstrating the use of the system for selecting an MMC for cryogenic applications is presented.     

Genetic control of antibody responses induced by recombinant Mycobacterium bovis BCG expressing a foreign antigen

Recombinant Mycobacterium bovis BCG expressing foreign antigens represents a promising candidate for the development of future vaccines and was shown in several experimental models to induce protective immunity against bacterial or parasitic infections. Innate resistance to BCG infection is under genetic control and could modify the immune responses induced against an antigen delivered by such engineered microorganisms. To investigate this question, we analyzed the immune responses of various inbred strains of mice to recombinant BCG expressing beta-galactosidase. These experiments demonstrated that BALB/c mice developed strong antibody responses against BCG expressing beta-galactosidase under the control of two different promoters. In contrast, C57BL/6, C3H, and CBA mice produced high anti-beta-galactosidase antibody titers only when immunized with recombinant BCG expressing beta-galactosidase under the control of the pblaF* promoter, which induced the production of high levels of this antigen. This difference in mouse responsiveness to recombinant BCG was not due to innate resistance to BCG infection, since similar immune responses were induced in Ity(r) and Ity(s) congenic strains of mice. In contrast, the analysis of anti-beta-galactosidase antibody responses of H-2 congenic mice in two different genetic backgrounds demonstrated that H-2 genes are involved in the immune responsiveness to beta-galactosidase delivered by recombinant BCG. Together, these results demonstrate that immune responses to an antigen delivered by recombinant BCG are under complex genetic influences which could play a crucial role in the efficiency of future recombinant BCG vaccines.     

Comparative characterization of the fermentation pathway of Saccharomyces cerevisiae using biochemical systems theory and metabolic control analysis: model definition and nomenclature

Mathematical tools that involve the determination of systemic responses to small changes in metabolites or enzymes have demonstrated their utility for analyzing metabolic pathways. The different methodologies based on these ideas allow for modeling and analyzing biochemical pathways focusing on the coordinate behavior of the whole system. However, one must become familiar with the difference in nomenclature and methodology to relate the models and results obtained by applying these techniques and to appreciate their potential for answering fundamental questions about biochemical systems. In the following three papers we show how this can be facilitated by comparing the nomenclature, methodology, and results of the two leading techniques in this area, metabolic control analysis and biochemical systems theory, using a model of the fermentation pathway in Saccharomyces cerevisiae as a reference system. In the present paper we review the nomenclature, technical concepts, and related experimental measurements while creating a practical dictionary for the reference system that makes the relatedness of the two approaches more apparent. In the second paper, subtitled Steady-State Analysis, we show that both approaches give the same picture for many systemic responses of the reference system. In the third paper of this series, subtitled Model Validation and Dynamic Behavior, we show that the quality of the model can be assessed by studying the sensitivity to changes in the system parameters. We hope to illustrate the usefulness of these tools in providing an interpretation of the experimental measurements in a specific metabolic pathway.     

Optimization of the strength-fracture toughness relation in particulate-reinforced aluminum composites via control of the matrix microstructure

The evolution of the microstructure and mechanical properties of a 17.5 vol. pct SiC particulate-reinforced aluminum alloy 6092-matrix composite has been studied as a function of postfabrication processing and heat treatment. It is demonstrated that, by the control of particulate distribution, matrix grain, and substructure and of the matrix precipitate state, the strength-toughness combination in the composite can be optimized over a wide range of properties, without resorting to unstable, underaged (UA) matrix microstructures, which are usually deemed necessary to produce a higher fracture toughness than that displayed in the peak-aged condition. Further, it is demonstrated that, following an appropriate combination of thermomechanical processing and unconventional heat treatment, the composite may possess better stiffness, strength, and fracture toughness than a similar unreinforced alloy. In the high- and low-strength matrix microstructural conditions, the matrix grain and substructure were found to play a substantial role in determining fracture properties. However, in the intermediate-strength regime, properties appeared to be optimizable by the utilization of heat treatments only. These observations are rationalized on the basis of current understanding of the grain size dependence of fracture toughness and the detailed microstructural features resulting from thermomechanical treatments.     

Molecular control of vascular smooth muscle cell differentiation

Changes in the differentiated state of the vascular smooth muscle cell (SMC) including enhanced growth responsiveness, altered lipid metabolism, and increased matrix production are known to play a key role in development of atherosclerotic disease. As such, there has been extensive interest in understanding the molecular mechanisms and factors that regulate differentiation of vascular SMC, and how this regulation might be disrupted in vascular disease. Key questions include determination of mechanisms that control the coordinate expression of genes required for the differentiated function of the smooth muscle cell, and determination as to how these regulatory processes are influenced by local environmental cues known to be important to control of smooth muscle differentiation. Of particular interest, a number of common cis regulatory elements including highly conserved CArG [CC(A/T)6GG] motifs or CArG-like motifs and a TGF beta control element have been identified in the promoters of virtually all smooth muscle differentiation marker genes characterized to date including smooth muscle alpha-actin, smooth muscle myosin heavy chain, telokin, and SM22 alpha and shown to be required for expression of these genes both in vivo and in vitro. In addition, studies have identified a number of trans factors that interact with these cis elements, and shown how the expression or activity of these factors is modified by local environmental cues such as contractile agonists that are known to influence differentiation of smooth muscle.     

Cell type regulation in response to expression of ricin A in Dictyostelium

Expression of ricin A in either prespore or prestalk cells of Dictyostelium discoideum results in cell-autonomous lethality. Strains expressing the toxic gene under the control of a prestalk-specific regulatory region fail to culminate or form stalks, but form spores normally. Strains expressing ricin A under the control of a prespore-specific regulatory region form neither spores nor stalks. Regulation of the cell types results in conversion of prestalk cells to prespore cells when the prespore cells are poisoned. The newly converted cells then express ricin A and die. In contrast, we could not detect any significant conversion of prespore cells to prestalk cells when the prestalk cells are poisoned under our experimental conditions. This regulation of cell types suggests that the tendency of prestalk cells to regulate and become prespore cells is inhibited by the already established prespore cells. It appears that prespore cells control prestalk cell regulation by producing an inhibitor of prespore differentiation to which they themselves are insensitive.     

Somatization: social control and illness production in a religious cult

The aim of this ethnographic work is twofold: first, to document the specifics of the illness experience within the highly controlling milieu of a religious cult; second, to explore the connection between somatization and social control in this particular context. Anthropologists have long realized that in order to comprehend disease etiology, one must examine both biological and sociocultural processes, as both are implicated in the production of illness. Illness experiences of those members of the cult described here appeared to be direct responses to extreme intrapsychic and social control: that is, members were required to be celibate, unmarried, and detached from their pre-cult identity and the emotional support structure of family and friends. Additionally, members were subjected to constant surveillance by peers and were often punished for expressing views that were in conflict with the ideology of the leader, thereby encouraging the somatization of distress. This research is based upon two years of participant observation within the milieu, during which time more than 100 participants were interviewed; however, this paper specifically discusses in-depth interviews with eight individuals whose health problems exemplify those experienced by other members of the cult.     

Calculation of biochemical net reactions and pathways by using matrix operations

Pathways for net biochemical reactions can be calculated by using a computer program that solves systems of linear equations. The coefficients in the linear equations are the stoichiometric numbers in the biochemical equations for the system. The solution of the system of linear equations is a vector of the stoichiometric numbers of the reactions in the pathway for the net reaction; this is referred to as the pathway vector. The pathway vector gives the number of times the various reactions have to occur to produce the desired net reaction. Net reactions may involve unknown numbers of ATP, ADP, and Pi molecules. The numbers of ATP, ADP, and Pi in a desired net reaction can be calculated in a two-step process. In the first step, the pathway is calculated by solving the system of linear equations for an abbreviated stoichiometric number matrix without ATP, ADP, Pi, NADred, and NADox. In the second step, the stoichiometric numbers in the desired net reaction, which includes ATP, ADP, Pi, NADred, and NADox, are obtained by multiplying the full stoichiometric number matrix by the calculated pathway vector.     

Expression, purification, and characterization of porcine leukocyte 12-lipoxygenase produced in the methylotrophic yeast, Pichia pastoris

A cDNA coding for porcine leukocyte 12-lipoxygenase was expressed intracellularly in the methylotrophic yeast Pichia pastoris under the regulatory control of the alcohol oxidase promoter. The recombinant 12-lipoxygenase contained in the yeast cell lysate was soluble, displayed the catalytic properties of the native enzyme, and was recognized by antibodies prepared against native 12-lipoxygenase derived from porcine leukocytes. The catalytically active enzyme of the 100,000 x g supernatant obtained from the yeast lysate was readily purified by immunoaffinity chromatography to near homogeneity. Porcine leukocyte 12-lipoxygenase is the first arachidonic acid oxygenase to be expressed in yeast, an easy, inexpensive, and rapid method of expressing native and site-directed mutants of recombinant proteins.     

Expression of truncated Sek-1 receptor tyrosine kinase disrupts the segmental restriction of gene expression in the Xenopus and zebrafish hindbrain

During development of the vertebrate hindbrain regulatory gene expression is confined to precise segmental domains. Studies of cell lineage and gene expression suggest that establishment of these domains may involve a dynamic regulation of cell identity and restriction of cell movement between segments. We have taken a dominant negative approach to interfere with the function of Sek-1, a member of the Eph-related receptor tyrosine kinase family expressed in rhombomeres r3 and r5. In Xenopus and zebrafish embryos expressing truncated Sek-1, lacking kinase sequences, expression of r3/r5 markers occurs in adjacent even-numbered rhombomeres, in domains contiguous with r3 or r5. This disruption is rescued by full-length Sek-1, indicating a requirement for the kinase domain in the segmental restriction of gene expression. These data suggest that Sek-1, perhaps with other Eph-related receptors, is required for interactions that regulate the segmental identity or movement of cells.     

Multiple systems for cognitive control: Evidence from a hybrid prime-Simon task.

Cognitive control resolves conflicts between appropriate and inappropriate response tendencies. Is this achieved by a unitary all-purpose conflict control system, or do independent subsystems deal with different aspects of conflicting information? In a fully factorial hybrid prime-Simon task, participants responded to the identity of targets displayed at different nominally irrelevant screen locations, preceded by nominally irrelevant, consciously or nonconsciously perceived primes. The response required by the target's identity could match or mismatch (a) the target's location, and (b) the prime's identity, resulting in potential conflict (a) across and (b) within stimulus domains. Conflict effects were investigated within and across trials. Results suggest that (i) nonconsciously perceived information elicits within-trial control, but—unlike consciously perceived information—no across-trial behavioral modulation; (ii) separate subsystems deal with conflicts arising from different stimulus domains; and (iii) occasional apparent interactions between domains reflect a particular difficulty in reactivating a just-discarded response (reactivation aversion effect, RAE). (PsycINFO Database Record (c) 2011 APA, all rights reserved)     

Poly(A)-tail-promoted translation in yeast: implications for translational control

The cap structure and the poly(A) tail synergistically activate mRNA translation in vivo. Recent work using Saccharomyces cerevisiae spheroplasts and a yeast cell-free translation system revealed that the poly(A) tail can function as an independent promotor for ribosome recruitment, to internal initiation sites within an mRNA. This raises the question of how regulatory upstream open reading frames and translational repressor proteins binding to the 5'UTR can function, as well as how regulated polyadenylation can support faithful activation of protein synthesis. We investigated the function of the regulatory upstream open reading frame 4 from the yeast GCN 4 gene and the effect of IRP-1 binding to an iron-responsive element introduced into the 5' UTR of reporter mRNAs. Both manipulations effectively block cap-dependent translation, whereas ribosome recruitment promoted by the poly(A) tail under non-competitive conditions can efficiently bypass both blocks. We show that the synergistic use of both, the cap structure and the poly-A tail enforced by mRNA competition reinstates the full extent of translational control by both types of 5' UTR regulatory elements. With a view towards regulated polyadenylation, we studied the function of poly(A) tails of defined length on the translation of capped mRNAs. We find that poly(A) tail elongation increases translational efficiency, particularly under competitive conditions. Our results integrate recent findings on the function of the poly(A) tail into an understanding of translational control.