Enhancing the feasibility of many biotechnological processes through enzyme deactivation studies

Enzymes are deactivated by different ways to an inactive state, which is a major constraint in the development of biotechnological processes. Understanding the complex process of enzyme deactivation will be helpful in enhancing the feasibility of many biological processes. This paper mainly deals with the different ways by which enzymes are inactivated, which includes the role of thermodynamics in deactivation. Different models namely, unified deactivation theory, single exponential model, rapid equilibrium model, isozyme model and bacterial contamination model used to describe the complex deactivation processes are also discussed in this communication. The complete understanding of deactivation process is very essential in commercialization because enzyme activity and stability of the enzyme play a critical role in economics of biotechnological processes. Activity and stability of the enzyme are conflicting properties and trade-off between these factors must be considered in the selection and design of enzymes.     

Bridging the divide between cytokinesis and cell expansion

Two of the most fundamental processes in plant development are cytokinesis, by which new cells are formed, and cell expansion, by which existing cells grow and establish their functional morphology. In this review we summarize recent progress in understanding the pathways necessary for cytokinesis and cell expansion, including the role of the cytoskeleton, cell wall biogenesis, and membrane trafficking. Here, we focus on genes and lipids that are involved in both cytokinesis and cell expansion and bridge the divide between these two processes. In addition, we discuss our understanding of and controversies surrounding the role of endocytosis in both of these processes.     

Reproductive processes in sponges: a critical evaluation of current data and views

The nature of a number of fundamental processes occurring during reproduction in sponges still remains in doubt. Among the more significant of these are: the true status of sponges described as dioecious, namely whether some are actually successive hermaphrodites; the origin of oogonia, which have recently been claimed to be derived from choanocytes; the origin and mechanism of formation of large spermatogenic masses; the specific pathway leading to fertilization taken by sperm cells within the sponge tissue of viviparous species; the role played during larval metamorphosis by somatic cells which are incorporated into embryos; the cell lineage of choanocytes which form flagellated chambers during larval metamorphosis; the specific relationship of somatic growth and dormancy to gametogenesis; the role of budding and fragmentation in population maintenance; the role, if any, of gemmules in dispersion. It is considered mandatory that new techniques be developed in order to further elucidate these and other reproductive processes and to gather definitive data concerning them. The employment of only microscopic techniques is ultimately insufficient for investigating the dynamic relationships of reproductive processes.     

How does biodiversity conservation argumentation generate effects in policy cycles?

Arguments in the formulation, implementation and evaluation of biodiversity policy frame conservation in a range of ways and express interests that can be conflicting. Policy processes are cyclic and iterative by nature and as policies are constantly reformulated, argumentation has an important role at each policy stage. In this paper, we utilise the policy cycle model to shed light on biodiversity-related policy processes and the ways in which argumentation generates effects at different stages of these processes. The paper first draws on literature and the theory-driven assumptions are then illustrated with insights from four European case studies on different policy processes in which biodiversity conservation plays a role. The analysis shows that argumentation tends to evolve over the course of the policy cycle, and framing has a key role across the different policy stages. It is concluded that the ways in which arguments persist, accumulate, diffuse, and replace old arguments, should be the target of increased attention in policy analysis.     

Genetic variability of glutathione S-transferase enzymes in human populations: Functional inter-ethnic differences in detoxification systems

Glutathione S-Transferase enzymes (GSTs) constitute the principal Phase II superfamily which plays a key role in cellular detoxification and in other biological processes. Studies of GSTs have revealed that genetic polymorphisms are present in these enzymes and that some of these are Loss-of-Function (LoF) variants, which affect enzymatic functions and are related to different aspects of human health.     

Connecting salt stress signalling pathways with salinity‐induced changes in mitochondrial metabolic processes in C3 plants

Salinity exerts a severe detrimental effect on crop yields globally. Growth of plants in saline soils results in physiological stress, which disrupts the essential biochemical processes of respiration, photosynthesis, and transpiration. Understanding the molecular responses of plants exposed to salinity stress can inform future strategies to reduce agricultural losses due to salinity; however, it is imperative that signalling and functional response processes are connected to tailor these strategies. Previous research has revealed the important role that plant mitochondria play in the salinity response of plants. Review of this literature shows that 2 biochemical processes required for respiratory function are affected under salinity stress: the tricarboxylic acid cycle and the transport of metabolites across the inner mitochondrial membrane. However, the mechanisms by which components of these processes are affected or react to salinity stress are still far from understood. Here, we examine recent findings on the signal transduction pathways that lead to adaptive responses of plants to salinity and discuss how they can be involved in and be affected by modulation of the machinery of energy metabolism with attention to the role of the tricarboxylic acid cycle enzymes and mitochondrial membrane transporters in this process.     

Recent advances in microbial mining

Microbial mining of copper sulphide ores, has been practiced on an industrial scale since the late 1950s. Since then, advances in microbial mining and the role of microorganisms involved in solubilization of metals have assumed commerical importance. The fact that bioleaching processes save energy, have a minimum pollution potential and are able to yield value-added by-products make these processes invaluable. The metal extraction processes using microorganisms, which are currently in active use, concern copper and uranium bioleaching. Biobeneficiation is also applied at an industrial scale for recovery of gold from arsenopyrites. The developments in these processes during the last 15 years, with particular reference to developing nations, are reviewed. Information gathered on molecular genetics of these microorganisms should lead to a better understanding and control of microbial leaching processes. Areas still needing research to sustain economic expansion of microbial mining techniques are indicated.The author is with the Agharkar Research Institute, Agarkar Road, Pune 411 004, India     

Vertex Models of Epithelial Morphogenesis

The dynamic behavior of epithelial cell sheets plays a central role during numerous developmental processes. Genetic and imaging studies of epithelial morphogenesis in a wide range of organisms have led to increasingly detailed mechanisms of cell sheet dynamics. Computational models offer a useful means by which to investigate and test these mechanisms, and have played a key role in the study of cell-cell interactions. A variety of modeling approaches can be used to simulate the balance of forces within an epithelial sheet. Vertex models are a class of such models that consider cells as individual objects, approximated by two-dimensional polygons representing cellular interfaces, in which each vertex moves in response to forces due to growth, interfacial tension, and pressure within each cell. Vertex models are used to study cellular processes within epithelia, including cell motility, adhesion, mitosis, and delamination. This review summarizes how vertex models have been used to provide insight into developmental processes and highlights current challenges in this area, including progressing these models from two to three dimensions and developing new tools for model validation.     

Developmental aspects of fracture healing and the use of pharmacological agents to alter healing

Fracture healing is a specialized postnatal repair process that recapitulates many aspects of embryological skeletal development. While many of the molecular mechanisms that control cellular differentiation and growth during embryogenesis recur during fracture healing, these processes take place in a postnatal environment that is unique and distinct from those which exist during embryogenesis. A number of the central biological processes that are believed to be crucial in the embryonic differentiation and growth of skeletal tissues and play a functional role in fracture healing are reviewed. The functional modification of these various developmental processes of fracture healing is discussed in the context of how different pharmacological agents might alter fracture healing.     

Vertex Models of Epithelial Morphogenesis

The dynamic behavior of epithelial cell sheets plays a central role during numerous developmental processes. Genetic and imaging studies of epithelial morphogenesis in a wide range of organisms have led to increasingly detailed mechanisms of cell sheet dynamics. Computational models offer a useful means by which to investigate and test these mechanisms, and have played a key role in the study of cell-cell interactions. A variety of modeling approaches can be used to simulate the balance of forces within an epithelial sheet. Vertex models are a class of such models that consider cells as individual objects, approximated by two-dimensional polygons representing cellular interfaces, in which each vertex moves in response to forces due to growth, interfacial tension, and pressure within each cell. Vertex models are used to study cellular processes within epithelia, including cell motility, adhesion, mitosis, and delamination. This review summarizes how vertex models have been used to provide insight into developmental processes and highlights current challenges in this area, including progressing these models from two to three dimensions and developing new tools for model validation.     

Protein complexes are central in the yeast genetic landscape

If perturbing two genes together has a stronger or weaker effect than expected, they are said to genetically interact. Genetic interactions are important because they help map gene function, and functionally related genes have similar genetic interaction patterns. Mapping quantitative (positive and negative) genetic interactions on a global scale has recently become possible. This data clearly shows groups of genes connected by predominantly positive or negative interactions, termed monochromatic groups. These groups often correspond to functional modules, like biological processes or complexes, or connections between modules. However it is not yet known how these patterns globally relate to known functional modules. Here we systematically study the monochromatic nature of known biological processes using the largest quantitative genetic interaction data set available, which includes fitness measurements for ～5.4 million gene pairs in the yeast Saccharomyces cerevisiae. We find that only 10% of biological processes, as defined by Gene Ontology annotations, and less than 1% of inter-process connections are monochromatic. Further, we show that protein complexes are responsible for a surprisingly large fraction of these patterns. This suggests that complexes play a central role in shaping the monochromatic landscape of biological processes. Altogether this work shows that both positive and negative monochromatic patterns are found in known biological processes and in their connections and that protein complexes play an important role in these patterns. The monochromatic processes, complexes and connections we find chart a hierarchical and modular map of sensitive and redundant biological systems in the yeast cell that will be useful for gene function prediction and comparison across phenotypes and organisms. Furthermore the analysis methods we develop are applicable to other species for which genetic interactions will progressively become more available.     

Rhythmic processes in early embryogenesis timed by cell division

he data on rhythmic processes in early embryogenesis coinciding with cell divisions are considered. Possible mechanisms which determine the rhythm frequency and are its motive power are discussed, as well as the role of individual rhythmic processes in the regulation of consecutive cell cycle events. A suggestion is put forward that these rhythmic processes are transformed during subsequent development in circum-hour rhythms of some biochemical, physiological and biophysical processes discovered in the cells and organs of adult organism.     

Autophagy and NF-kappaB: fight for fate

Autophagy/macroautophagy is known for its role in cellular homeostasis, development, cell survival, aging, immunity, cancer and neurodegeneration. However, until recently, the mechanisms by which autophagy contributes to these important processes were largely unknown. The demonstration of a direct cross-talk between autophagy and NF-kappaB opens up new frontiers for deciphering the role of autophagy in diverse biological processes. Here, we review our current understanding of autophagy, with a focus on its role in tumor suppression, NF-kappaB inactivation and selective protein degradation in mammals. We also list some most intriguing and outstanding questions that are likely to engage researchers in the near future.     

Neuro-endocrine mechanisms underlying the effects of schistosome parasites on their intermediate snail host

Summary

The hypothesis that schistosome parasites influence physiological processes in their snail host by interfering with the (neuro-) endocrine systems regulating these processes has been verified by data obtained on the effects of parasitosis on reproduction and growth. Reproduction and growth, which show an inverse relationship, are clearly disturbed in parasitized snails. Schistosomin, a pepide of 79 amino acids, has appeared to play a crucial role in establishing these effects.     

Caspases: A Molecular Switch Node in the Crosstalk between Autophagy and Apoptosis

Autophagy and apoptosis are two important catabolic processes contributing to the maintenance of cellular and tissue homeostasis. Autophagy controls the turnover of protein aggregates and damaged organelles within cells, while apoptosis is the principal mechanism by which unwanted cells are dismantled and eliminated from organisms. Despite marked differences between these two pathways, they are highly interconnected in determining the fate of cells. Intriguingly, caspases, the primary drivers of apoptotic cell death, play a critical role in mediating the complex crosstalk between autophagy and apoptosis. Pro-apoptotic signals can converge to activate caspases to execute apoptotic cell death. In addition, activated caspases can degrade autophagy proteins (i.e., Beclin-1, Atg5, and Atg7) to shut down the autophagic response. Moreover, caspases can convert pro-autophagic proteins into pro-apoptotic proteints to trigger apoptotic cell death instead. It is clear that caspases are important in both apoptosis and autophagy, thus a detailed deciphering of the role of caspases in these two processes is still required to clarify the functional relationship between them. In this article, we provide a current overview of caspases in its interplay between autophagy and apoptosis. We emphasized that defining the role of caspases in autophagy-apoptosis crosstalk will provide a framework for more precise manipulation of these two processes during cell death.     

Fracture healing as a post-natal developmental process: molecular,spatial, and temporal aspects of its regulation

Fracture healing is a specialized post-natal repair process that recapitulates aspects of embryological skeletal development. While many of the molecular mechanisms that control cellular differentiation and growth during embryogenesis recur during fracture healing, these processes take place in a post-natal environment that is unique and distinct from those which exist during embryogenesis. This Prospect Article will highlight a number of central biological processes that are believed to be crucial in the embryonic differentiation and growth of skeletal tissues and review the functional role of these processes during fracture healing. Specific aspects of fracture healing that will be considered in relation to embryological development are: (1) the anatomic structure of the fracture callus as it evolves during healing; (2) the origins of stem cells and morphogenetic signals that facilitate the repair process; (3) the role of the biomechanical environment in controlling cellular differentiation during repair; (4) the role of three key groups of soluble factors, pro-inflammatory cytokines, the TGF-beta superfamily, and angiogenic factors, during repair; and (5) the relationship of the genetic components that control bone mass and remodeling to the mechanisms that control skeletal tissue repair in response to fracture.     

Interrelated mechanisms in reward and learning

This brief review is focused on recent work in our laboratory, in which we assayed nicotine-induced neurotransmitter changes, comparing it to changes induced by other compounds and examined the receptor systems and their interactions that mediate the changes. The primary aim of our studies is to examine the role of neurotransmitter changes in reward and learning processes. We find that these processes are interlinked and interact in that reward-addiction mechanisms include processes of learning and learning-memory mechanisms include processes of reward. In spite being interlinked, the two processes have different functions and distinct properties and our long-term aim is to identify factors that control these processes and the differences among the processes. Here, we discuss reward processes, which we define as changes examined after administration of nicotine, cocaine or food, each of which induces changes in neurotransmitter levels and functions in cognitive areas as well as in reward areas. The changes are regionally heterogeneous and are drug or stimulus specific. They include changes in the transmitters assayed (catecholamines, amino acids, and acetylcholine) and also in their metabolites, hence, in addition to release, uptake and metabolism are involved. Many receptors modulate the response with direct and indirect effects. The involvement of many transmitters, receptors and their interactions and the stimulus specificity of the response indicated that each function, reward and learning represents the involvement of different pattern of changes with a different stimulus, therefore, many different learning and many different reward processes are active, which allow stimulus specific responses. The complex pattern of reward-induced changes in neurotransmitters is only a part of the multiple changes observed, but one which has a crucial and controlling function.     

Standardizing work as a recursive process: shaping the embryonic stem cell field

In this paper, we examine processes of standardization and their role in helping to stabilize human embryonic stem cells as biological objects and in building the stem cell field itself. Drawing on empirical data from the emerging embryonic stem cell field, we explore the various arenas within which standardizing work goes on and how these relate to each other as different types of labour within and beyond the lab, one to do with stabilizing the bio-object and a second to do with its comparability and identity within a wider domain. Standardizing work reflects the recursive relation between these processes which are discussed via the concepts of bio-objectification and bio-identification.     

Cocaine- and amphetamine related transcript (CART) and anxiety

CART is a neuropeptide that appears to play an important role in a variety of physiological processes. The major research focus into the function of CART peptide has been on feeding behavior, modulation of mesolimbic dopamine, and actions of psychostimulant drugs. The neuroanatomic expression profile of CART does however suggest other functions as well, and its presence within the limbic system points to a possible role in emotionality. There are now several published reports which describe a new role for CART as a mediator of anxiety-like behaviors in rodents. This review will summarize these findings and speculate on the mechanisms by which CART might be involved in the modulation of these behaviors. We will also consider what future studies need to be done to further clarify the role of this peptide in anxiety.     

Role of the cytoskeleton in the spreading process of epithelial cells

The role of microtubules and actin filaments in spreading of the IAR-2 cells isolated from the rat liver was studied. At the glass surface in the standard medium the cells rapidly assumed a discoidal form soon after inoculation. In the colcemid-containing medium the spreading is disturbed and delayed. In the cytochalasin D-containing medium the cells form two or more long processes. The effects of these drugs are reversible. It is supposed that microtubules are essential for sending cytoplasmic processes and stabilizing those processes and lamellae which have no numerous and stable contacts with the substrate, e.g., the processes which form at the early stages of spreading or the elongated processes of polarized cells. Bundles of actin microfilaments are essential, in particular, to ensure the discoidal form of epithelial cells. Microtubules appear to prevent the actin cytoskeleton contraction.