Extracellular proteases of Trichoderma species. A review

Cellulolytic, xylanolytic, chitinolytic and beta-1,3-glucanolytic enzyme systems of species belonging to the filamentous fungal genus Trichoderma have been investigated in details and are well characterised. The ability of Trichoderma strains to produce extracellular proteases has also been known for a long time, however, the proteolytic enzyme system is relatively unknown in this genus. Fortunately, in the recent years more and more attention is focused on the research in this field. The role of Trichoderma proteases in the biological control of plant pathogenic fungi and nematodes has been demonstrated, and it is also suspected that they may be important for the competitive saprophytic ability of green mould isolates and may represent potential virulence factors of Trichoderma strains as emerging fungal pathogens of clinical importance. The aim of this review is to summarize the information available about the extracellular proteases of Trichoderma. Numerous studies are available about the extracellular proteolytic enzyme profiles of Trichoderma strains and about the effect of abiotic environmental factors on protease activities. A number of protease enzymes have been purified to homogeneity and some protease encoding genes have been cloned and characterized. These results will be reviewed and the role of Trichoderma proteases in biological control as well as their advantages and disadvantages in biotechnology will be discussed.     

Lysosomal cysteine proteases: structural features and their role in apoptosis

Among the variety of proteolytic enzymes enormous progress has been seen recently in our understanding of lysosomal cysteine proteases, also known as cysteine cathepsins. These enzymes play a crucial role in diverse biological processes in physiological and pathological states, including genetic diseases. In the present review, their properties and structural features that are important to an understanding of their biological function are presented. Special emphasis is given to the newly discovered role of lysosomal cathepsins in apoptotic pathways.     

食线虫菌物胞外蛋白酶基因工程研究进展

在病原线虫的生物防治中 ,利用食线虫菌物在侵染过程中分泌的胞外蛋白酶 (重要毒力因子 )固定线虫并降解线虫体壁显示出巨大的潜力。综述了近年来食线虫菌物胞外蛋白酶的研究概况、目前开展蛋白酶基因工程研究存在的问题及解决策略;对真菌胞外蛋白酶应用于线虫生防和生物医药领域中的前景也进行了评述。     

The role of sterols in morphogenetic processes and dimorphism in fungi

The review considers the fundamental biological problem of fungal dimorphism as an adaptive reaction to adverse impacts. Primary attention is paid to sterols, phospholipids, storage lipids, and fatty acids. The structural and biological functions of sterols are considered, as well as their role in membrane stabilization under stress and their relation to morphogenetic processes in mycelial fungi, of which many are pathogenic. Data on the biosynthesis of the main fungal sterol, ergosterol, are presented, as well as data on the inhibitors of this process and on the mutants deficient in its particular stages. Ergosterol biosynthesis is also considered in terms of its relation to the composition of the fungal cell wall, which is the cell shape-determining structure, and to the intensity of chitin synthesis, a process in which azole derivatives play a role. Data obtained by the authors are presented that show the role of changes in the composition of sterols, phospholipids, storage lipids, and unsaturated fatty acids of resting cells in the induction of yeastlike growth in mucoraceous fungi.     

The role of sterols in morphogenetic processes and dimorphism in fungi

The review considers the fundamental biological problem of fungal dimorphism as an adaptive reaction to adverse impacts. Primary attention is paid to sterols, phospholipids, storage lipids, and fatty acids. The structural and biological functions of sterols are considered, as well as their role in membrane stabilization under stress and their relation to morphogenetic processes in mycelial fungi, of which many are pathogenic. Data on the biosynthesis of the main fungal sterol, ergosterol, are presented, as well as data on the inhibitors of this process and on the mutants deficient in its particular stages. Ergosterol biosynthesis is also considered in terms of its relation to the composition of the fungal cell wall, which is the cell shape-determining structure, and to the intensity of chitin synthesis, a process in which azole derivatives play a role. Data obtained by the authors are presented that show the role of changes in the composition of sterols, phospholipids, storage lipids, and unsaturated fatty acids of resting cells in the induction of yeastlike growth in mucoraceous fungi.     

Fungal Proteases and Their Pathophysiological Effects

Proteolytic enzymes play an important role in fungal physiology and development. External digestion of protein substrates by secreted proteases is required for survival and growth of both saprophytic and pathogenic species. Extracellular serine, aspartic, and metalloproteases are considered virulence factors of many pathogenic species. New findings focus on novel membrane-associated proteases such as yapsins and ADAMs and their role in pathology. Proteases from fungi induce inflammatory responses by altering the permeability of epithelial barrier and by induction of proinflammatory cytokines through protease-activated receptors. Many fungal allergens possess proteolytic activity that appears to be essential in eliciting Th2 responses. Allergenic fungal proteases can act as adjuvants, potentiating responses to other allergens. Proteolytic enzymes from fungi contribute to inflammation through interactions with the kinin system as well as the coagulation and fibrinolytic cascades. Their effect on the host protease–antiprotease balance results from activation of endogenous proteases and degradation of protease inhibitors. Recent studies of the role of fungi in human health point to the growing importance of proteases not only as pathogenic agents in fungal infections but also in asthma, allergy, and damp building related illnesses. Proteolytic enzymes from fungi are widely used in biotechnology, mainly in food, leather, and detergent industries, in ecological bioremediation processes and to produce therapeutic peptides. The involvement of fungal proteases in diverse pathological mechanisms makes them potential targets of therapeutic intervention and candidates for biomarkers of disease and exposure.     

Caspases as regulators of apoptosis and other cell functions

This review covers current knowledge on the involvement in apoptosis of a new family of endopeptidases denoted as caspases. Their structure, specific substrates, and inhibitors are considered. The recent classification of cysteine proteases of the caspase family based on their structural and functional features is presented. The biological significance of caspases not related to their proapoptotic effect is discussed.     

Protease proteomics: revealing protease in vivo functions using systems biology approaches

Proteases irreversibly modify proteins by cleaving their amide bonds and are implicated in virtually every important biological process such as immunity, development and tissue repair. Accordingly, it is easy to see that deregulated proteolysis is a pathognomic feature of many diseases. Most of the current information available on proteases was acquired using in vitro methods, which reveals molecular structure, enzyme kinetics and active-site specificity. However, considerably less is known about the relevant biological functions and combined roles of proteases in moulding the proteome. Although models using genetically modified animals are powerful, they are slow to develop, they can be difficult to interpret, and while useful, they remain only models of human disease. Therefore, to understand how proteases accomplish their tasks in organisms and how they participate in pathology, we need to elucidate the protease degradome-the repertoire of proteases expressed by a cell, a tissue or an organism at a particular time-their expression level, activation state, their biological substrates, also known as the substrate degradome-the repertoire of substrates for each protease-and the effect of the activity of each protease on the pathways of the system under study. Achieving this goal is challenging because several proteases might cleave the same protein, and proteases also form pathways and interact to form the protease web [Overall, C.M., Kleifeld, O., 2006. Tumour microenvironment - opinion: validating matrix metalloproteinases as drug targets and anti-targets for cancer therapy. Nat. Rev. Cancer 6 (3), 227-239]. Hence, the net proteolytic potential of the degradome at a particular time on a substrate and pathway must also be understood. Proteomics offers one of the few routes to the understanding of proteolysis in complex in vivo systems and especially in man where genetic manipulations are impossible. The aim of this chapter is to review methods and tools that allow researchers to study protease biological functions using proteomics and mass spectrometry. We describe methods to assess protease expression at the messenger RNA level using DNA microarrays and at the protein level using mass spectrometry-based proteomics. We also review methods to reveal and quantify the activity state of proteases and to identify their biological substrates. The information acquired using these high throughput, high content techniques can then be interpreted with different bioinformatics approaches to reveal the effects of proteolysis on the system under study. Systems biology of the protease web-degradomics in the broadest sense-promises to reveal the functions of proteases in homeostasis and in disease states. This will indicate which proteases participate in defined pathologies and will help targeting specific proteases for disease treatments.     

A review on digestive TAG-lipases of insects

Digestion in insects is a multi-step process to afford nutritional requirements of biological activities. The process starts with nervous stimuli and continues with biochemical activities of digestive enzymes as well as several pumps to digest and absorb the obtained molecules. Carbohydrases, lipases and proteases are the three main digestive enzymes involved in digestion process. Lipases seem to be very important not only for digestive role but also for esteratic activity so that some experts consider lipases as the Class 3 of general esterases. Digestive lipases divided into different groups based on their biological roles namely triacylglycerol lipases, phospholipases and two types of phosphatases. Briefly, triacylglycerol lipases (TAG-lipases) are the hydrolysing enzymes that affect the outer esteric links of triacylglycerols in ingested food. Phospholipases including PLA2 and PLA1 remove phosphatide fatty acids attached to the Position 2 and Position 1. Finally, Alkaline and acid phosphatases are the enzymes that hydrolyse phosphomonoesters under alkaline or acid conditions, respectively. In this review, presence and physiological role of digestive TAG-lipases are explained and their possible importance will be discussed in insect.     

Regulation of bacterial protease activity

Proteases, also referred to as peptidases, are the enzymes that catalyse the hydrolysis of peptide bonds in polipeptides. A variety of biological functions and processes depend on their activity. Regardless of the organism’s complexity, peptidases are essential at every stage of life of every individual cell, since all protein molecules produced must be proteolytically processed and eventually recycled. Protease inhibitors play a crucial role in the required strict and multilevel control of the activity of proteases involved in processes conditioning both the physiological and pathophysiological functioning of an organism, as well as in host-pathogen interactions. This review describes the regulation of activity of bacterial proteases produced by dangerous human pathogens, focusing on the Staphylococcus genus.     

Allergenicity of airborne basidiospores and ascospores: need for further studies

Many known fungal species are grouped among basidiomycetes and ascomycetes. Active mechanisms of spore release into air currents are among the main features of these fungi. Aerobiological studies have described their presence in many regions worldwide. In some areas, fungi have been described as the predominant outdoor airborne biological particulate with much higher concentrations than pollen. Other studies have determined that among the fungal aerospora, the highest concentrations belong to basidiospores and ascospores. Nevertheless, the allergenic potential of spores from basidiomycetes and meiotic forms of ascomycetes has not been studied to the extent of mitosporic fungi and allergens from other sources. The need to further evaluate the role of basidiomycetes and meiotic ascomycetes in allergies is evidenced by the few genera with characterized allergens and limited studies that had demonstrated levels of sensitization similar or higher to that of mitosporic fungi and other allergens. In this review, based on the existing aerobiological, epidemiological, immunological, and molecular biology studies, we provide evidence that the role of basidiomycetes and ascomycetes deserves more attention with respect to their roles as potential aeroallergens.     

病原性真菌蛋白酶致病机制研究进展

蛋白酶在真菌的生存和生长过程中具有重要作用,同时也被认为是病原真菌重要的毒力因子之一。病原真菌的蛋白酶可能参与真菌在宿主的黏附、定植和播散以及逃避宿主的免疫应答过程。部分蛋白酶还被认为是变应原,可诱发哮喘和过敏性疾病。在不同的病原真菌中,蛋白酶作用也不同。研究蛋白酶的致病机制,可进一步了解真菌感染机制,为诊断及治疗真菌感染提供线索。     

Extracellular peptidases of insect-associated fungi and their possible use in biological control programs and as pathogenicity markers

This review deals with characteristics of peptidases of fungi whose life cycles are associated with insects to varying degrees. The review examines the characteristic features of the extracellular peptidases of entomopathogenic fungi, the dependence of the specificity of these peptidases on the ecological characteristics of the fungi, and the role of peptidases in the development of the pathogenesis. Data on the properties and physiological role of hydrolytic enzymes of symbiotic fungi in “fungal gardens” are also considered in detail. For the development of representations about mechanisms of control over populations of insect pests, special attention is given to analysis of possibilities of genetic engineering for the creation of entomopathogens with enhanced virulence. Clarification of the role of fungi and their secreted enzymes and careful environmental studies are still required to explain their significance in the composition of the biota and to ensure widespread adoption of these organisms as effective biological control agents. The systematization and comparative analysis of the existing data on extracellular peptidases of insect-associated fungi will help in the planning of further work and the search for markers of pathogenesis and symbiosis.     

Structure of ethanol-inhibited porcine pepsin at 2-A resolution and binding of the methyl ester of phenylalanyl-diiodotyrosine to the enzyme

An account of x-ray crystallographic studies of monoclinic porcine pepsin crystals is presented. The chain fold specific for aspartyl proteases is described in detail. As the results of 2-A refinement have shown, the actual structure is that of ethanol-inhibited pepsin. The structure, although close to those of fungal aspartyl proteases, has some specific features: one of them is an insertion near the S'1 site which restricts the position of dipeptide substrates and makes their productive binding more probable than in the fungal enzymes. 3-A resolution data on the binding of the dipeptide phenylalanyl-diiodotyrosine methyl ester are discussed.     

Evolution in the structure and function of aspartic proteases

Aspartic proteases (EC3.4.23) are a group of proteolytic enzymes of the pepsin family that share the same catalytic apparatus and usually function in acid solutions. This latter aspect limits the function of aspartic proteases to some specific locations in different organisms; thus the occurrence of aspartic proteases is less abundant than other groups of proteases, such as serine proteases. The best known sources of aspartic proteases are stomach (for pepsin, gastricsin, and chymosin), lysosomes (for cathepsins D and E), kidney (for renin), yeast granules, and fungi (for secreted proteases such as rhizopuspepsin, penicillopepsin, and endothiapepsin). These aspartic proteases have been extensively studied for their structure and function relationships and have been the topics of several reviews or monographs (Tang: Acid Proteases, Structure, Function and Biology. New York: Plenum Press, 1977; Tang: J Mol Cell Biochem 26:93-109, 1979; Kostka: Aspartic Proteinases and Their Inhibitors. Berlin: Walter de Gruyter, 1985). All mammalian aspartic proteases are synthesized as zymogens and are subsequently activated to active proteases. Although a zymogen for a fungal aspartic protease has not been found, the cDNA structure of rhizopuspepsin suggests the presence of a "pro" enzyme (Wong et al: Fed Proc 44:2725, 1985). It is probable that other fungal aspartic proteases are also synthesized as zymogens. It is the aim of this article to summarize the major models of structure-function relationships of aspartic proteases and their zymogens with emphasis on more recent findings. Attempts will also be made to relate these models to other aspartic proteases.     

Leucoagaricus gongylophorus uses leaf-cutting ants to vector proteolytic enzymes towards new plant substrate

The mutualism between leaf-cutting ants and their fungal symbionts revolves around processing and inoculation of fresh leaf pulp in underground fungus gardens, mediated by ant fecal fluid deposited on the newly added plant substrate. As herbivorous feeding often implies that growth is nitrogen limited, we cloned and sequenced six fungal proteases found in the fecal fluid of the leaf-cutting ant Acromyrmex echinatior and identified them as two metalloendoproteases, two serine proteases and two aspartic proteases. The metalloendoproteases and serine proteases showed significant activity in fecal fluid at pH values of 5–7, but the aspartic proteases were inactive across a pH range of 3–10. Protease activity disappeared when the ants were kept on a sugar water diet without fungus. Relative to normal mycelium, both metalloendoproteases, both serine proteases and one aspartic protease were upregulated in the gongylidia, specialized hyphal tips whose only known function is to provide food to the ants. These combined results indicate that the enzymes are derived from the ingested fungal tissues. We infer that the five proteases are likely to accelerate protein extraction from plant cells in the leaf pulp that the ants add to the fungus garden, but regulatory functions such as activation of proenzymes are also possible, particularly for the aspartic proteases that were present but without showing activity. The proteases had high sequence similarities to proteolytic enzymes of phytopathogenic fungi, consistent with previous indications of convergent evolution of decomposition enzymes in attine ant fungal symbionts and phytopathogenic fungi.     

Using pseudo amino acid composition to predict protease families by incorporating a series of protein biological features

Proteases are essential to most biological processes though they themselves remain intact during the processes. In this research, a computational approach was developed for predicting the families of proteases based on their sequences. According to the concept of pseudo amino acid composition, in order to catch the essential patterns for the sequences of proteases, the sample of a protein was formulated by a series of its biological features. There were a total of 132 biological features, which were sourced from various biochemical and physicochemical properties of the constituent amino acids. The importance of these features to the prediction is rated by Maximum Relevance Minimum Redundancy algorithm and then the Incremental Feature Selection was applied to select an optimal feature set, which was used to construct a predictor through the nearest neighbor algorithm. As a demonstration, the overall success rate by the jackknife test in identifying proteases among their seven families was 92.74%. It was revealed by further analysis on the optimal feature set that the secondary structure and amino acid composition play the key roles for the classification, which is quite consistent with some previous findings. The promising results imply that the predictor as presented in this paper may become a useful tool for studying proteases.     

Proteases Released by Entomopathogenic Fungi Impair Phagocytic Activity, Attachment and Spreading of Plasmatocytes Isolated from Haemolymph of the Greater Wax Moth Galleria mellonella

Reliable assays for the in vitro quantification of the attachment and spreading of isolated Galleria mellonella plasmatocytes have been established. The effects of extracellular proteases released by the entomopathogenic fungi Metarhizium anisopliae and Beauveria bassiana on the phagocytic activity, spreading, attachment and cytoskeleton formation of isolated plasmatocytes of G. mellonella were examined to elucidate their putative role in the suppression of cellular immune responses in infected insects. In addition, the influence of different commercially available proteases on isolated plasmatocytes was studied. Among the proteases tested, the metalloprotease thermolysin produced the strongest inhibitory activity on plasmatocytes. The results obtained support the conclusion that invading fungal cells could interfere with the insect immune system via the release of proteases which affect cellular defence reactions. Isolated G. mellonella plasmatocytes incubated with fungal proteases had an impaired ability to ingest yeast cells and exhibited alterations in morphology and cytoskeleton formation. The effects were similar to those observed in plasmatocytes from infected larvae. The role of extracellular fungal proteases in the interactions of entomopathogens with the insect immune system is discussed.     

Control of the coagulation system by serpins. Getting by with a little help from glycosaminoglycans

Members of the serine protease inhibitor (serpin) superfamily play important roles in the inhibition of serine proteases involved in complex systems. This is evident in the regulation of coagulation serine proteases, especially the central enzyme in this system, thrombin. This review focuses on three serpins which are known to be key players in the regulation of thrombin: antithrombin and heparin cofactor II, which inhibit thrombin in its procoagulant role, and protein C inhibitor, which primarily inhibits the thrombin/thrombomodulin complex, where thrombin plays an anticoagulant role. Several structures have been published in the past few years which have given great insight into the mechanism of action of these serpins and have significantly added to a wealth of biochemical and biophysical studies carried out previously. A major feature of these serpins is that they are under the control of glycosaminoglycans, which play a key role in accelerating and localizing their action. While further work is clearly required to understand the mechanism of action of the glycosaminoglycans, the biological mechanisms whereby cognate glycosaminoglycans for each serpin come into contact with the inhibitors also requires much further work in this important field.