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Introduction to Pharmaceutical Biotechnology, Volume 2 (Second Edition)
empirical [72]. Clinical evidence of the use of proteolytic enzymes in cancer studies has typically been obtained with an enzyme preparation comprising a combination of papain, trypsin and chymotrypsin. Earlier reports proved that enzyme therapy can reduce the adverse effects caused by radiotherapy and chemotherapy. There is also a report available that, in some types of tumors, survival may be sustained. The positive effects of systemic enzyme therapy appear to be based on its anti­inammatory potential. Nevertheless, the exact mechanism of action of systemic enzyme therapy remains unsolved. The proportion of proteinases to antiproteinases, which is regularly used as a prognostic marker in cancer studies, is likely to be inuenced by the oral administration of proteolytic enzymes, most likely via induction of the synthesis of antiproteinases. In addition, there are many alterations of cytokine composition during treatment with orally administered enzymes, which might be a sign of the efcacy of enzyme therapy [73].
Proteases and their inhibitors have long been studied in several tumor systems. However, out of numerous promising serine and metalloproteinase inhibitors, not a single one is included in oncology at present. The present exploration for active antiproteolytic agents is in contrast to the traditional approach, as evidenced by John Beard, who proposed the management of advanced cancer using fresh pancreatic extracts whose antitumor activity was based on their proteolytic potential.
The enzymatic treatment of tumors is based on the idea of denying the abnormal cells their essential metabolic precursors such as amino acids, nucleic acids and folates. A number of enzymes have been examined and evidenced as antitumor agents. l-serine dehydratase, l-arginase, carboxypeptidase G (folate depletion), l-asparaginase, l-methioninase, l-phenylalanine ammonia lyase, l-glutaminase, l-tyrosinase and xanthine oxidase have been studied for their anticancer activity. Enzyme preparations such as asparaginase (amidase), bromelain (protease) and chymotrypsin (protease) have also been studied as cancer treatments (table 1.9)[74].
l-asparaginase is the most widely investigated enzyme. It has been reported in treatment against three neoplastic diseases, acute lymphoblastic leukemia, leukemic lymphosarcoma and myeloblastic leukemia. It deprives the cancerous cells of their nutritional asparagine supply. Asparagine is essential for protein synthesis, which takes place inside the cell, and decreased protein synthesis perhaps accounts for the immunosuppression and toxic effects of asparaginase-based treatment [75].
The prospects of enzyme-based treatment against cancer are very bright, but the difculties of antigenicity and short circulation time remain to be overcome.
1.10.2.2 Enzymes in thrombolytic treatment
Activation of the blood clotting mechanism during inammation is part of the bodys defense mechanism which requires therapeutic intervention. Under normal physiological conditions there is an equilibrium between blood coagulation
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(clotting) and brinolysis (the process of dissolving the clotted blood) [76]. Biocatalysts such as enzymes, ribozymes, pro-enzymes, activators and pro-activa­tors are responsible for maintaining equilibrium between clot formation and brinolysis. Imbalances in the concentration of these bio-activators may disturb physiology. In the biological process of brogenesis, clot formation takes place due to the plasma protein (soluble brinogen), which is ultimately converted to insoluble brin by the enzyme thrombin. This process is dependent on the conversion of thrombin from prothrombin. This bio-conversion takes place after the cascade of enzymatic reactions which involved certain key biological compounds called clotting factors. A blood clot dissolving enzyme known as plasmin is present in the blood as the pro-enzyme plasminogen. During clot dissolution activators convert the plasmi­nogen to plasmin. This biological process is well regulated by certain process such as vasoconstriction, formation of a brin and clot platelet aggregation [75].
As the body utilizes enzymes in conserving this key balance of homeostasis, in a similar way we can utilize enzymes to repair or restore the homeostatic balance once it is lost. Several reports have shown that one of the best approaches for treating such clinical conditions is the administration of enzymes capable of converting plasminogen to plasmin (the enzyme which dissolves the clot) via intraveneous injection. This type of treatment is called therapeutic thrombolysis or thrombolytic therapy. In this treatment, pharmacological agents are used to medically induce clot breakdown [76]. Various novel thrombolytic agents have been derived from different sources for therapeutic use, such as from bacteria (streptokinase), the venom of the Malayan pit viper (Arvin), a lamentous fungus Koji mold Aspergillus oryzae (brinase), a South American snake (reptilase) and human urine (urokinase) [76].
Current advancements in thrombolytic therapy are more focused on the treat­ment of occlusions (blockages) of blood vessels. These types of therapy can be considered as life-saving and emergency medicine for life-threatening conditions such as myocardial infarction and massive pulmonary embolism, which are the most common reasons for cardiac arrest. This life-saving treatment is more reliable in preventing the blockages of vessels in the lungs and heart. Artery blockage conditions such as pulmonary embolism in the lungs by the formation of a clot creates tension on the right side of the heart, resulting in shortness of breath and chest pain mainly upon breathing in. Enzyme-based thrombolysis for treating massive pulmonary embolism has been considered as an effective approach to dissolving clots in these large vessels. Since surgical removal raises the chances of new blood clot formation that can cause another pulmonary embolism at the same or a different site, it is considered a dangerous practice and thrombolytic therapy is considered the more effective treat­ment [76]. Nevertheless, reoccurrence of clot formation or clot re-formation is very common in patients who have undergone enzyme-based thrombolytic treatment. Researchers from various organizations (1971) determined the effectiveness of streptokinase over heparin in reducing the chances of death in acute myocardial infarction patients. Signicant results were obtained during this experiment. As discussed above, re-formation of the clot is one of the major concerns in brinolytic therapy. Most clinicians start treatment with a high dose of brinolytic agents, which is reduced later on. This approach may reduce disease progression for some time, but
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often increases the chances of clot re-formation. Even after the dissolution of the clot it is very difcult to maintain the same physiologically balanced environment (homeo­stasis) at the site of damaged tissues and the chance of new clot formation at that particular location is very high. Therefore, brinolytic based treatment is always accompanied by anticoagulants, such as heparin [75].
Major concerns associated with streptokinase therapy are fever, a tendency for bleeding, antigenicity (as with any foreign protein) and the difculty of determining the proper dose [76]. Post-enzymatic treatment bleeding is one of the major concerns and it is also a concern when anticoagulants are used alone. According to current research, urokinase (produced in the kidneys and obtained from human urine) is considered safer than streptokinase. For the production of urokinase, 2300 l of urine is required to yield only 29 mg of puried urokinase, thus considering the expense involved in its manufacture, its clinical utilization has been restricted. Other examples are Arvin and reptilase. Utilization of these has been restricted for several reasons, but they are still considered as potential replacements for heparin as anticoagulants. Some researchers have noticed that optimum dose plays an important role and is one of the key factors in determining re-clot formation. Thorough investigation is required to overcome any shortcomings and increase the acceptance of these enzymes in therapeutic use [76].
1.10.2.3 The role of enzymes in digestive disorders and inflammations
Enzymes play an essential role in the management of various digestive disorders, such as exocrine pancreatic insufciency [77]. Supplementation with enzymes may also be advantageous for other conditions associated with poor digestion, such as lactose intolerance. Generally, pancreatic enzymes such as porcine and bovine have been the preferred form of supplementation for exocrine pancreatic insufciency [77]. Utilization of microbe-derived lipase has presented promise with reports showing benets alike to pancreatic enzymes, but with a lower dosage concentration and a broader pH range. The safety and efcacy of enzymes derived from microbial species in the treatment of conditions such as malabsorption and lactose intolerance is promising. Plant-derived enzymes, e.g. bromelain from pineapple, serve as active digestive aids in the breakdown of proteins. Synergistic properties have also been reported using a combination of animal-based enzymes and microbe-derived enzymes or bromelain. Buccal administration of pancreatin (derived from an alcoholic extract of animal pancreas) enhances the enzymatic digestion of starch and proteins in patients with pancreatic cysts and pancreatitis. Pancreatin in combination with lipase is used to treat patients with fatty stools. Hydrolytic enzymes such as papain and fungal extracts (Aspergillus niger and Aspergillus otyzae) are used to enhance absorption from the small intestine [78]. These fungal extracts comprise amylases and proteases along with cellulases, which support the breakdown of the otherwise indigestible bers of cabbages, etc, and thus reduce dyspepsia and atulence [79]. Currently, microorganisms are used at a large scale for the production of therapeutic enzymes. Among various micro­organisms Saccharomyces cerevisiae, Saccharomyces fragilis, Bacillus subtilis and two Aspergillus species are considered safe by the FDA (USA) for obtaining oral β- galactosidase (from A. oryzae) which is often used by patients suffering from inherited
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intestinal disease lactose deciency [80]. Children with this genetic disorder children are incapable of digesting milk lactose. Enzymatic preparations such as β-galactosidase catalyze the conversion of lactose to glucose and galactose, which are quickly absorbed by the intestine. Other enzymatic preparations, e.g. penicillinase (from B. subtilis)are often used to treat hypersensitivity reactions caused by the antibiotic penicillin [81]. This enzyme catalyzes the conversion of penicillin to penicillanic acid, which is non­immunogenic. In addition, microbial and plant hydrolases are also used to decrease inammation and edema [82]. Thrombin, trypsin, chymotrypsin, papain, streptokinase, streptodornase and sempeptidase are under clinical trial investigation. These enzymatic preparations are administered orally and have considerable proteolytic activity in the serum. Streptodornase has also displayed pain-relieving action on systemic injection [83]. Preparations have also been used to clean dirty wounds and necrotic tissue and to remove debris from second and third degree burns.

1.11 Plants and algae enzyme systems

Plant based foods are usually consumed in their raw form. This eases the main concern with animal-based enzymes by preserving the integrity of the enzymes themselves. Moreover, plant-based digestive enzymes are effective over a broad scope of pH levels. This range is usually between 3.0 and 9.0, which is highly well­matched with the human gastrointestinal environment. Thus plant-based enzymes are compatible for supporting comprehensive digestive health. Protease, amylase, lipase and cellulose are the important enzymes and are present in plants. Protease breaks down protein that can be present in meat, sh, poultry, eggs, cheese and nuts. Amylase assists your body with the breakdown and subsequent absorption of carbohydrates and starches. Lipase aids the digestion of fat. When your diet includes lipase-rich foods, it eases the production burden on the gall bladder, liver and pancreas. Cellulase is present in many fruits and vegetables, and it breaks down food bers, which increases their nutritional value to our bodies. The presence of cellulase in plant-based sources is important, because it is not naturally present in the human body. Fruits and vegetables are an ideal source for enzymes. They are enzyme-rich and easily consumed without needing to be cooked or processed, ultimately preserving the full functionality of the enzymes. By using plant biotechnology several enzymes can be produced from plants as well algal resources. During algal photosynthesis various proteins and enzymes are produced which can be utilized in economic development and environment management, such as in wastewater treatment, production of ne chemicals, and biodiesel production. Due to their potential to capture and x carbon dioxide using solar energy, photosynthetic marine algae are considered as potential models for the production of proteins. It has been recently observed that algal chloroplasts can be transformed for the production recombinant proteins [84]. Five different classes of recombinant enzymes; xylanase, α-galactosidase, phytase, phosphate anhydrolase, and β-man­nanase, Dunaliella tertiolecta or C. reinhardtii were in the plastids of D. tertiolecta or C. reinhardtii. Similar strategies should allow for recombinant protein production in many species of marine algae [84].
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1.12 Enzyme safety

Ensuring the safety of enzymes utilized in various industries, such as food, pharmaceuticals, textiles, and detergents, is vital. Safety encompasses several factors, including the non-pathogenic nature of the creatures and the lack of toxicity in both the enzymes and the product of the enzymes chemical reaction that they catalyze because there are no antibiotics available and there are comparatively few microbial pollutants [85]. Enzymes originating from non-approved species require comprehensive evaluation for a range of toxicity assessments. There is currently no evidence to suggest that any enzyme possesses inherent toxicity, mutagenicity, or carcinogenicity, even though these properties may be anticipated due to their protein-based composition [86]. Nevertheless, the safety of enzyme formulations is not without concern since they may contain pollutants derived from the enzyme source, generated during processing or storage, or arising from secondary micro­organism metabolites such as mycotoxins and aatoxins. Enzymes have signicantly fewer potential adverse effects and unknown reactions than other substances, supplements, or pharmaceuticals. Because of this, they are incredibly secure [87]. Several enzymes are considered GRAS (Generally Regarded As Safe) foods in the United States. Examples of these enzymes are amylase, α-amylase, bromelain, catalase, cellulase, cin, a-galactosidase, glucoamylase, glucose isomerase, glucose oxidase, invertase, lactase, lipase, papain, pectinase, pepsin, rennet, and trypsin. The Food and Drug Administration (FDA) neither approves nor disapproves of enzymes. Hence, there is no clear status for specic digestive enzyme blends [88]. Immobilized enzymes can potentially eliminate some of the risks associated with free enzymes. This is a very secure method as long as the materials employed are appropriate and neither they nor
Figure 1.6. Graphical depiction of the catalytic cycle of an enzyme, showcasing the substrate to product transformation.
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the immobilized enzymes leak into the product stream. Many enzymes have undergone safety assessments over the past few years, with results showing that enzyme preparations are safe to use. Among the enzymes that have undergone safety testing are Trichoderma reesei-derived, xylanase enzyme (SP 628) from Thermomyces lanugi- nosus, and xylanase enzyme (SP 578) from Aspergillus aculeatus. Fusarium xylanase expressed by Thermomyces lanuginosus, Aspergillus niger amino peptidase enzyme preparation, Kluyveromyces lactis lipase produced by Rhizopus oryza, and glucanase preparation designed for use in food [89].

1.13 Enzyme structure determination

Learning the enzymes three-dimensional structure is like studying the blueprint for a magnicent building. Understanding the mechanisms contributing to their remarkable catalytic powers helps direct the development of precision medicines and other biotech applications (gure 1.6).
1.13.1 X-ray crystallography
The atomic and molecular structure of crystalline materials, including enzymes, can be determined with great precision using x-ray crystallography. This technique has been game-changing in structural biology since it permits the rst direct imaging of molecular structure [90]. Enzyme structure, active site architecture, and substrate, co-factor, and inhibitor interactions can all be better understood with the help of x-ray crystallography. Because of its near-atomic resolution, super-high-quality x-ray crystallography has the potential to disclose the precise locations of individual atoms within the enzyme [91]. The catalytically active location of an enzyme may be seen by x-ray crystallography. To design effective inhibitors, one needs to have a thorough understanding of enzyme chemistry. Enzyme structure in the presence of substrates and inhibitors can be seen via x-ray crystallography [92]. These structures are functional for drug design because they reveal details about how enzymes and ligands interact. Enzymes undergo conformational changes during their catalytic cycles. To observe metabolic processes in real-time, x-ray crystallography offers the ability to record enzymes in their active conformations. The substance, known as an enzymatic protein found in saliva and tears, is employed in x-ray crystallography due to its signicant function in preventing bacterial illnesses [93]. In 1965, Dorothy Hodgkin made an essential advancement in crystallography when she found the structure of lysozyme by applying x-ray crystallography. Her insight completely altered the dynamics. In 1964, she received the Nobel Prize in Chemistry due to her notable contributions to the eld. Following this, researchers have used their comprehension of the structural attributes of lysozyme to create antibiotics and other therapeutic therapies that specically target bacterial ailments [94].
1.13.2 NMR spectroscopy
Nuclear magnetic resonance (NMR) spectroscopy is a widely used and adaptable scientic method utilized to analyze enzymes and several other chemicals at the atomic level [95]. This technology enables the investigation of their structural
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characteristics, dynamic properties, and intermolecular associations. This technique is founded on the principles of nuclear electromagnetic resonance, which investigates how atomic nuclei are inuenced by radiofrequency energy and a magnetic eld from the outside. NMR spectroscopy has emerged as a crucial instrument in investigating enzymes, enabling a deeper comprehension of their tridimensional conguration, catalytic efcacy, and relationship to surfaces, co-factors, and inhibition [96]. It is possible to study enzymes in their native habitat, which is the solution that allows one to see the enzymesdynamic action. NMR spectroscopy may examine the dynamic interactions between ribonuclease and its substrate in a solution. Thus, novel treatment possibilities have been revealed by our improved understanding of how this enzyme detects and destroys RNA molecules [97].
1.13.3 Cryo-electron microscopy
Our capacity to visualize the intricate three-dimensional structures of biomolecules like enzymes has been substantially enhanced by advances in cryo-electron micro­scopy (Cryo-EM) and other current structural biology techniques [98]. Cryo-EM allows materials to be preserved in a nearly natural state by freezing them at very low temperatures (cryogenic conditions) instead of the xed, stained, and dehy­drated state they are in for conventional electron microscopy. By not altering the samples too much, we can learn more about how they functioned in their original form. Cryo-EM has recently advanced to the point that it can compete with x-ray crystallography and NMR spectroscopy for atomic or near-atomic resolution. This degree of precision makes a deeper understanding of the mechanics behind enzymatic operations possible [99]. Unlike x-ray crystallography, cryo-electron microscopy (Cryo-EM) can investigate large and complex molecular assemblies without crystallization. Membrane and massive macromolecular complexes are just two of the sample contexts that can be explored with Cryo-EM. It can record the many molecular structural states, which could shed light on the moleculesplasticity and reactivity. The enzyme ATP synthase is responsible for synthesizing the cellular energy molecule adenosine triphosphate (ATP). The rotor-stator mechanism of ATP synthase and the specics of its energy conversion during ATP synthesis have recently been revealed by Cryo-EM, providing fresh insights into the complex molecular machinery of this enzyme [100].

1.14 Enzyme engineering and design

To improve the catalytic activity, substrate selectivity, stability, and other features of enzymes, scientists have turned to a eld known as enzyme engineering. This strategy entails altering the molecular structure of enzymes to broaden their applications beyond their native capabilities [101].
1.14.1 Directed evolution of enzymes
The principles of natural selection inspired the powerful technology of directed evolution. Mutation and selective breeding mold enzymes to perform specic functions [102]. Consider an enzyme that aids in the digestion of hazardous
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substances in the wild. Directed evolution allows scientists to create novel enzyme varieties by manipulating their genetic code. We will need to do further testing to determine whether or not these versions are more effective than the possibly dangerous chemical. In future rounds, only enzymes that have proven to have improved catalytic function are subjected to mutation and testing. The enzyme improves its ability to degrade pollutants over time, making it a more eco-friendly and long-term solution to environmental degradation [103].
1.14.2 Rational design of enzymes
Think of an enzyme that only requires one specic substance to accomplish its task. Researchers may be able to predict which amino acids will be needed for substrate recognition and catalysis by analyzing the enzymes active site and learning how it interacts with substrates [104]. Enzyme substrate selectivity can be broadened through the substitution of single amino acids or the introduction of mutations. The rational design approach is essential to build targeted enzymes for numerous biotech applications. The enzyme acetylcholinesterase (AChE) degrades the neuro­transmitter acetylcholine, which has an essential role in the neurological system. Neuronal function may be impaired by the accumulation of harmful chemicals that block AChE in certain neurological diseases [105]. Using rational design, researchers have altered AChEs active site to make the enzyme more resistant to various inhibitors without compromising its capacity to break down acetylcholine. Modifying this variant of acetylcholinesterase may one day be critical to effective treatment of neurological illnesses [106].
1.14.3 Applications of engineered enzymes
Because of their many applications in biotechnology and industry, modied enzymes have become indispensable in the modern world. Plastic trash is one of the leading causes of ecosystem decline [107]. Polyethylene terephthalate (PET) enzymes have been created by scientists in order to facilitate their disposal. These synthetic enzymes make plastic trash more amenable to recycling and biodegradation, lessening its adverse effects on the environment and paving the way for future innovations in environmentally friendly materials. The pharmaceutical industry can also benet from enzyme engineering because it allows for the environmentally sound production of complex therapeutic compounds. Designed enzymes help turn biomass into usable energy for making biofuels. They have potential use in the kitchen, medicine, and lab where new chemicals are being created [108].

1.15 Enzymes in medicine and healthcare

Enzymes have a crucial role in drug delivery and as therapeutic action targets. We will also discuss the advantages and disadvantages of using enzymes as the basis for pharmaceutical products. Because enzymes are involved in many different bodily activities, they are being examined as possible therapeutic targets. Enzymes present an opportunity to develop novel drug delivery strategies that maximize therapeutic advantages while minimizing unwanted consequences [109].
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Figure 1.7. Overview of various nanotechnology-based drug delivery systems, highlighting liposomes, nano­particles, and other carriers.
1.15.1 Enzyme-targeted drug delivery
By delivering medications more selectively to particular cells or tissues, enzyme­targeted drug delivery systems boost medication concentrations at the site of action. Enzyme-activated prodrugs use inert drug molecules that become active when they touch certain enzymes at the site of action. The therapys upbeat benets are amplied while its negative ones are mitigated. For instance, specic anticancer prodrugs become very effective anticancer treatments when specically triggered by enzymes that are overexpressed in tumor cells (gure 1.7)[110].
1.15.2 Enzymes as drug targets
Enzyme-targeted drug delivery methods allow for more precise drug administration, perhaps leading to higher local concentrations of the active ingredient in the required cells or tissues. Enzyme-activated prodrugs are a type of prodrug intended to be converted into active forms by enzymes already present at the site of action [111]. This method minimizes harmful consequences while maximizing therapeutic gain. For instance, specic anticancer prodrugs are transformed into particular and
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potent anticancer drugs when they are selectively activated by overexpressed enzymes in tumor cells [112].
1.15.3 Challenges and opportunities in enzyme drug discovery
Finding potent and specic enzyme inhibitors, being aware of the potential for off-target effects and guaranteeing drug stability and pharmacokinetics are some of the difculties inherent in enzyme-based drug research. Thanks to the development of computational tools and structural biology, researchers now better understand how enzymes function. By applying this knowledge to rational drug design and computational tools for screening, novel enzyme-targeted medicines can be produced more rapidly [113].
1.15.4 Enzymes in gene therapy
Incorporating, altering, or suppressing specic genes is the basis of gene therapy, which tries to treat genetic illnesses. Therapeutic drug development, specic gene delivery, and precise gene editing are just a few examples of the many applications of enzymes in gene therapy [114]. The Cas (CRISPR-associated) and CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) proteins have been developed as game-changing gene editing methods. Cas enzymes are guided to their targets in the genome by guide RNAs, where they make precise cuts in the DNA [115]. CRISPR-Cas has the potential to accurately x mutations that cause genetic illnesses like sickle cell anemia and cystic brosis. By putting the CRISPR-Cas system into cells to correct genetic aws, researchers may be able to treat hereditary illnesses at their origin [116]. People with certain genetic illnesses lack enough essential enzymes due to inherited abnormalities. Enzyme replacement therapy (ERT) treats enzyme deciency by replacing the missing enzyme with one given to the patient. Gaucher disease and Pompe disease are two examples of lysosomal storage disorders brought on by deciencies in specic lysosomal enzymes. The new enzyme will not do any good unless introduced into normal cells. The treatment plan for lysosomal storage disorders has substantially slowed the progression of the disease and improved the quality of life for those affected [117]. Scientists utilize viral vectors, engineered viruses, to deliver therapeutic genes to the patients cells. In order to create and improve viral vectors that can efciently convey genes, enzymes are needed. Due to their efciency in delivering genes to their target recipients without provoking strong immune reactions, AAV vectors are widely used in gene treatments [118]. AAV vectors are enzyme-modied to remove viral genes and replace them with therapeutic genes of interest. This method is vital in gene therapy because it guarantees therapeutic genesefcient and secure delivery [119].
1.15.5 Enzymes in personalized medicine
The objective of personalized healthcare is to offer individualized therapies customized to suit the specic biological, environmental, and psychological char­acteristics of every person receiving treatment. To achieve this goal, enzymes are crucial because of the information they provide for disease diagnosis, the role they play in guiding the selection of medicines based on individual genetic variability, and
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