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(Biotechnology) Syllabus for the off campus PG Centres of the University of Pune (2008-09)
T/P CODE SEMESTER I T BT 11 T BT 12 T BT 13 P BT 14 P BT 15a P BT 15b SEMESTER II T BT 21 T BT 22 T BT 23 P BT 24 P BT 25a P BT 25b SEMESTER III T BT 31 T BT 32 T BT 33 a T BT 33 b P BT 34 P P BT 35a BT 35b
TITLE Advanced Biological Chemistry Molecular and Cell Biology Environmental Biotechnology Advanced Biological Chemistry (Practical) Molecular and Cell Biology (Practical) Techniques in Environmental Biotechnology (Practical) Genetic Engineering Bioinformatics Plant Biotechnology Genetic Engineering (Practical) Tools in Bioinformatics (Practical) Applied Plant Tissue Culture (Practical) Animal Biotechnology Fermentation Technology Principles of Virology Advanced Immunology Techniques in Animal Biotechnology (Practical) Bioprocess Engineering (Practical) Techniques in Virology and Immunology (Practical)
MARKS HOURS 100 100 100 100 50 50 60 60 60 60 30 30
100 100 100 100 50 50 100 100 50 50 50 50 100
60 60 60 60 30 30 60 60 30 30 30 30 60
Genomics and Proteomics Legal and Ethical Aspects in Biotechnology and IPR T+P BT 43 Clinical Research and Database Management T+P *BT44a Nanobiotechnology T *BT44b Stem Cell Technology and Regenerative Medicines T *BT44c Agricultural Biotechnology P BT 45 Project (Practical) *Any one of these can be opted
SEMESTER IV T BT 41 T BT 42
75 75 75 75 75 75 200
45 45 30+15 45 45 45 120
N.B. For assessment of each course, 80% will be for Semester-end examination and 20% for internal assessment. Internal assessment will be continuous throughout the semester, and the marks should be submitted to the Examination section before the commencement of Semester-end examination.
polymers. IR. Hormones.monomers.body. (Biotechnology) Syllabus for the off campus PG Centres of the University of Pune (2008-09) DETAILED SYLLABUS Semester I: BT 11 ADVANCED BIOLOGICAL CHEMISTRY 60L General Biochemistry: Chemical basis of life. nutrition. quantitative estimation and structure determination by spectroscopy-UV-Visible. Protein engineering – isolation of genes and expressing for protein synthesis. methods associated with phytochemical investigations of herbal products. electrophoresis etc. 10L Metabolomics: Basic concepts-overview of cellular metabolism. metabolic pathway manipulations at enzyme and whole cell level. Acid Base balance and its maintenance. thermodynamics. variation in species. herbal medicines-regulations and practices worldwide. introduction to pathways of primary and secondary metabolites. synthesis and degradation. Metabolic flux-analysis and applications 12L BT 12 MOLECULAR AND CELL BIOLOGY 60L Cell structure and function: Types. Molecular biology and medicine. Aerobic respiration and the mitochondria. gas exchange and behavior. NMR 18L Protein Biochemistry: Proteins in solutions and in membrane – physical and chemical properties of soluble proteins. medicinal and agricultural importance of secondary metabolites. development. pharmacological activities of natural products. strategies and applications 20L Phytochemistry: Plants in medicine. and temperature regulation. types of secondary metabolites. nutritional regulation of development.M.Sc. chromatography. site directed mutagenesis. reproduction.. mechanism of protein folding. separation techniquescentrifugation. flexibility of protein structure. origin of pharmacognosy. 15L Information and Heredity: Chromosomes and cell division. Allostery. structure and functions of plasma membrane. use of analytical techniques. stability of folded confirmation. reproduction. Natural defenses against diseases. Protein Microarrays. interactions with other molecules – structure of protein-ligand complexes. Development-differential gene expression. 10L BOS (UoP) Page 2 7/10/2008 .Physiology. DNA and its role in heredity. macromolecules. genotype to phenotype-DNA to protein. photosynthesis and the chloroplasts 25L Cell biology of flowering plant and animals: plant . Homeostasis. animals . energetics and dynamics of binding. fluorescence. cytoplasmic membrane systems – structure functions and membrane trafficking. transport. response to environmental challenges. cell signaling: communication between cells and their environment.
SPM. haemoglobin. Derivatives and difference spectra: Indicators.Measurement of noise. Environmental priorities in India and agenda 21. Process Selection. Bioremediation-Biotechnology for clean environment. Ecotoxicology of soil pollutants. Ecological modeling. Treatment. Bio-energy (Energy from biomass) 12L Environmental Pollution Monitoring and control: Air . Pm10. pest. X-linked immunodeficiencies. Analysis of Standard curves. Noise . LDH . cytochromes . Iso 14000 series. linear regression and assessment of ranges and reliability 4. Fundamentals of biological treatment. Km and Vmax. Spectrophotometry: Estimations-proteins. and solid waste. Conservation Biotechnolohy. Various kinetic plots 5. Ecoplanning and Sustainable Development: Indian standards Is2490. secondary metabolites. Analysis and selection of flow rates and loadings. mutation.Genotype to phenotype: genome project. genes in population.time. Cox. Noise control and abatement. thermal energy. Monitoring and control of Sox. Fate of insecticides fungicides. Public liability Insurance Act. Hydrogen. Laboratory safety. Physical unit operations. Nuclear energy. Guassian plume model for pollution dispersion. Bioindicators and biosensors for detection of pollution. temperature. reuse and disposal of biosolids 10L Environmental Impact Assessment. Enzyme assays b –galactosidase. Magneto hydrodynamic. 20L Wastewater engineering: Waste water constituents. Chemical energy.genetic variability and evolution. Advanced waste water treatment. Thin layer/paper/Column chromatography : proteins. Polyacrylamide gel electrophoresis : Native gel. polymorphism. Soil . geothermal. chlorophyll. indices. SDS-PAGE BOS (UoP) Page 3 7/10/2008 . lipids. 10L BT 13 ENVIRONMENTAL BIOTECHNOLOGY 60L Energy and Environment: Non-Conventional energy sources Hydroelectric. Biomaterials as substitutes for non-degradable materials. Effect of meteorological factors on noise levels. Thermal inversion. pharmacogenomics. use of genetically modified (insect-. Impact on human health.and pathogen resistant) plants. Bioremediation. interacting genes. ElA guidelines and assessment methods.Biotechnology for clean environment. Municipal solid waste treatment strategies.Physicochemical and bacteriological analysis of soil. Is3307. Nox. Air Quality standards. Wind. pesticides in soil. protein concentration and cofactors. Types and kinetics of biological treatment. sodic soils. Chemical unit operations. Problems associated with soil alkali soils. Is2296. RPM. gene-environment interactions. hormones. hormones. Tidal ocean. mixture of dyes 3. 18L BT 14 ADVANCED BIOLOGICAL CHEMISTRY (PRACTICAL) – 60H 1. Is3360. Gas laws governing dispersion of air pollutants.Transport and diffusing of pollutants. Remote sensing and Gis (Principal and applications in ecological mapping and environmental hazard predictions). Introduction to measurements: balances and pipetting Preparation of solutions of given normality and its standardisation 2. Minas for Industries and Ecomarks. solar energy collectors.
20L Applications: Genetic diseases-Detection and Diagnosis. BOS (UoP) Page 4 7/10/2008 . hormones 9. 10L Analytical techniques: PCR – design and optimization. and applications. Vectors in gene cloning. Automated DNA sequencing method. Physicochemical and biological analysis of soil. dissection of rat: cardiac puncture. 3. secondary metabolites. Biodegradation of environ-friendly materials Semester II: BT 21 GENETIC ENGINEERING 60L Tools in genetic engineering: DNA modifying enzymes and restriction enzymes for GE. 6. Chimeric constructs. 5. Transformation and Transfection. 5. to find out the capacity and nature of the cationic/anionic exchange resin 7.Maxam-Gilbert method. Sequencing strategies and analysis. Gene therapy – ex vivo. root hair etc. Isolation of genomic DNA from animal/plant and bacteria. BT 15a MOLECULAR AND CELL BIOLOGY (PRACTICAL) – 30H 1. Estimation and analysis of DNA by restriction digestion and Gel electrophoresis. Isolation of chromatin: Determination of mononucleosomal size. use to engineer DNA. 2. use in diagnosis of diseases. Human genome sequencing: Genetic and physical mapping techniques. gene delivery systems. 3. trachieds.maceration of various tissue explants and identification of xylem vessels. Gel filtration chromatography: Sepharose. Expression of industrially important products. Induced expression strategies and protocols. Testing of cytotoxicity (onion root tip assay/pollen germination) of polluted water. amplification of specific sequences from a cDNA library. 4. Isolation and separation of secondary metabolites.6. sequencing strategies. Cell types of plants . Sephadex 8. Estimation of biomass from planktonic organisms. Sanger’s Dideoxy chain termination method. Preparation of beads and column packing for cationic/anionic exchange chromatography. stomata. and gene annotation. DNA sequencing. blood sample preparation and its handling. Osmotic fragility of RBCs. Developmental studies: chick: developmental stages and Gastrulation. DEAE cellulose chromatography of proteins. Chromatin gel electrophoresis. Qualitative and quantitative changes in pesticides/fungicides/insecticides. 7. BT 15b TECHNIQUES IN ENVIRONMENTAL BIOTECHNOLOGY (PRACTICAL)30H 1. Programmed cell death during embryonic development. 2-D gel electrophoresis of proteins and isoelectrofocusing 10. DNA marker technology in plants. Nucleic acids. 4. 15L Expression strategies and methods for producing industrially important molecules: Various expression vectors in bacteria and eukaryotes including shuttle vectors. Demonstration of animal handling for experimental purposes: cervical dislocation. cDNA and genomic DNA cloning and characterization. 2. in vivo. viral and non viral.
Gene expression informatics.regeneration by organogenesis and somatic embryogenesis from callus and cell suspension culture. Simulation of molecular interactions. 15L BT 22 BIOINFORMATICS 60L Bioinformatics Algorithms and Tools: Publicly available databases.from databases. Sequence alignment. biotic and abiotic stress tolerance-insects. Drug designing and Chemoinformatics: Acquisition of chemical information . haploids in plant breeding. bacteria. 10L BOS (UoP) Page 5 7/10/2008 . Explant preparation. Immunoinformatics-epitope prediction 15L Bioinformatics: The Business of Research: Research methodology (focusing on computer-based research). SMILES. CATH. salt. Energy Optimization techniques: golden section method.Advantages of tissue culture techniques over conventional methods for crop improvement. Case studies of areas of current bioinformatics research.Simplified Molecular Input Line Entry System. definition and landmarks 5L Algal biotechnology – qualitative and quantitative improvement in economically important algae 5L Fungal biotechnology – qualitative and quantitative improvement in economically important fungi (higher fungi) 10L Seed plant biotechnology – qualitative and quantitative improvement in economically important seed plants 5L Micropropagation . Transgenic plants.including molecular structures . secondary metabolites. Raphson. carbohydrates. protein foldingstructure function relationship. viruses. conjugate gradient. protein structure predictions. plant-derived vaccines. crop improvement somaclonal variation. secondary and tertiary. parabolic interpolation. fungi. Genetically engineered biotherapeutics and vaccines and their manufacturing.DNA fingerprinting. Visualisation of sequence data. drought. Ramchandran plot.. Bioinformatics business models 15L BT 23 PLANT BIOTECHNOLOGY 60L Plant Biotechnology: Overview – concept. increase in productivity by manipulation of photosynthesis. locating binding sites in protein structure. Structure based drug designing. quality improvement of protein. Plant growth regulators/retardants in plant tissue culture. nutrient uptake efficiency. genetic algorithm. weeds. nitrogen fixation. Plantibodies. flooding and temperature. 20L Structural Bioinformatics: Protein structures. 15L Transgenics for stress tolerance.including BLAST. Routes to research funding (academic and commercial). lipids. somatic hybridization. protein structure classification-SCOP. Homology searching . conformational energy calculations. Introduction to industry-standard modeling software. Introduction to gene finding 10L Molecular Modeling. direct embryogenesis. Visualisation of molecules.
Agrobacterium mediated genetic transformation and recombinant selection. Rodenticides and fungicides • Biofertilizers & Vermiculture • Phytoremediation • Pharmaceuticals. assay of drugs or Hairy root culture for secondary metabolite production 3. Restriction map analysis 4. Gene prediction – Gene D’cefer 11.coli 3. 9. BT25a TOOLS IN BIOINFORMATICS (PRACTICAL) – 30H 1. PCR/ RFLP technique 11. Protein annotation . Homology Modeling using Swiss PDB – Hb. Lalign 3. Isolation of plasmid DNA. Protease 7. Nutraceuticals and cosmaceuticals • Biofuels • Single Cell Proteins 10L BT24 GENETIC ENGINEERING (PRACTICAL) – 60H 1. cDNA synthesis and cloning 10. In vitro induction of somatic embryogenesis Or Anther culture for haploid production BOS (UoP) Page 6 7/10/2008 . Electrophoresis of RNA on denaturing gels. Virus propagation in cells. 7. ISSR. Northern and dot blotting technique. Retrieval of sequences using ENTREZ 2. protein-small molecules 8. cytopathogenic response of cells to viruses or Chlorela and Spirulina culture and biochemical analysis of products. Isolation of cytoplasmic RNA 6. Comparative proteomics and genomics – Proteome calculator 13. Docking: protein-protein. Adhesion protein prediction – Sea path 12. Multiple sequence alignment and Phylogenetic analyzing using Clustal. To mutate protein and energy minimization using Swiss PDB viewer 10.Applications: • Mass multiplication of economically important plants • Biopesticides – Insecticides. Separation of poly A+ RNA on oligo-dT column 8. Calculation of Phi and Psi angle .PLHost BT 25b APPLIED PLANT TISSUE CULTURE (PRACTICAL) – 30H 1.i) minipreparation ii) large scale isolation 2. Studying 3D structure using RASMOL 5. In vitro production of secondary metabolites. Sequence analysis using BLAT.Hb. ClustalW 4. 2. 12. Southern blot analysis 5. Protease 6. Characterisation of transformants: DNA gel electrophoresis. Amplification of RAPD. Potential energy calculation of regular structures 9. In vitro DNA ligation. transformation of E. SSR and AFLP markers. Align.
methods and processes. plant and animal cells). antibiotics.operation. Genetic modifications – methods. correlation between mass-transfer coefficient and operating variables. conservation and exchange in India. membrane transport. organic acids. enzymes. mutation and genetic engineering for strain improvements. hollow fibre reactors. maintenance. microbes as biocontrol agents and chemical factories. artificial breeding-methods and hazards. long-term maintenance and characterization. analysis and isolation of products. Aeration and agitation in fermentation: Oxygen requirement. problems after developing transgenic animals. Gene banking. 13L BT 33a PRINCIPLES OF VIROLOGY Basic virology: Classification. development of cultivations systems for aerobes and anaerobes. artificial insemination. agriculture and industry. Protoplast isolation and fusion 5. bubble aeration. morphology and ultrastructure Viral replication: VSV. mass transfer diffusion. alcohols and vaccines. applications in medicine. assessment of proliferation heterogeneity. product formation and inhibition pathways and their regulations. integration of microinjected sequences into embryos – case study on mice. mechanical agitation. 30L Transgenic animals: artificial breeding – in vitro fertilization and embryo transfer.chemically structured models. measurement and control in fermentation. Biogas production – pathways. growth analysis. germ cell storage. amino acids. and kinetics of growth. 30L BT 32 FERMENTATION TECHNOLOGY 60L Introduction to fermentation: aerobic and anaerobic fermentations. applications in waste management. 10L Bioprocess technology: Down stream processing-Methods for vitamins. 25L Molecular engineering: Important strains and pathways – types. immobilized cell reactors. Fermenter design .4. Polio & HIV BOS (UoP) Page 7 30L 15L 7/10/2008 . 12L Biotransformation: types. cell plating efficiency Semester III: BT 31 ANIMAL BIOTECHNOLOGY 60L Animal biotechnology: Overview-livestock breed and their productivity. Pox/SV40. measurement of adsorption coefficients. regulation/modulation. cell suspension culture. Applications of cells in bioprocesses (lactic acid bacteria. Kinetics of growth and product formation . Stem cells – principles for identification. purifications. Cell culture – types. mixed cultures. Effect of plant growth regulators on various explants for callus induction. yeasts. medicine and agriculture. advanced biomethanation systems and their applications. genetics and applications.
measles as examples Immunopathogenesis Acute and persistent infections Animal and poultry viruses Plant viruses New emerging viral diseases Clinical trials: viral vaccines. Immunoelectrophoresis 6. Electron microscopic observations of ultrastrucutre of animal viruses 2. Cell-cell interaction and signal transduction during immune response. 15L BT 34 TECHNIQUES IN ANIMAL BIOTECHNOLOGY (PRACTICAL) – 30H 1. 4. 4. BT 33b ADVANCED IMMUNOLOGY 15L 30L Basic immunology: Immune system: cells. 5. Immunodiffusion 5.Haemagglutination technique. antibody engineering. polyvalent vaccines. Evoultion of immune response in plants. Large scale manufacture of antibodies. Rocket immunoelectrophoresis BOS (UoP) Page 8 7/10/2008 . Complement system. organs. therapy. 5. Parasitic immunology. 2. Chimeric antibodies. Innate immunity vs. Growth studies by viable cell count analysis Effect of growth factors on cell proliferation In situ localization of antigens during cell proliferation immunofluorescence microscopy. Auto immunity. 3. by BT 35a BIOPROCESS ENGINEERING (PRACTICAL) – 30H 1. Working of lab bench fermentor. Transplant immunology. 2. Propagation of viruses in animals/tissue culture/embryonated eggs and preparation of virus 3. acquired immunity. Recombinant vaccines. Hybridoma technology (Monoclonal antibody) and other techniques in molecular immunology. ELISA 4.Vaccine development. tissues. Experimental immunology . 3. molecular mimicry. 15L Advanced immunology: Animal models and transgenic animals and their use in immunological studies. Manufacturing of immuno-diagnostics. industrial fermentor Optimization of parameters for growth and product formation Monitoring and control of fermentation parameters Solid state fermentation – biogas production Batch and continuous fermentation Biotransformation BT 35b TECHNIQUES IN VIROLOGY AND IMMUNOLOGY (PRACTICAL) – 60H 1. phage display. insects and mammals. Study of embryonic induction during development in frog/chick Initiation of mammalian cell culture and maintenance. combined vaccines. Stem cell technology. 6. Microtitration .Viral replication: Bacteriophages Infectivity assays Viral Diagnosis Antivirals and Vaccines Epidemiology: Principles and applications Epidemiology with reference to HIV.
12. 11. Radioimmunoassay. Rights of a patentee. remedies against infringement: civil and criminal. Transcriptomics and microarray. Toxicogenomics. Contents of patent specification and the procedure for patents. Procedure for obtaining patents. (a) Obtaining patents. 20L BT 43 CLINICAL RESEARCH AND DATABASE MANEGEMENT 30L+15H P BOS (UoP) Page 9 7/10/2008 . identification and characterization of novel proteins. Western blotting 8. Biotechnology patents and patents on computer programs. rosette-formation. (b) Geographical indication.7. Budapest treaty. complement fixation Semester IV: BT 41 GENOMICS & PROTEOMICS 45L Genomics 25L Introduction to genomics. Proteomics methodologies. Software copyright. Cell hybridization 9. commercial exploitation and infringement IPR laws: Rights/protection. Designs: Introduction to the law on Industrial Designs. 10. Copyright: Registration procedure and copyright authorities. Indian Patent Act 1970 and TRIPS. BT 42 LEGAL AND ETHICAL ASPECTES IN BIOTECHNOLOGY AND IPR 45L Basic Concepts of Intellectual Property: Introduction to intellectual property rights. Global analysis of gene expression. Comparative genomics. design and copyright: 20L (8L+5L+7L) Patents: Introduction to patent law and conditions for patentability. International perspective. Assignment and transfer of copyright Copyright infringement and exceptions to infringement. Production of polyclonal antibodies and characterization. Patents from an international perspective. Detailed information on patenting biological products. screening of diagnostic markers. sequencing strategies for whole genome analysis. Computational approach for studying protein–protein interactions. infringement or violation. Agglutination. Plant breeders’ and farmers’ rights. Proteomics applicatioons: drug development. Proteomics 20L Strategies in proteomics. Registration and piracy. Intellectual property laws. Immunofluorescence. Patent infringements. Biodiversity. Appropriate case studies. Registration. Pharmacogenomics. Structural genomics. Functional genomics. (c) WTO. genome annotation. Major changes in Indian Patent system as post TRIPS effects. sequence data analysis. Trade Related Aspects of Intellectual Property Rights 5L Forms of IPR like patent. Structural/functional proteomics.
libraries. and Marketing. isotopic methods.peptides. Natural in organism. Conbinatronics: introduction. Biosensors. Micelle. Development. Synthesis of nanostructures : Natural in inorganic. Nanoscience and Nanotechnology . application of tools of molecular biology. immunoassays. kinetic analysis (including introduction to pharmacokinetics). including DNA and RNA analysis. drug delivery.The Establishment of the Food and Drug Administration. synthesis. physiologic studies.nanoparticles. Detection of nanoparticles in colloidal solutions using UV-Vis absorption technique 6. Medical Device Research. and Licensing Process.15H 1. 12L Clinical Trial Development and Management: Protocol Design and Development. structural elements. laboratory quality control and normative values. Development.15H Metabolic studies. Chemical Vapor Deposition. Synthesis of nanoparticles using biological process – (2-3 methods) 5. Safety. Pyrolysis.). Biomolecules as nanostructures and their applications in nanotechnology viz. Practicals : . and Well-Being of Human Subjects. thin films and multilayers 5L Applications in various fields viz. Hydrothermal Method. The Biologics Research. Size determination of nanoparticles using laser beam BOS (UoP) Page 10 7/10/2008 2L . The History of the Legislation and Regulations. Chemical Precipitation. 14L Functionalization of nanoparticles for biological applications. Synthesis of Al2O3 nanoparticles using sol gel method 2. which Govern the Clinical Research Process. non peptides. Recording and Reporting Non-Serious and Serious Adverse Events. Principals of Data Management and the Query Resolution Process. separation of cells and cell organelles. which Protect the Rights. gene therapy etc. chemical and physical methods -Sol Process. pedigree analysis.) nanoparticles by chemical method 4. Case Report Form Design and Development. 10L Methods in clinical research . Synthesis of Fe2O3 nanoparticles by chemical method 3. Physical and Chemical. solid phase peptide synthesis. Sputtering etc. Synthesis of semiconductor (ZnS. Bio-based Protocol. Essentials of Source Documentation: Maintaining and Managing Essential Documents. receptor studies. etc. multiple solid phase synthesis BT 44a NANOBIOTECHNOLOGY 30L+15H P Theory: Introduction to Nanoworld. Materials. techniques for genetic analysis (RFLP. Life Sciences 5L Nanobiotechnology: Introduction. The Study Types Providing Expanded Access to Investigational Products. CdS etc. imaging. 8L Drug Discovery and Pre-Clinical Research: The Clinical Research and New Drug Application Approval Process. nanowires. 4L Recent trends in Nanobiotechnology.
Analysis of AFM. XRD Data analysis – case studies 9. BT 44c AGRICULTURAL BIOTECHNOLOGY Homozygous plant production through ovule. Embryonic stem cells. Functionalization of nanoparticles for biological application – (4-5 methods) 8. Embryo rescue & embryo culture in rearing viable hybrid embryos Endosperm culture & production of triploids Apomixis & experimental polyembryony Micropropagation for multiplication of selected elite varieties of a) cereal. diagnostic kits & virus indexing Biofertilizers. pest resistant.7. biopesticides Transgenic crops. Biological sample preparation for SEM 10. source of secondary metabolites and edible vaccines.herbicide resistant. metabolic engineering 18L Somaclonal and gametoclonal variations and their applications in crop improvement 2L 25L 45L 20L Case studies in agro-biotechnology –one each from a) cereal. ES cell technologies. b) pulse. cytoplasmic rearrangement. SEM and TEM pictures. 5L BT 45 PROJECT 120H BOS (UoP) Page 11 7/10/2008 . Use of bioreactors in plant production & Scale-up – Marker assisted technology. Human cloning and Bioethics. embryonic induction. differentiation. Gene therapy. BT 44b STEM CELL TECHNIQUES & REPRODUCTION Cells of Reproduction and Early Development: Gamets and fertilization Early development: Metabolic activation. cell lineages. b) pulse and c) oil seed crops. cell differentiation 20L 45L Committed Cells and Late Development: Stem cells. c) oil seed crops. anther & pollen culture and their applications. stress tolerant Biotic & abiotic stress. Transgenics and knock outs. Embryonic stem cells. pattern formation.
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