M.Sc II Syllabus Sept 23-2014 - Savitribai Phule Pune .
SAVITRIBAI PHULE PUNE UNIVERSITYM. SC. [II] MICROBIOLOGY SYLLABUS – CREDIT & SEMESTER SYSTEM SAVITRIBAI PHULE PUNE UNIVERSITYM. Sc. II (Microbiology)Revised SyllabusForCredit and Semester SystemPost Graduate Course in Microbiologyw. e. f. 2014‐151
SAVITRIBAI PHULE PUNE UNIVERSITYM. SC. [II] MICROBIOLOGY SYLLABUS – CREDIT & SEMESTER SYSTEMSemester IIIPaper TitleMB – 701: ImmunologyMB – 702: MolecularBiology – IMB‐ 703: Industrialwastewater treatmentMB‐711: Practical coursebased on Immunology,PharmaceuticalMicrobiology andEnvironmentalMicrobiologyMB‐712: Practical coursebased on MolecularBiology (I and II) andMicrobial TechnologySemester IIICredit CodeCredit title3.01 TCCell surface molecules and receptors3.02 TCRegulation of Immune response3.03 TCExperimental Immunology3.04 TNTumor Immunology3.05 TNInfection and Immunity3.06 TNImmunological disorders3.07 TNImmune system evolution3.08 TCTools in molecular biology3.09 TCFine Control of Prokaryotic and Eukaryotictranscription3.10 TCRNA processing3.11 TNMobile DNA elements3.12 TNProteomics3.13 TNTechniques in Molecular biology and diagnosticapplications3.14TCWastewater Management Principles3.15 TCPretreatment & Primary treatment process3.16 TCSecondary and Tertiary Treatment process3.17 8 TNEnvironment Impact Assessment3.19 TNAdvanced wastewater treatment processes3.20 PCAntigen . Antibody Interactions3.21 PCCell Culture Techniques3.22 PCDetection and isolation of anti‐infectives fromplant3.23 PCIndustrial waste water treatment3.24 PCOn‐site experimentation3.25 PCMolecular Biology – I3.26 PCMolecular Biology – II3.27 PCBioconversion3.28 PCLaboratory scale production3.29 PCBiosorption2
SAVITRIBAI PHULE PUNE UNIVERSITYM. SC. [II] MICROBIOLOGY SYLLABUS – CREDIT & SEMESTER SYSTEMSemester IVSemester IVPaper TitleCredit Code Credit titleMB – 801: Pharmaceutical 4.01 TCDrug Discovery and Development:and Medical Microbiology 4.02 TCDevelopment of Anti‐infectives4.03 TCDeterminants of Microbial Pathogenicity4.04 TNDiscovery of anti‐infectives4.05 TNQualityAssuranceandValidationinPharmaceutical Industry4.06 TNBiopharmaceuticals –Regulations and Sources4.07 TNClinical Microbiology4.08 TCGenomicsMB 802: MolecularBiology II4.09 TCGene technology4.10 TCApplications of recombinant DNA technology –Production of Secondary Metabolites4.11 TNGenetically modified animals and plants4.12 TNGene annotation4.13 TNGenome projectMB 803: Microbial4.14TCBioreactor design and operationTechnology4.15 TCProcess Variables and Monitoring4.16 TCMicrobial Processes and Intellectual propertyrights4.17 TNMicrobial Growth characteristics and productformation4.18 TNUse of fungi in industry4.19 TNBio‐molecule production by animal cell culturetechnology4.20 TNPrinciples of Validation Process / MethodValidationMB 811: Dissertation I(5 credits)MB 812: Dissertation II(5 credits)3
SAVITRIBAI PHULE PUNE UNIVERSITYM. SC. [II] MICROBIOLOGY SYLLABUS – CREDIT & SEMESTER SYSTEMSEMESTER – IIIMB – 701: ImmunologyCreditCredit Title and ContentsNo3.01 TC Cell surface molecules and receptorsa. Structure and function of G‐protein coupledreceptors, Toll‐like receptors, Cytokine receptors, TCell receptor, B Cell Receptor, adhesion molecules inimmune activationb. Tyrosine kinase linked receptors, TCR‐CD3 complex,Signal transduction pathways: IL‐2 pathway(JAK/STAT and Ras/MAP Kinase Pathways)3.02 TCReferences1. Akihiko Yoshimura, Tetsuji Naka and Masato Kubo, (2007), SOCSproteins, cytokine signaling and immune regulation, NatureReviews, Immunology, 7:454‐4652. Austyn J. M. and Wood K. J. (1993) Principles of Molecular andCellular Immunology, Oxford University Press,3. Barret James D. (1983) Text Book of Immunology 4th edition, C. V.Mosby & Co. London.4. Boyd William C. (1966) Fundamentals of Immunology,Interscience Publishers, NY.5. Christopher K. Garcia and Erin J. Adams, (2005), How the T CellReceptor Sees Antigen—A Structural View, Cell, Vol. 122: 333–336, Elsevier Inc.6. David A. Hafler, (2007), Cytokines and interventional immunology,Nature Reviews, Immunology, 7: 4237. Gangal Sudha and Sontakke Shubhangi (2013), Textbook of Basicand Clinical Immunology Paperback, University Press, India8. Kindt, Osborne, Goldsby, (2006), Kuby Immunology, 6th Ed., W. H.Freeman & Co.1. Abbas A. K. and Litchman A. H. (2004), Basic Immunology,Regulation of Immune responsea. Negative regulation ‐ Immunological tolerance,Functions and Disorders of Immune System, 2nd Ed., Elsevier Inc.Mechanisms of tolerance induction (related2. Akihiko Yoshimura, Tetsuji Naka and Masato Kubo, (2007), SOCSexperimentation using transgenic animals), T cellproteins, Cytokine signaling and Immune regulation, Naturemediated suppression of immune responseReviews, Immunology, 7:454‐465b. Regulation of immune responses by: antigen,3. Bhushan Patwardhan, Sham Diwanay and Manish Gautam.antigen‐antibody complexes, Network theory and its(2006). Botanical Immunomodulators and Chemoprotectants inexperimental evidenceCancer Therapy. In Drug discovery and development Volume I:4
SAVITRIBAI PHULE PUNE UNIVERSITYM. SC. [II] MICROBIOLOGY SYLLABUS – CREDIT & SEMESTER SYSTEMc. Cytokine mediated cross regulation of TH subsets(TH1‐TH2)d. Regulation of complement system – Classical andalternative pathwaye. Immunomodulation: BRMs for therapy4.5.6.7.8.3.03 TCExperimental Immunologya. Animal Cell Culture techniques: Definition of terms –primary cell culture and cell lines, established cellslines, suspension and anchorage dependent cellcultures, transformation of cells in culture, culturemedia, factors affecting cells in culture, cell linenomenclature.b. In vitro systems –Quantification of cytokines(ELISPOT assay), functional assays for phagocytesand cytokines (cytotoxicity and growth assays)c. In vivo systems – Experimental animals inimmunology research (Inbred animal strains, Knock‐out mice, transgenic animals), Animal models forautoimmunity and AIDS1.2.3.4.5.6.7.8.9.Drug Discovery. Ed. Chorghade Mukund S., (2006), Wiley‐Interscience, John Wiley and Sons Inc. USA. 405‐424.Kindt, Osborne, Goldsby, (2006), Kuby Immunology, 6th Ed., W. H.Freeman & Co.Michael C Carroll, (2004), The complement system in regulationof adaptive immunity, Nature Immunology 10:981‐986Michael C Carroll, (2004),The complement system in regulation ofadaptive immunity, Nature Immunology, 5(10):981‐986Roitt I. M. (1988) Essentials of Immunology, ELBS, London.Roitt M. (1984) Essentials of Immunology, P. G. Publishers Pvt.Ltd., New Delhi.Freshney R. Ian, (2005), Culture of Animal Cells: A Manual ofBasic Technique, 5th Ed., John Wiley & Sons, Inc.Gangal Sudha and Sontakke Shubhangi, 2013, Textbook of Basicand Clinical Immunology Paperback, University Press, IndiaHouse Robert V., (1998), Therapeutic Manipulation of Cytokines,Biotechnology and Safety Assessment, 2nd Ed., Taylor & Francis,81‐105Kindt, Osborne, Goldsby, (2006), Kuby Immunology, 6th Ed., W.H. Freeman & Co.Masters John R. W., (2000), Animal Cell Culture – A PracticalApproach, 3rd Ed., Oxford University Press.Mather Jennie P. and Penelope E. Roberts, (1998), Introductionto Cell and Tissue Culture Theory and Technique, Plenum Press,New YorkRoitt Evan, Brostoff J. Male D. (1993) Immunology 6th Ed., Mosby& Co. London.Talwar G. P. (1983) Handbook of Immunology, Vikas PublishingPvt. Ltd. New Delhi.William E., Md. Paul, (2003), Fundamental Immunology, 5th Ed,Lippincott Williams & Wilkins Publishers5
SAVITRIBAI PHULE PUNE UNIVERSITYM. SC. [II] MICROBIOLOGY SYLLABUS – CREDIT & SEMESTER SYSTEM3.04 TNTumor Immunologya. Cellular transformations during neoplastic growth,Classification of tumors based on histological,physiological, biochemical and immunologicalproperties, Tumors of lymphoid system (lymphoma,myeloma, Hodgkin’s disease)b. Escape mechanisms of tumor from host defense,Host immune response to tumor – Effectormechanisms, Immuno‐ surveillance theoryc. Diagnosis of tumors – biochemical andimmunological tumor markersd. Approaches in cancer immunotherapy: Immuneadjuvant and tumor vaccine therapy,3.05 TNInfection and ImmunityHost immune response to pathogens, pathophysiology andImmunotherapeutic approaches to:a. Bacterial infections (M. tuberculosis andSalmonella)b. Viral (HIV‐AIDS and Herpes simplex)c. Parasitic (Plasmodium and Leishmania)1. Ann M. Leen, Cliona M. Rooney and Aaron E. Foster, (2007),Improving T Cell Therapy for Cancer, Ann. Rev. Immunol.25:243–652. Bhushan Patwardhan, Sham Diwanay and Manish Gautam.(2006). Botanical Immunomodulators and Chemoprotectants inCancer Therapy. In Drug discovery and development Volume I:Drug Discovery. Ed. Chorghade Mukund S., (2006), Wiley‐Interscience, John Wiley and Sons Inc. USA. 405‐424.3. Chatterji C. C. (1992) Human Physiology Vol. 1 &2, Medical AlliedAgency, Calcutta.4. Guyton A. C. and Hall J. E. (1996) Text Book of MedicalPhysiology, Goel Book Agency, Bangalore.5. Malati T. (2007), Tumor Markers: An Overview, Indian Journal ofClinical Biochemistry, 22(2):17‐316. Rev., 435 2:605‐611Bendelac Albert, Paul B. Savage, and LucTeyton, (2007), The Biology of NKT Cells Ann. Rev. Immunol.25:297–3367. Sham Diwanay, Manish Gautam and Bhushan Patwardhan.(2004). Cytoprotection and Imunomodulation in Cancer Therapy.Current Medicinal Chemistry – Anti‐Cancer Agents, 4: 479‐4908. Stuhler G. and Walden P. (2002), Cancer Immune Therapy –Current and Future Strategies, Wiley‐VCH1. Abbas A. K. and Litchman A. H. (2004), Basic Immunology,Functions and Disorders of Immune System, 2nd Ed., Elsevier Inc.2. Gabriel Virella, (2001), Medical Immunology, 5th Ed., MarcelDekker, Inc.3. Hughes Eric A. and Jorge E. Galan, (2002), Immune Response toSalmonella: Location, Location, Location?, Immunity, 16: 325–3284. Pathak S. S. and Palan V. (1997) Immunology ‐ Essential andFundamental, Pareen Publications Bombay.6
SAVITRIBAI PHULE PUNE UNIVERSITYM. SC. [II] MICROBIOLOGY SYLLABUS – CREDIT & SEMESTER SYSTEM3.06 TN3.07 TN5. Rabson A., Ivan M. Roitt and Peter J. Devles, (2005), ReallyEssential Medical Immunology, 2nd Ed., Blackwell Publishing Ltd.6. Roitt Evan, Brostoff J. Male D. (1993) Immunology 6th Ed., Mosby& Co. London.1. Abbas A. K. and Litchman A. H. (2004), Basic Immunology,Immunological disordersPathophysiology, diagnosis, prognosis and therapeuticFunctions and Disorders of Immune System, 2nd Ed., Elsevier Inc.approaches to:2. Baron D. N. Short Text book on Chemical Pathology, ELBS,a. Immunodeficiency disorders – humoral deficiencies,London.T‐cell deficiencies, and combined deficiencies,3. Garrison Fathman1 C., Luis Soares, Steven M. Chan1 & Paul J.complement deficienciesUtz1, (2005), An array of possibilities for the study ofb. Autoimmune disorders (Immunopathologicalautoimmunity, Naturemechanisms and theories of autoimmunity) ‐4. Rabson A., Ivan M. Roitt and Peter J. Devles, (2005), ReallyRheumatoid arthritis, Systemic LupusEssential Medical Immunology, 2nd Ed., Blackwell Publishing Ltd.Erythomatosus (SLE), Neurologic disease‐5. Stites D. P., Stobo J. D., Fudenberg H. H. and Wells J. V., (1982),Myasthenia gravisBasic and Clinical Immunology, 4th Ed., Lange MedicalPublications, Maruzen Asia Pvt. Ltd., Singapore1. Biotechnology by open learning series (BIOTOL), (1993), DefenseImmune system evolutiona. Strategies of survival of species of living formsMechanisms, Butterworth and Heinemann Ltd., Oxfordb. Status of immune system in invertebrates and2. Max D. Cooper and Matthew N. Alder (2006), The Evolution ofvertebrates with reference to diversity, complexityAdaptive Immune Systems, Cell, 124: 815–822, Elsevier Inc.and efficiency of cells and molecules, anatomical3. Pancer Zeev and Max D. Cooper, (2006), The Evolution oforganization,Adaptive Immunity, Ann. Rev. Immunol. 24:497–518c. Functional and structural evolution of4. Stites D. P., Stobo J. D., Fudenberg H. H. and Wells J. V., (1982),immunoglobulinBasic and Clinical Immunology, 4th Ed., Lange MedicalPublications, Maruzen Asia Pvt. Ltd., Singapore5. William E., Md. Paul, (2003), Fundamental Immunology, 5th Ed,Lippincott Williams & Wilkins Publishers6. Zeev Pancer and Max D. Cooper, (2006), The Evolution ofAdaptive Immunity, Ann. Rev. Immunol., 24: 497–5187
SAVITRIBAI PHULE PUNE UNIVERSITYM. SC. [II] MICROBIOLOGY SYLLABUS – CREDIT & SEMESTER SYSTEMMB – 702: Molecular Biology ICreditCredit Title and ContentsNo3.08 TCTools in molecular biology Activity gel assay, ChIP,, Designing probe, Detectionof DNA binding, DMS foot printing, DNA helicaseassay, Epitope tagging, Sequence tagged sites, Filterbinding assay, Protein foot printing, Knockout mice, phage display,Expressed sequence tags, Yeast two and threehybrid assay, RFLP, finding the replicon, DNA finger printing,Measuring transcription rates, Finding RNAsequences that interact with each other.References1. Benjamin Lewin. (2008) Genes IX, Jones and Bartelett PublishersInc.2. Functions and Mechanics of RNA editing, J. M. Goot, Ann. Rew.Gent., 2000, 30, 419‐53.3. .1.037.27556/pdf4. ev‐biochem‐052610‐0919205. 230.html6. 535.html7. 708. http://www.ncbi.nlm.nih.gov/pubmed/209207449. James D. Watson, Tania Baker, Stephen P. Bell, Alexander Gann,Michael Levine, Richard Loswick (2004) Molecular Biology of theGene, 5th Edition, Pearson Education, Inc. and Dorling KindersleyPublishing, Inc.10. Mechanism of subcellular mRNA localization, 2002, CSH, 108, 533‐44.11. Micro RNAs in cell proliferation, Cell death and tumorogenesis, B.J. of Cancer, 2006, 94.12. Molecular Biology of the Cell, Bruce Albert et. al., 6th Ed., GarlandSciences.13. Molecular Biology, Loddish et. al., 7th Edn., W. H. Freeman, 201214. NC RNAs regulations of disease, Taft et. al., J. of Path, 2010, 220,126‐3915. Recent progress in structure, Biology and tRNA processing and8
SAVITRIBAI PHULE PUNE UNIVERSITYM. SC. [II] MICROBIOLOGY SYLLABUS – CREDIT & SEMESTER SYSTEM3.09 TCFine Control of Prokaryotic and Eukaryotic transcription Lactose operon: repressor‐operator interactions,mechanism of repression, Positive control of lacoperon‐Mechanism of CAP action, The Arabinose operon: Ara operon repression loop,evidence for repression loop, auto regulation ofaraC The trp operon:‐ control of trp operon byattenuation, defeating attenuation, Riboswitches, Sigma factor Switching:‐ Phage infection‐ T4,T7infection in E. coli, SPO1 infection in B. subtilis.3.10 TCRNA processing mRNA processing: splicing, capping,polyadenylation., coordination of mRNA processingmodification. Mol. Cell., 19(2), 2005, 157‐6616. Weaver R., (2007) Molecular Biology, 4th Edition, McGrew HillScience.1. Functions and Mechanics of RNA editing, J. M. Goot, Ann. Rew.Gent., 2000, 30, 419‐53.2. /student view0/chapter3/animationdna replication quiz 1 .html3. http://www.johnkyrk.com/DNAreplication.html4. James D. Watson, Tania Baker, Stephen P. Bell, Alexander Gann,Michael Levine, Richard Loswick (2004) Molecular Biology of theGene, 5th Edition, Pearson Education, Inc. and Dorling KindersleyPublishing, Inc.5. Lewin’s Genes XI, (2014) Jones and Bartelett Publishers Inc.6. Mechanism of subcellular mRNA localization, 2002, CSH, 108, 533‐44.7. Micro RNAs in cell proliferation, Cell death and tumorogenesis, B.J. of Cancer, 2006, 94.8. Molecular Biology of the Cell, Bruce Albert et. al. , 6th Edn.,Garland Sciences.9. Molecular Biology, Loddish et. al., 7th Edn., W. H. Freeman, 201210. NC RNAs regulations of disease, Taft et. al., J. of Path, 2010, 220,126‐3911. Recent progress in structure, Biology and tRNA processing andmodification. Mol. Cell., 19(2), 2005, 157‐6612. Weaver R., (2007) Molecular Biology, 4th Edition, McGrew HillScience.1. Concepts of Genetics, W.S. Klug and M.R. Cummings, (2005)Pearson education2. Functions and Mechanics of RNA editing, J. M. Goot, Ann. Rev.Gent, 2000, 30, 419‐53.9
SAVITRIBAI PHULE PUNE UNIVERSITYM. SC. [II] MICROBIOLOGY SYLLABUS – CREDIT & SEMESTER SYSTEM 3.11 TNrRNA processing: tRNA processing, Non codingRNAs and their production and role.RNA interference; SiRNA, micro‐RNA role in genesilencing,Mobile DNA elements Transposable elements in bacteria, IS elements,composite transposons, Integrons. Replicative, nonreplicative transposons, and Mutransposition Controlling elements in Tn A, Tn 5 and Tn 10transposition Transposons in maize and Drosophila Retroviruses and retrotransposon, Ty elements inyeasts SINES, LINES and Alu elements. Significance of transposons and Integrons.3. James D. Watson, Tania Baker, Stephen P. Bell, Alexander Gann,Michael Levine, Richard Loswick (2004) Molecular Biology of theGene, 5th Edition, Pearson Education, Inc. and Dorling KindersleyPublishing, Inc.4. Lewin’s Genes XI, (2014) Jones and Bartelett Publishers Inc.5. Mechanism of subcellular mRNA localization, 2002, CSH, 108, 533‐44.6. Micro RNAs in cell proliferation, Cell death and tumorogenesis, B.J. of Cancer, 2006, 94.7. Molecular Biology of the Cell, Bruce Albert et. al. , 6th Edn.,Garland Sciences.8. Molecular Biology, Loddish et. al., 7th Ed., W. H. Freeman, 20129. NC RNAs regulations of disease, Taft et. al., J. of Path, 2010, 220,126‐3910. Recent progress in structure, Biology and tRNA processing andmodification. Mol. Cell., 19(2), 2005, 157‐6611. Weaver R., (2007) Molecular Biology, 4th Edition, McGrew HillScience.1. Functions and Mechanics of RNA editing, J. M. Goot, Ann. Rew.Gent., 2000, 30, 419‐53.2. James D. Watson, Tania Baker, Stephen P. Bell, Alexander Gann,Michael Levine, Richard Loswick (2004) Molecular Biology of theGene, 5th Edition, Pearson Education, Inc. and Dorling KindersleyPublishing, Inc.3. Lewin’s Genes XI, (2014) Jones and Bartelett Publishers Inc.4. Mechanism of subcellular mRNA localization, 2002, CSH, 108, 533‐44.5. Micro RNAs in cell proliferation, Cell death and tumorogenesis, B.J. of Cancer, 2006, 94.6. Molecular Biology of the Cell, Bruce Albert et. al., 6th Ed., Garland10
SAVITRIBAI PHULE PUNE UNIVERSITYM. SC. [II] MICROBIOLOGY SYLLABUS – CREDIT & SEMESTER SYSTEM3.12 TNSciences.7. Molecular Biology, Loddish et. al., 7th Edn., W. H. Freeman, 20128. NC RNAs regulations of disease, Taft et. al., J. of Path, 2010, 220,126‐399. Recent progress in structure, Biology and tRNA processing andmodification. Mol. Cell., 19(2), 2005, 157‐6610. Weaver R., (2007) Molecular Biology, 4th Edition, McGrew HillScience.Proteomics1. Functions and Mechanics of RNA editing, J. M. Goot, Ann. Rew.Gent, 2000, 30, 419‐53. Expression, Analysis and Characterization of Protein.2.JamesD. Watson, Tania Baker, Stephen P. Bell, Alexander Gann, Analysis of protein structureMichael Levine, Richard Loswick (2004) Molecular Biology of the Protein interaction.Gene,5th Edition, Pearson Education, Inc. and Dorling Kindersley Metabolomics and global biochemical networksPublishing, Inc.3. Lewin’s Genes XI, (2014) Jones and Bartelett Publishers Inc.4. Mechanism of subcellular mRNA localization, 2002, CSH, 108, 533‐44.5. Micro RNAs in cell proliferation, Cell death and tumorogenesis, B.J. of Cancer, 2006, 94.6. Molecular Biology of the Cell, Bruce Albert et. al. , 6th Ed., GarlandSciences.7. Molecular Biology, Loddish et. al., 7th Ed., W. H. Freeman, 20128. NC RNAs regulations of disease, Taft et. al., J. of Path, 2010, 220,126‐399. Recent progress in structure, Biology and tRNA processing andmodification. Mol. Cell., 19(2), 2005, 157‐6610. S.B Primrose and R M Twyman 2006 7th edition. Blackwellpublishing11. Weaver R., (2007) Molecular Biology, 4th Edition, McGrew HillScience.11
SAVITRIBAI PHULE PUNE UNIVERSITYM. SC. [II] MICROBIOLOGY SYLLABUS – CREDIT & SEMESTER SYSTEM3.13 TNTechniques in Molecular biology and diagnosticapplications PCR and its modifications, nested PCR, Hot sta
SAVITRIBAI PHULE PUNE UNIVERSITY M. SC. [II] MICROBIOLOGY SYLLABUS – CREDIT & SEMESTER SYSTEM 2 Semester III Semester III Paper Title Credit Code Credit title MB – 701: Immunology 3.01 TC Cell surface mole
Sept 8 Sept 10 Sept 12 Sept 15 Sept 17 Sept 19 Sept 22-26 Love and Desire Bernard Cooper, "A Clack of Tiny Sparks," Lit, pp. 339-346 Updike, "Sum.mer," (handout)
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