CURRICULUM (Revised with effect from 2007-2009 batch)
DEPARTMENT OF MICROBIOLOGY
REGULATIONS FOR M.Sc. MICROBIOLOGY (2 YEARS) (UNDER AUTONOMY)
Name of the Course: M.Sc. Microbiology
Department offering the Course: The Department of Microbiology, School of Life Sciences will be offering the course since 1994.
Eligibility for admission: A degree in Science with one or more branches of biology at the major or ancillary (subsidiary) levels.
Duration of the course: 2 Academic years consisting of two semesters each. Course Fees: Each student admitted to the M.Sc. Microbiology degree course will pay a Tuition, Lab, Special, Stationery, Chemical and computer and other fees as decided by the University from time to time. The student will have to pay additionally the fees prescribed by the University for recognition, matriculation etc. In addition, the student has to pay a sum of Rs.1, 000/- as Laboratory Caution Deposit, which would be refunded depending upon breakages etc., at the end of the course.
Board of Studies: The Board of Studies for academic programmes, syllabi etc., will consist of all the members of the faculty of the Department of Microbiology and two outside experts. The Head of the Department of Microbiology will be the Chairman. Syllabus: The Syllabi for the various courses are designed keeping in view the usefulness of the course to the students for (1) continuation of academic activity 3 leading to research, (2) employability in microbiology related vocations and (3) self-employment. Academic visits to institutions and or industries related to the courses during the semesters of study will form part of the curriculum. The students depending on their performance and choice would either have to carry out a project or undergo training or submit a report at the end of the final semester in an area of microbiology. From the academic year (2002-2004) Choice Based Credit System (CBCS) is introduced in all departments of the University. According to this system the M.Sc., Microbiology Course requires a student to earn 90 credits in four semesters. The basic course structure and the scheme of examinations are given in tables that follow. A student has to take four core courses including practical and two elective courses in the first and second semesters and six core courses including practical and a self study review paper in third semester. The fourth semester would be entirely devoted to the project work.
* * * * * * * * * 4 M.Sc., MICROBIOLOGY COURSE STRUCTURE The two year M.Sc, Microbiology program will have four semesters.
The Course structure will be as given below:
Semester Course Hours per week Total credits per course Credits per semester Four core courses 22 17 I Two Elective course 8 8 25 Four core courses 22 17 II Two Elective course 8 8 25 III Six core courses 30 25 25 IV Project work -- 15 15 Total 90
5 DETAILED COURSE STRUCTURE
S e m e s t e r
C o u r s e
c o d e
Name of the Course I n s t
H r s / W e e k
C r e d i t s
E x a m
H r s .
I n t e r n a l
E x t e r n a l
T o t a l
M a r k s
CC I Biological macromolecules (T) 4 4 3 25 75 100 CC II Microbial Cell Biology(T) 4 4 3 25 75 100 CC III Molecular Biology & Microbial Genetics (T) 4 4 3 25 75 100 CCIV Practical CCI, CCII, CCIII (lab) 10 5 6 60 90 150 EC I Biological Techniques (T) 4 4 3 25 75 100 I EC II Molecular taxonomy and phylogeny(T) 4 4 3 25 75 100 CC V Immunotechnology (T) 4 4 3 25 75 100 CCVI Medical Microbiology (T) 4 4 3 25 75 100 CC VII Virology (T) 4 4 3 25 75 100 CC VIII Practical CCV , CCVI, CCVII 10 5 6 60 90 150 EC III Commercial Biotechnology & IPR (T) 4 4 3 25 75 100 II EC IV Bio-Informatics and Bio-Statistics. (T) 4 4 3 25 75 100 CC IX Food & Dairy Microbiology (T) 4 4 3 25 75 100 CC X Recombinant DNA Technology (T) 4 4 3 25 75 100 CC XI Microbial Biotechnology (T) 4 4 3 25 75 100 CC XII Environmental & Agriculture Microbiology(T) 4 4 3 25 75 100 CC XIII Self Study Review 4 4 3 100 100 III CC XIV Practical CC IX, CC X, CC XI 10 5 6 60 90 150 IV CC XIX Project 15 150 150 90 2100
6 Continuous Internal Assessment:
The internal assessment component for theory for each student will include attendance, weekly tests, model exams, seminars and/or assignments. The internal assessment component for the lab course for each student will consist of attendance, performance in the laboratory, observation notebook, monthly tests and model tests. The Internal assessment component for each course will be 40% of the marks allotted to the course. This applies to theory as well as lab courses. In the case of core course CC XIII - self - study review in the III semester 100% internal assessment will be done and there will be no external component. There will be no passing minimum for internal assessment. However, if a student wishes to improve his/her internal assessment performance, he/she has to rejoin the course in the concerned semester after completing the four semesters. External Examination: The question paper setters for the external examinations in theory will be from out of a panel of examiners suggested by the course teachers and the board of studies. There will be a double valuation of the theory papers and one of them will be the course teacher. If the marks awarded by the two examiners differ by 10 or more, there will be a third valuation by a person appointed by the chairman and the average of the nearest two marks will be taken final irrespective of the difference in percentage. There will be two examiners for each lab course external examination of whom one will be internal. There will be combined evaluation of the students by the two examiners. Each lab course examination will include a viva-voce component, the marks for which should not exceed 20% of the marks allotted. A student has to obtain at least 50% of the marks allotted for the external component and at least 50% in the internal plus external aggregate to pass the theory or lab course component of each course passing minimum in the University examinations will be 40% and the candidate in aggregate should score 50%. Successful completion of a course requires a minimum of C grade or 4 grade points. Grading pattern is given below. 7
GRADING OF THE COURSES Marks Grade point Letter Grade 96 and above 10 S + 91-95 9.5 S 86-90 9.0 D ++
81-85 8.5 D +
76-80 8.0 D 71-75 7.5 A ++
66-70 7.0 A +
61-65 6.5 A 56-60 6.0 B 50-55 5.5 C Below 50 0 F
FINAL RESULT CGPA Grade Point Classification of Final Result 9.51 and above S + 9.01 9.50 S First Class Exemplary 8.51 - 9.00 D ++
8.01 - 8.50 D +
7.51 - 8.00 D First Class - Distinction 7.01 - 7.50 A ++
6.51 - 7.00 A +
6.01 - 6.50 A First Class 5.51 - 6.00 B 5.00 - 5.50 C Second Class Below 5.00 F Fail 8
First Year - Semester- I
CC I - Biological Macromolecules - (Theory)
Unit - I: Types of Macromolecules Classification of macromolecules - polysaccharides, fats, proteins & nucleic acids structure and properties of: Mono, di, oligo and polysaccharides, Complex carbohydrates, Aminoacids, peptides & proteins Fatty acids, Glycerolipids, phospholipids, glycolopids and steroids Pigments chlorophyll
Unit - II: Biosynthesis Gluconeogenesis - Synthesis of amylase, glycogen, levan and dextran. Biosynthesis of: Fatty acids, triglycerols, membrane phospholipids & cholesterol synthesis Nucleotides, Purines, pyrimidines, and nucleotides Chlorophyll Amino acids
Unit - III: Nucleic acids Structure & types of - DNA & RNA - their topology and functions. Chromosome organization in microbes. Artificial nucleic acid PNA. Structure of tRNA, rRNA and mRNA.
Unit - IV: Proteins Primary, secondary and tertiary structure structure determination Ramachandran plot Purification of proteins
Unit V: Vitamins and hormones Structure and properties of vitamins and hormones Definition and nomenclature biological availability assessment of vitamins in nutritional status vitamins B1, B12, K, E and niacin Protein and peptide hormones auxine, gibberellins, abscisic acid. 9 References 1. Campbell MK (1999). Biochemistry, 3 rd edition, Saunders College Publishing/ Harcourt Brace College Publishers. 2. Freidberg EC, Walker GC, Siede W. (1995). DNA Repair and Mutagenesis, ASM Press. 3. Freifelder D. (1996). Molecular Biology, 2 nd edition. Narosa Publishing House. 4. Geoffrey L. Zubay (1998). Biochemistry. Wm. C. Brown Publishers, 4 th Edition. 5. Lewin, B. (2000) Genes VII. Oxford University Press. 6. Maloy SR, Cronan Jr. JE, Freifelder D (1994). Microbial Genetics. Jones and Bartlett Publishers. 7. Nelson D.L. and Cox, M.M. (2001). Lehninger Principles of Biochemistry, 3 rd
edition, Mac Millan Eworth Publishers. 8. Stryer L (1995). Biochemistry. W.H. Freeman and Company. 9. Voet D. and Voet J (1995) Bichemistry, 2 nd edition, John Wiley and Sons Inc. 10. Watson JD, Hopkins NH, Roberts JW, Steitz JA, Weiner AM. (1987) Molecular Biology of the Gene. The Benjamin/Cummings Publishing Company. 11. David, A. Bender (2003). Nutritional biochemistry of vitamins, Cambridge, 516pp. 12. Gerald Litwack. Vitamins and hormones, Elsevier. 10
First Year - Semester- I
CC II Microbial Cell Biology - (Theory)
Unit I: Morphology and ultra structure of microorganisms Morphological types Archeabacteria, Gram negative and Gram positive Eubacteria (Monera), eukaryotes (Protista). Ultrastructure of prokaryotic and eukaryotic cells. Structure and functions of flagella, cilia, pili, gas vesicles, chlorosomes, carboxyomes, magnetosomes and phycoblisomes. Capsule structure, composition and properties. Reserve food materials polyhydroxybutyrate, polyphosphate, oil droplets, cyanophycin granules and sulphur inclusions. Cell division, Endospore Structure and properties.
Unit II: Classification of microorganisms Introduction Contributions of early microbiologists, Classification of microorganisms - Haeckels three kingdom concept. Whittakers five kingdom concept. Three domain concept of Carl Woese. Basis of microbial classification. Classification and salient features of bacteria according to the Bergeys manual of determinative bacteriology [1994]. Modern trends in classification of microorganisms. Cyanobacteria: Distribution, conventional and modern classification. General form and structure. Reproduction, gas vacuoles, movements and symbiosis. Prochloron, Cyanelles, Microfungi, VAM and Lichens a brief account
Unit III: Techniques in Microbiology Light Microscopy Bright field, Dark field, Phase contrast, Fluorescent and Polarization microscopes, Electron Microscopy TEM & SEM, Confocal Microscopy applications. Sterilization - Physical and chemical control of micro organisms. Isolation, purification of different types of microorganisms. Preservation methods, Identification of microorganisms using morphological, physiological, biochemical and molecular biological techniques.
Unit IV: Nutritional types and carbohydrate metabolism Nutrition and nutritional types nutrients organic inorganic. autotrophs heterotrophs lithotrophs organotrophs phototrophs. Autotrophy anoxygenic oxygenic photosynthesis. Chemolithotrophy sulphur iron 11 hydrogen nitrogen oxidation methanogenesis luminescences - Fixation of carbondioxide C3, C4 pathway - respiratory metabolism fermentation of carbohydrates glycolysis Krebs cycle pentose phosphate pathway, the Entner Doudoroff pathway homo and hetero lactic fermentations.
Unit V: Growth and metabolism of nitrogenous compounds Growth phases kinetics asynchronous synchronous - batch continuous culture. Factors affecting growth; Measurement of growth dry weight wet weight protein Kjeldhal nitrogen chlorophyll. Biological nitrogen fixation nitrogenase enzymes structure and properties nif gene regulation functions. Assimilation of inorganic nitrogen nitrate nitrite dinitrogen ammonia.
References: 1. Brige EA (1992) Modern Microbiology, WmC, Brown Publishers, Dubugue, USA. 2. Bryant DA (1994) The Molecular Biology of Cyanobacteria, Kluwer Academic Publishers, London. 3. Gerherdt P, Murray RG, Wood WH. Kreig NR (1994) Methods for General and Molecular. Bacteriology, American Society for Microbiology, Washington DC. 4. Good Fellow M, O Dennell AG (1994) Chemical methods in Prokaryotic Systemics. John Wiley and Sons, New York. 5. Hall DO Rao, KK (1995) Photosynthesis. Cambridge University Press. 6. Holt JS, Kreig NR, Sneath PHA, Williams ST (1994) Bergeys Manual of Determinative Bacteriology (9 th ed.) William and Wilkins, Baltimore. 7. Landecker EM (1996) Fundamentals of Fungi Prentice Hall International Inc. 8. Neidhardt FC. (1996) Escherichia coli and Salmonella typhimurium Cellular and Molecular Biology (Vol I & II) 9. Pelczar Jr. MJ, Chan ECS, Krieg NR (1993). Microbiology Mc Graw Hill. Inc, New York. 10. Rao AS (1997) Introduction to Microbiology, Nagarjuna University , Prentice Hall of India, New Delhi. 11. Salle AJ (1996) Fundamental Principle of Bacteriology [7 th Edition] University of California, Los Angels, Tata McGraw Hill Publishing Company Ltd.,New Delhi. 12 12. Tauro T, Kapoor KKT, Yadav S. (1997) An Introduction to Microbiology, Haryana Agricultural University, Hissar, Prentice Hall of India Pvt. Ltd., Delhi. 13. White D. (1995) The Physiology and Biochemistry of Prokaryotes Oxford University Press, Oxford. 14. Zubey GL, Parson WW, Vance DE (1994). Principles of Biochemistry WmC. Brown Publishers, Oxford, England. 13
First Year - Semester- I
CC III Molecular Biology & Microbial Genetics - (Theory)
Unit - I: DNA replication and repair Identification of genetic material (Griffith, Avery and Hershey and Chase experiments). DNA replication - Meselson Stahl experiment , Molecular mechanisms of DNA Replication bidirectional and rolling circle replication. Differences in prokaryotic and eukaryotic replication. Plasmids types, structure and replication. DNA repair mechanism of excision repair, SOS repair and mismatch repair.
Unit II: Transcription and translation Process of transcription initiation, elongation termination. Synthesis of mRNA in prokaryotes and eukaryotes. Synthesis of rRNA and tRNA. RNA processing capping and polyadenylation. Genetic code, process of translation initiation, elongation and termination. Signal sequences and protein transport.
Unit III: Concept of Gene & Gene regulation Organization of Gene in Prokaryotes and Eukaryotes - Introduction - Operon concept, lac and trp operons, promoters and repressors. Regulation of gene expression Transcriptional control promoters, terminators, attenuators and anti terminators; Induction and repression; the lac operon catabolite repression; Biosynthesis: trp operon upstream activator sequences and enhancers, two component regulatory systems. Translational control ribosome binding, codon usage, antisense RNA; post-transcriptional gene silencing RNAi.
Unit - IV: Gene transfer mechanisms Transformation competence cells, regulation, general process; Transduction general and specialized; Conjugation Hfr, triparental mating, self transmissible and mobilizable plasmids, pili.
Unit V: Transposable elements Introduction - Discovery insertion sequences, complex and compound transposons T10, T5, and retroposon Nomenclature- Insertion sequences Mechanism Transposons of E.coli, Bacteriophage and Yeast. 14 References: 1. Friedberg EC, Walker GC, Siede W. (2005). DNA repair and mutagenesis. ASM press 2. James D. Watson, Tania A. Baker, Stephen P. Bell, and Alexander Gann, Molecular Biology of the Gene, Fifth Edition 3. Rowland H. Davis, The Microbial Models of Molecular Biology: From Genes to Genomes. 4. Antony JF, Griffiths, Gilbert WM, Lewontin RC and Miller JH (2002). Modern Genetic Analysis, Integrating Genes and Genomes, 2 nd edition, WH 5. Blackburn GM, Gait MJ. (1996). Nucleic acids in chemistry and biology. Oxford University press. 6. Malacinski GM and Freifelder D (1998) Essentials of Molecular Biology, 3 rd
edition, John and Bartlett Publishers. 7. Lewin B. (2000). Genes VII. Oxford University press 8. Maloy SR, Cronan Jr. JE, Freifelder D (1994). Microbial genetics. Jones and Bartlett publishers. 9. Singer M, Berg P. (1991). Genes and Genomes. University Science Books. 10. Stryer L. (2002). Biochemistry. 5 th edition, W.H.Freeman and company. 11. Watson JD, Hopkins NH, Roberts JW, Steitz JA, Weiner AM. (1998). Molecular biology of the gene, 4 th edition, Benjamin/Cummings publishing company. 15 First Year - Semester- I
CC IV Practical (CC I, CC II & CC III)
CC I Biological Macromolecules - (Lab Course)
Quantification of Macromolecules - Isolation and Colorimetric estimation of: 1. Amino acids - Ninhydrin method 2. Protein - Biuret method/Lowrys method 3. Carbohydrate reducing sugars - Anthrone method/Benedicts method. 4. Cholesterol estimation - Acetic anhydride method 5. DNA - Diphenylamine method 6. RNA - Orcinol method 7. Determination of Phosphorous content of nucleic acids - perchloric acid test. 8. Pigments (chlorophyll - carotenoids phycobiliproteins) 9. Estimation of lipid
References 1. Boyer R (2001) Modern Experimental Biochemistry, 3 rd edition: Benjamin /Cummings Publishing Company Inc. 2. Jayaraman J (1981). Laboratory manual in Biochemistry, New Age Int. Publishers, New Delhi. 3. Plummer DT (1987) An introduction to Practical Biochemistry, 3 rd edition, Tata McGraw Hill, New Delhi. 4. Clark JM Jr and Switzer RI (1977) Experimental Biochemistry 2 nd Edition. W.H. Freeman, San Francisco. 5. Switzer RL and Garrity LF (1999) Experimental Biochemistry, 3 rd edition, WH Freeman and Co. 6. Work TS and Work E (1972) Laboratory Techniques in Biochemistry and Molecular Biology. Vol. 3 - North-Holland, Amsterdam 7. Warton DC and McCarthy RE (1972) Experiments and Methods in Biochemistry. MacMillan, New York. 8. Wilson K and Walker J (2000) Practical Biochemistry Principles and Techniques, 5 th Edition, Cambridge University Press.
16 CC II Microbial Cell Biology - (Lab Course)
1. Preparation and use of glassware cleaning solutions, sterilization. 2. Microscopy, Micrometry, Camera lucida diagrams & Microphotography. 3. Isolation of anaerobic and aerobic bacteria cyanobacteria, actinomycetes and fungi. 4. Pure and axenic culture techniques serial dilution pour plate, spread plate, streak plate methods and stab culture techniques. 5. Bacterial Staining methods simple, Grams, acid fast, flagella, capsule and spore. 6. Determination of growth growth curve generation time synchronous and asynchronous growth estimation of growth microscopic plate membrane filter turbidometry dry weight wet weight chlorophyll. 7. Fungal Staining methods Lacto-phenol cotton blue. 8. Motility of bacteria. 9. Effect of physical and chemical factors on the growth of bacteria and Cyanobacteria temperature, pH, oxygen, radiation, water activity, macro and micro nutrients and chelators. 10. Fixation of nitrogen by acetylene reduction assay using gas chromatography 11. Assay of glutamine synthetase, nitrite reductase and nitrate reductase by colorimetry
References: 1. Benson HJ (1994). Microbiological Applications, WmC Brown Publishers, Oxford. 2. Collins C.H, Lyne P.M, (1985). Microbiological methods. Butterworths, London. 3. Gerhardt P, Murray R.G, Wood W.A, Kreig, N.R. (ed) (1994). Methods of General and Molecular Bacteriology. American Society for Microbiology, Washington DC 4. Holt J.S, Kreig N.R, Sheath P.H.A, Williams S.T. (1994) Bergeys Manual of Determinative Bacteriology (9 th edn.) Williams & Wilkins, Baltimore. 5. Rhodes P.M, Stanbury P.F. Applied Microbial Physiology - A practical approach. IRL Press, Oxford University Press, Oxford 6. Wilson K, Walker J. (1995) Practical Biochemistry Principles and Techniques, Cambridge University Press 17 CC III Molecular Biology & Microbial Genetics - (Lab Course)
1. Isolation of antibiotic resistant microbes. 2. Induction of mutation by ultra-violet radiation and chemical mutagens NTG, MNNG. 3. Transformation (competent cell preparation) and Transduction using P1. 4. Isolation of microbial genomic DNA 5. Isolation of plasmid DNA from E.coli (mini preparation). 6. Isolation of plasmid DNA from Gram Negative (bacteria) and cyanobacteria (mini preparation) 7. Quantification of plasmid by spectrophotometric methods. 8. Characterization of plasmid DNA by agarose gel electrophoresis. 9. Conjugation - Hfr
References: 1. Ausubel FM, Brent R, Kingston RE, Moore DD, Seidman JG, Smith JA and Struhl K (1994). 2. Current protocols in molecular biology, Vol. 1 & 2. John Wicey & Sons Inc. 3. Sambrook J and Russell DW (2001) Molecular cloning - A laboratory manual (3 rd edition, Vol 1,2,3), Cold Spring Laboratory Press, New York. 4. Surzyeki S (2000). Basic Tecniques in Molecular Biology. Springer.
18
First Year Semester I
EC I Biological Techniques - (Theory)
Unit I: Microscopy and Related Techniques Light Microscopy: Microscopic optics, components of microscopes. Basic principles and types of Bright field, Dark field, Phase contrast, Fluorescence, Polarization and Confocal microscopes and their applications. Immunofluorescence In situ hybridization. Electron Microscopy Principle, Techniques and applications of Transmission Electron microscope (TEM) and Scanning Electron Microscope (SEM), Atomic Force Microscope (AFM). Photomicrography and Video micrography.
Unit II: Analytical Techniques Spectroscopic methods UV-Visible, Atomic Absorption and Atomic Emission Spectroscopy. Centrifugation Principles and types centrifugation. Electroanalytical methods electrolytic Potentiometric, conductimetric, coulometric & voltametric analysis. Biosensors. Radioactive analysis : Principles of radioactivity, GM counter & LS counter.
Unit III: Principles & Applications of Chromatographic Techniques Adsorption Ion exchange and gel permeation affinity chromotography for separation of compounds including GC and HPLC methods.
Unit IV: Electrophoresis Techniques Electrophoretic techniques protein nucleic acid immuno two dimensional electrophoresis.
Unit V: Molecular Biological Techniques Isolation of chromosomal and plasmid DNA. Polymerase chain reaction isolation of specific genes using PCR. Restriction digestion and Phosphatase treatment of cloning vectors. Cloning techniques separation and quantification of DNA by spectrophotometric and electrophoretic techniques, gene transfer mechanisms chemical and electroporation. 19 Methods of detection of clones Nucleic acid transfer by blotting, Hybridization - plaque, colony hybridization. Histochemical detection of -galactosidase, antibody screening including colour development reaction.
References: 1. Glick, B.R. and Pasternak, J.J. (1994). Molecular Biotechnology, ASM Press. 2. John G. Webster. (2004). Bioinstrumentation. University of Wisconsin, John Wiley & Sons, Inc. 3. Sambrrok, J. and Ruseell, D.W. (2001) Molecular Cloning A Laboratory Manual (3rd eidition, Vol. 1,2,3) Cold Spring Laboratory Press, New York. 4. Savile Pradbury. (1991). Basic measurement techniques for light microscopy, Oxford University Press, Royal Microscopical Society. 5. Surzeki, S. (2000). Basic Techniques in Molecular Biology, Springer. 6. Westermeier, R (1993). Electroporesis in practice VCH Federal Republic of Germany. 7. Willett, J.E. (1991). Gas Chromatography, John Wiley & Sons. 8. Wilson, K. and Walker (1995). Practical Biochemistry Principles and Techniques, Cambridge University Press. 20 First Year Semester I
EC II Molecular Taxonomy & Phylogeny - (Theory)
Unit I: Microbial Taxonomy Introduction to microbial taxonomy morphological taxonomy, biochemical taxonomy, and molecular taxonomy. Numerical taxonomy basic concepts of taxonomy. Positive and negative aspects of each taxonomical methods. Morphological phylogeny
UNIT- II: Biochemical & molecular taxonomy Chemotaxonomy - fatty acid, protein finger printing , Isozyme typing, pigments & polyamines. Biochemical phylogeny. Molecular taxonomy - G +C content, DNA DNA hybridization, Plasmid profiles, RFLP, RAPD, STRR & LTRR, REP PCR, rRNA based DNA finger printing methods
Unit III: 16S rRNA based finger printing Types of rRNA - 23s rRNA, 16S rRNA & 5S rRNA. Importance of 16SrRNA in microbial identification and taxonomy. Methods of 16S rRNA / rDNA fingerprinting - Isolation of rRNA, RT- PCR, Isolation of DNA, amplification of 16S rDNA using PCR, Cloning, transformation, Blue-white screening, Plasmid isolation, Dot blot/Southern blot hybridization using specific probes Sequencing of 16S rDNA using chain-termination method.
UNIT IV: Sequence analysis. Submission of rDNA sequences in GenBank Bankit & Sequin guidelines. NCBI, EMBL & DDBJ retrieving sequences. RNA structure prediction, Restriction enzyme patterns. Ribosomal Database Project - Designing primers & probes. Sequence comparison, alignment and data base searching ClastalW, FASTA & BLAST. DNA barcoding.
UNIT V: Molecular phylogeny. Introduction to Molecular phylogeny tree terminology, software programs for making phylogenetic trees MEGA, Phylib, RAPDistance. Cladogram, additive trees and ultrametric trees, rooted, unrooted trees and tree shapes.
21 References: 1. Roderic D. M. Page, Edward C. Holmes (1998). Molecular Evolution: A Phylogenetic Approach. Blackwell publishing, USA. 2. Principles of Genome Analysis: A Guide to Mapping and Sequencing DNA from Different Organisms by S. B. Primrose (Paperback - Jan 1998) 3. Microbial Genome Methods by Kenneth W. Adolph (Hardcover - Oct 28, 1996) 4. Genome Mapping and Sequencing by Ian Dunham (Hardcover - Sep 1, 2003). 5. Brendan Wren (Editor), Nick Dorrell (2002) Functional Microbial Genomics (Volume 33) (Methods in Microbiology), Academic Press, UK. 6. Sandy B. Primrose Richard M. Twyman (2005) Principles of Genome Analysis and Genomics, Blackwell Publishing, USA.
22 7. First Year Semester - II
CC V Immunotechnology - (Theory)
Unit I: Immune System Historical perspective Discovery, early theories, Immunodeficiency conditions, Lymphocyte Traffic, Hematopoiesis, Innate and adoptive immune response in protection.
Unit II: Antigen and Antibody Molecules Antigen engineering for better immunogenicity, Use for vaccine development, whole-organism vaccines, recombinant vaccines, DNA vaccines, synthetic peptide, multivalent subunit and anti-idiotype vaccines. Antibody engineering, Antibody for diagnosis, Antibody for therapy, Hybridoma Technology.
Unit III: MHC, Cytokines and Complements Structure of MHC molecules, Antigen presentation, Antigen presentation by non MHC molecules, Cytokine structure and their receptors, Cytokine therapy, Complements, Lymphocyte Migration and Inflammation, Hypersensitivity reactions, auto immunity.
Unit IV: B and T Cell Activation B cell receptor complex, B cell maturation, Generation of antibody diversity, Understanding self-nonself discrimination, TH Cell subpopulation, Organisation of T cell receptor, Cell mediated effector responses.
Unit V: Immunotechnology and its applications Precipitation techniques, agglutination techniques, radiology in immunotechniqes, Enzyme-Linked immunosorbent assay (ELISA), Western blotting, immunofluorescence, Flowcytometry and immunoelectron microscopy. Infectious diseases - immune system in AIDS, transplantation immunology, cancer and the immune system.
23 References:
1. Ivan M. Roit (1994) Essential Immunology Blackwell Scientific Publications, Oxford 2. Kuby J (2001) Immunology Fourth Edition WH Freeman and Company, New York 3. Chapel H and Halbey M (1986) Essentials of Clinical Immunology 4. Donal M. Weir, John Steward (1993) Immunology VII edition. ELBS, London 5. Richard M. Hyde (1995). Immunology III edition. National Medical series, Williams and Wilkins, Harward Publishing company. 24 First Year Semester - II
CC VI Medical Microbiology - (Theory)
Unit-I: Introduction of Medical Microbiology: History, Koach &Rivers postulates, Role of Microbiology in Medicine, Classification of medically important microbes, Normal Microbial flora, Infections- Source, Mode of transmission, Prevention of medically important microbes.
Unit-II: Systematic Medical Bacteriology: Mechanism of Bacterial pathogenesis of medically important bacteria Staphylococcu s aereus, Group A Streptococci, Pathogenic, Enterobacteriaceae, Vibrio, Nieserriae, Haemophilus influenza, Corynebacterium, Pseudomonas, Chlamydia, Mycoplasama, anaerobic bacteria & infections, Mycobacterium tuberculosis, Atypical Mycobacterium, Clamadiya, Bacillus, Rickettsia, Zoonotic bacteria, Helicobacter pylori.
Unit-III: Mycology & Parasitology: Mechanisms of Fungal Pathogenesis, Superficial and Cutaneous Mycoses, Subcutaneous Mycoses, Systemic Mycoses, Opportunistic Mycoses, Mycotoxicoses, Pathogenesis of Parasitic Disease, Antiparasitic Agents, Intestinal and Urogenital Protozoa, Blood and Tissue Protozoa,. Nematodes, Trematodes, Cestodes and Arthropod.
Unit-IV: Viral diseases: Influenza viruses, Measels, Mumps, Chicken Pox, Hepatitis A,B,C, D& E, Poliomyelitis, AIDS, Human Papilloma Virus (HPV), Rabies, Yellow fever, Dengue and Japanease Enchapalitis.
Unit-V: Laboratory Diagnosis: Laboratory diagnosis of bacterial diseases, Laboratory diagnosis of mycological and Parasitological diseases, Laboratory diagnosis of viral diseases, Antibiotic sensitivity test. Molecular diagnosis.
25 References:
1. Medical Microbiology(2001) by Jawetz, Melnickand Adelbergs 22 nd edition McGraw Hill Medical Publication division 2. Medical Microbiology(2000) by David Greenwood, Richard Slack and John Peutherer 15 th edition,ChurchHill Living stone Publication. 3. Medical Microbiology by Anathanarayanan. 4. Medical Parasitology (2007) by K.D Chatterjee 7 th edition. 5. Foundations in Microbiology (2005) by Cathleen park Talaro 6 th edition, McGraw Hill Medical Publication division. 6. Microbiology Lab Manual (2007) by John P. Harley 7th edition McGraw Hill Medical Publication division. 7. Microbiology (2007) by Prescott, Harley, Klein's 7 th edition McGraw Hill Medical Publication division.
26
First Year Semester - II
CC VII Virology - (Theory)
Unit I: Brief outline of virology Discovery of virus; early development of virology nomenclature - classification and taxonomy of viruses - based on host, nucleic acids and structure; Evolution of viruses
Unit - II: Bacterial viruses X 174; T4 ; M 13; Lambda and Mu; P1 phages. Structural organization - life cycle - transcription - DNA replication and phage production - lysogenic cycle wherever applicable, and genetics of each phage.
Unit - III: Plant viruses TMV - general characters morphology structure replication - RNA as the initiator of infection; Cauliflower Mosaic Virus - a brief account. Transmission of plant viruses - transmission by vectors - transmission without vectors. Common viral diseases of crop plants - names of diseases, pathogens and symptoms only - paddy, cotton, tomato and sugar cane.
Unit - IV: Animal viruses General characters, chemical and physical nature, life cycle, epidemiology, pathogenicity, disease caused and immunologic response of the following viruses: Myxo virus: Orthomyxo virus, Paramyxo virus; Herpes virus - HSV 1 & 2; Adeno virus and Adeno Associated Viruses; Tumour viruses of human.
Unit - V: Other viral types Brief account of Cyanophages myco phycophages Insect viruses. Viroids, prions, satellite RNAs and virusoids. Antiviral agents and vaccines different types.
27 References: 1. Conrat HF, Kimball PC and Levy JA. (1988). Virology. II edition. Prentice Hall, Englewood Cliff, New Jersey. 2. Dimmock NJ, Primrose SB. (1994) Introduction to Modern Virology IV edition. Blackwell Scientific Publications, Oxford 3. Flint SJ, Enquist LW, King RM, Racaniell VR and Shalka AM (2000). Principles of Virology - Molecular Biology, pathogenesis and control, ASM Press, Washington DC. 4. Khan J.A, J.Dijkstra. Plant viruses as molecular pathogens. 2000. CBS publishers and Distributors. New Delhi 5. Maloy SR, Cronan Jr. JE, Freifelder D. (1994). Microbial genetics. Jones and Bartlett publishers. 6. Robert G. Welstar and Allan Garnoll. Encyclopaedia of Virology (1994). Vol I, II & III Academic Press inc. San Diego, CA 92101. Ed. 7. Timbury MC. (1994) Medical Virology X edition. Churchill Livingston. 8. Topley & Wilsons. (1990) Principles of Bacteriology, Virology and Immunity VIII edition Vol. IV Virology, Edward Arnold, London. 28
First Year Semester - II
CC VIII Practical (CC V, CC VI & CC VII)
CC V Immunotechnology - (Lab Course)
1. Collection of venous blood from human and separation and preservation of serum/plasma 2. Agar gel diffusion Ouchterlonys method 3. Counter immuno electrophoresis 4. Electrophoresis serum proteins 5. Blood grouping 6. Latex agglutination test 7. Widal tube and slide agglutination technique 8. Enzyme Linked Immunosorbent Assay (ELISA) 9. Western blotting 10. Immunization of protocols and raising antibody 11. Dissection of primary and secondary lymphoid organs in a selected animal
References: 1. Ivan M. Roit (1994) Essential Immunology Blackwell Scientific Publications, Oxford. 2. Benjamin E, Coico R and Sunskise (2000). Immunology a short course. IV edn. Wiley Liss publication, NY. 3. Kuby J (2001) Immunology Fourth Edition WH Freeman and Company, New York. 4. Chapel H and Halbey M (1986) Essentials of Clinical Immunology. 5. Donal M. Weir, John Steward (1993) Immunology VII edition. ELBS, London. 6. Richard M. Hyde (1995). Immunology III edition. National Medical series, Williams and Wilkins, Harward Publishing company.
29 CC VI Medical Microbiology - (Lab Course)
1. Collection and transport of clinical specimens for microbiological examinations 2. Laboratory diagnosis of upper respiratory tract infection 3. Laboratory diagnosis of lower respiratory tract infection 4. Laboratory diagnosis of gastrointestinal infection 5. Laboratory diagnosis of urinary tract infection (UTI) 6. Laboratory diagnosis of Typhoid fever 7. Laboratory diagnosis of Leptospirosis 8. Laboratory diagnosis of Dengue fever 9. Laboratory diagnosis of skin diseases 10. Laboratory diagnosis of Parasitic infection
References: 1. Microbiology: A Laboratory manual by James cappuccino, Natalie Sherman 7 th Edition. 2. Microbiology Lab manual by Karen Messley 2 nd Edition Berjamin cummings Publisher. 3. A Photographic Atlas for the Microbiology Laboratory by Michael J Leboffe, Burton E. Pierce 3 rd Edition Berjamin cummings Publisher. 4. A Laboratory manual of Microbiology by Harry W.Seeley Jr and Paul J Vandemark,W.H Freeman and Company Publisher. 5. Microbiology Lab Manual (2007) by John P Harley, 1 st Edition, McGraw-Hill Publication. 6. Applied Microbiology laboratory manual (2005) by Frances Duncan 4 th
Edition. 7. Laboratory Manual of Experimental Microbiology by Ronald M. Atlas, Lawrence C. Parks, Alfred E. Brown. Mosby-Year Book Inc.
CC VII Virology - (Lab Course)
1. Isolation and characterization of bacteriophage from natural sources. 2. preparation of bacteriophage stock - Lambda & T4 3. Phage Titration - T4 and M13 4. Burst size determination - A one step growth curve of bacteriophage T4 5. Determination of lysogeny by using Lambda phage 30 6. Isolation of cyanophage 7. Study of virus infected plant samples 8. Transmission methods of plant viruses - Southern Sunhemp Mosaic Virus (SSMV) - local and systemic plants 9. Thermal characterization, Longevity invitro - Dilution end point. 10. Animal Virus Propagation - Egg inoculation
References: 1. Miller JH. (1992) A short course in bacterial genetics. Cold Spring Harbor. 2. Gerhardt P, Murray RG, Wood WA and Kreig NR. (ed) (1994) Methods for General and Molecular Bacteriology American Society for Microbiology, Washington D.C. 3. Dharmalingam K (1986). Experiments with M13 gene cloning and DNA sequencing. Published by Wasani for Macmillan India Limited. 4. Microbiological Applications (1994). 6 th edition, W.M.C. Brown Publishers, a division of W.M.C. Brown Communications, Inc. 5. Dejkstra J, Ces P. de Jager (1998). Practical Plant Virology (protocols and exercises), Springer Lab Manual, Berlin, Heidelberg, NewYork. 6. Cappucino, James G (1996). Microbiology - A laboratory Manual, Addison - Wesley Publishin Company Inc.
31 First Year Semester - II
EC III Commercial Biotechnology and IPR - (Theory)
Unit - I: Industrial microbes Biology of industrial microorganisms such as Streptomyces, yeasts, Spirulina and Penicillium Strain improvement Culture preservation - Stock culture collection centres Criteria used for the selection of microorganisms for fermentation. Unit - II: Large-scale cultivation Fermentation media - Desired qualities - media formulation strategies - economic means of providing energy, carbon - nitrogen - vitamin and mineral sources - role of buffers, precursors, inhibitors, inducers and antifoams, types of fermentation. Fermenters - Basic functions, design and components - asepsis and containment requirements - body construction and temperature control - aeration and agitation systems - sterilization of fermenter, air supply, and medium; aseptic inoculation methods - sampling methods, valve systems - a brief idea on monitoring and control devices and types of fermenters. Unit - III: Microbial products Alcohol production malt beverages production of beer wine production of organic acids Vinegar lactic acid Citric acid Production of antibiotics Penicillin Tetracycline and chloramphenicol Production of amino acids L- lysine L-glutamic acid Enzymes Pectinases Invertase Proteases Vitamins Vitamin B12 Riboflavin Biotransformation (Streroid). Unit IV: Commercialization Objectives - market potential - economic measures in plant and equipment - media, heating and cooling; productivity of culturing, recovery costs. Unit V: Legal protection & IPR GATT and IPR, forms of IPR, IPR in India, WTO Act, Convention on Biodiversity (CBD), Patent Co-operation Treaty (PCT), forms of patents and patentability, process of patenting, Indian and international agencies involved in IPR & patenting, Global scenario of patents and Indias position, patenting of biological material, GLP, GMP. 32 References: 1. David A. Mitchell, Nadia Krieger, Marin Berovic .Solid-State Fermentation Bioreactors: Fundamentals of Design and Operation, Springer. 2. Demain A.L, Davies J.E. 1999. Manual of Industrial Microbiology & Biotechnology. ASM press. 3. Glick BR, Pasternak JJ (1994) Molecular Biotechnology, ASM press. 4. Mittal D.P. 1999. Indian Patents Law. Taxmann Allied Services (p) Ltd. 5. Sikyta B. (1983) Methods in Industrial Microbiology, Ellis Horwood Limited. 6. Stanbury PF, Whitaker A, Hall SJ. (1995) Principles of Fermentation Technology, Pergamon Press. 7. Wulf Crueger, Anneliese Crueger, Thomas D. Brock (1991) Biotechnology: A Textbook of Industrial Microbiology 8. Venkataraman LV. (1983) A Monograph on Spirulina plantensis. CFTRI, Mysore.
33 Second Year Semester - III
EC IV Bioinformatics and Biostatistics - (Theory)
Unit I: Biology in the computer age Computational Approaches to Biological questions. Basics of computers servers, workstations, operating systems, Unix, Linux. World Wide Web. Search engines, finding scientific articles - Pubmed public biological databases.
Unit II: Genomics Sequence analysis Sequencing genomes sequence assembly pairwise sequence comparison - geneome on the web annotating and analysing genome sequences. Genbank sequence queries against biological databases BLAST and FASTA multifunctional tools for sequence analysis. Multiple sequence alignments, Phylogenetic alignment profiles and motifs.
Unit III: Proteomics Protein Data Bank, Swiss-prot - biochemical pathway databases -Predicting Protein structure and function from sequence Determination of structure feature detection secondary structure prediction predicting 3 D structure - protein modeling.
Unit IV: Biostatistics I Introduction Population and sample Variables Collection and presentation of data Descriptive statistics - Measures of Central tendency mean (arithmetic, harmonic & geometric) median and mode Measures of dispersion range, mean deviation, variance & standard deviation, Skewness and Kurtosis.
Unit V: Biostatistics II Inferential statistics Probability and distributions Poisson, Binomial and Normal distribution Chi-square test Hypothesis test - Students t-test Correlation and Regression ANOVA. 34 References:
1. W.J. Ewens, Gregory Grant,(2005). Statistical Methods in Bioinformatics: An Introduction (Statistics for Biology & Health), Springer 2. Bryan Bergeron,( 2003).Bioinformatics Computing First Indian Edition, Prentice Hall, 3. Cynthia Gibas & Per Jambeck (2001). Developing Bioinformatics Computer Skills: Shroff Publishers & Distributors Pvt. Ltd (OReilly), Mumbai 4. HH Rashidi & LK Buehler (2002). Bioinformatics Basics: Applications in Biological Science and Medicine, CRC Press, London 5. Des Higgins & Willie Taylor (2002). Bioinformatics: Sequence, structure and databanks, Oxford University Press 6. Baxevanis AD & Ouellette BEF (2001) Bioinformatics: A practical guide to the analysis of genes and proteins, Wiley Interscience New York 7. Arora PN & Malhon PK (1996). Biostatistics Imalaya Publishing House, Mumbai. 8. Sokal & Rohif (1973). Introduction to Biostatistics, Toppan Co. Japan. 9. Stanton A & Clantz, Primer of Biostatistics The McGraw Hill Inc., New York.
35 Second Year Semester - III
CC IX Food & Dairy Microbiology - (Theory)
Unit I: Food Microbiology Introduction- Importance of food microbiology- Types of microorganisms in food spoilage, Source of contamination- Factors influencing microbial growth in food. Food preservations: principles- methods of preservations-Physical and chemical methods.
Unit II: Microbiology of food and food products Contamination, spoilage and preservation of cereals and cereals products, sugar and sugar products, Vegetables and fruits, meat and meat products fish and other sea foods, egg and poultry.
Unit III: Food borne diseases Food borne diseases, intoxication and food poisoning bacterial and non-bacterial food borne diseases: Staphylococcus, Clostridium, Escherichia coli and Salmonella infections, Mycotoxins, Protozoan and Viral food borne diseases.
Unit IV: Food fermentations Methods of fermentations and organisms used -bread, wine, beer. Fermented vegetables, Food and enzymes from microorganisms-single cell protein. Production of amylase and protease.
Unit V: Dairy Microbiology Microflora of milk -sources of contamination -methods of minimizing contamination. Milk borne infection intoxication. Milk preservation methods pasteurization sterilization. Fermented dairy products microbes involved in fermentation -starter lactic acid cultures -butter milk, cream, yoghurt, kafir, kumiss, acidophilous milk and cheese production and its types. Food hygiene and control - food sanitation in food manufacture and in the retail trade. Food control agencies and its regulations. 36 References: 1. Adams MR and Moss MO. (1995). Food Microbiology, The Royal Society of Chemistry, Cambridge. 2. Andrews AT, Varley J. (1994) Biochemistry of milk products. Royal Society of Chemistry. 3. Banwart GJ. (1989), Basic food microbiology, Chapman & Hall, New York. 4. Frazier WC and Westhoff DC. (1988) Food microbiology, TATA McGraw Hill Publishing Company Ltd. New Delhi. 5. Hobbs BC and Roberts D. (1993) Food poisoning and food hygiene, Edward Arnold (A division of Hodder and Stoughton), London. 6. May JM. (1987) Modern Food microbiology, CBS Publishers and distributors, New Delhi. 7. Robinson RK. (1990). The microbiology of milk. Elsevier Applied Science, London. 8. Edward Harth, J.T.Steele. Apllied Dairy Microbiology. 1998. Marcel Deeker Inc. New York.
37 Second Year Semester - III
CC X Recombinant DNA Technology - (Theory)
Unit I: Introduction to Basics of genetic engineering Gene as a unit of mutation and recombination. Mutagenesis, mutations and mutants biochemical basis of mutations, spontaneous and induced mutations, isolation of mutants, mutagenesis, reversion, suppression, genetic analysis of mutants. Recombination methods conjugation and transformation.
Unit II: Tools of genetic engineering Enzymes in Genetic Engineering - DNA Polymerase, Polynucleotide kinase, T4 DNA ligase, Nick translation system, Terminal deoxynucleotidyl transferase, Reverse transcriptase Restriction endonucleases Type I & II. Vectors plasmid, bacteriophage and other viral vectors, cosmids, Ti plasmid, yeast artificial chromosome.
Unit III: Techniques of Genetic Engineering I Strategy of recombinant DNA technology; Gene library - Genomic library, cDNA library Cloning strategies - Use of linkers, adoptors, homopolymer tails - Nucleic acid hybridization - Colony hybridization, plaque hybridization; Blotting techniques - Southern, Northern, Western and dot blotting.
Unit IV: Techniques of Genetic Engineering II PCR principles, techniques and applications. Gene isolation, cloning and expression, DNA sequencing, oligonucleotide synthesis, Southern and Northern hybridization, FISH, RAPD, PCR-RFLP, STRR, LTRR. DNA fingerprinting and their applications for diagnosis of disease, site-directed mutagenesis, Gene silencing, Gene transfer technologies.
Unit-V: Functional genomics and Applications of Genetic Engineering DNA chips and microarray gene screen technology; site directed mutagenesis, transgenic animals and gene knockout techniques, cell culture based techniques Genetic diagnosis. Applications in medical field, biology, transgenic plants, transgenic animals, Recombinant vaccines development. Gene therapy; Molecular basis of genetic diseases, genetic counseling.
38 References: 1. Molecular biology and Microbial genetics by David Frifielder, Stanely R. Maloy, 2 nd edition Jones and Barlett Publishers. 2. Genetics by Peter J Russell (1997) 5 th edition Benjamin-Cummings Publishing Company. 3. Molecular Biotechnology (2003) by Bernard R. Glick and Jack J.Pasternak., 2 nd
edition by ASM press. 4. Gene Cloning and DNA analysis (2004) by T.A.Brown 2 nd edition. By ASM press. 5. Application of rDNA Technology by Glick & Pasteneuk. 6. Principles of Gene Manipulation and Genomics (2006) Sandy Primrose. 7 th
Edition, Black Well Publishers. 39
Second Year Semester - III
CC XI Microbial Biotechnology - (Theory)
Unit - I: Algal Biotechnology Definition, Concepts -History, biotechnological potentials of microalgae food feed Colourant - fuel and pharmaceutically variable compounds. Production of microbial biofertilizers Mass cultivation of cyanobacteria (Spirullina), Azolla and other N2 fixers.
Unit- III: Industrial Processes and Products Fermentation and bioreactor technology principle, construction and design of various bioreactors- aseptic containment - strain improvement fermentation - batch, fed batch - continuous. Production microbial products malt beverages alcohol - vinegar - lactic acid- citric acid- penicillin - streptomycin- L-lysine- L- glutamic acid protease lipase - pectinase and riboflavin.
Unit IV: Microbial Metagenomics Metagenomics - definition - microbial diversity analysis- uncultivable microbes - drug discovery - high throughput screening. Genome expression and its analysis methodologies -serial analysis Oligo NT array technology cDNA microarrays and micro chips. Preparation of radio and non radioactive probes microbial diagnostics Preparation of radio and non radioactive probes microbial diagnostics. Introduction to microbial nanotechnology.
Unit V: Bioremediation Microbes in abatement of heavy metal pollution - heavy metal tolerant microbes - Mechanism of heavy metal and antibiotic resistance - role of biosorption - biotransformation of Xenobiotics - Superbug - rDNA application. Biodegradation of oil and petroleum products. Microbial leaching - Copper - Uranium. 40 References: 1. Raledge C and Kristiansen B Eds (2001). Basic Biotechnology, 2 nd edition, Cambridge University Press. 2. Balasubramanian D, Bryce CFA, Dharmalingam K, Green J, Jayaraman K. (1996). Concepts in Biotechnology University Press, India. 3. Baxevanis AD and BFF Ouellette, Wiley O. (ed) (2001). Bioinformatics A practical guide to the analysis of genes and proteins. Interscience, New York, 4. Borowitzka MA, Borowitzka LJ (1989). Microalgal Biotechnology, Cambridge University Press. 5. Alan T. Bull. Microbial Diversity and Bioprospecting. ASM press. Washington, D.C 6. Brenden Wren and Nick Dorrell, Functional Microbial Genomics (Volume 33) (Methods in Microbiology), Academic Press 7. Alexander Hillisch and Rolf Hilgenfeld. Modern Methods of Drug Discovery, Birkhauser, Switzerland 8. Doolittle RF. (1990). Molecular evolution. Computer Analysis of Protein and Nucleic acid Sequences Methods in Enzymilogy. Academic Press, New York. 9. Gerbardt P, Murray RG, Wood WA , Kreig NR. (1994) Methods for General and Molecular Bacteriology American Society for Microbiology Washington D.C. 10. Glick BR, Pasternak JJ (1998). Molecular Biotechnology - Principles and Applications of Recombinant DNA, ASM Press, Washington DC. 11. Higgins D, Taylor W. (2000). Bioinformatics, sequence, structure and databanks - A practical approach. Oxford University Press. 12. Glazer AN, Nikaido H. (1994) Microbial Biotechnology Fundamentals of Applied Microbiology WH Freeman and Company, New York. 13. Glick BR, Pasternak JJ. (1994) Molecular Biotechnology, ASM Press, Washingon DC. 14. Miyamoto MM, Cracraft JL. Phylogenetic Analysis of DNA sequences. Oxford University Press. Oxford. 15. Pnolella P (1998) Introduction to Molecular Biology, WCB Mc Graw Hill, Boston, Massacheutts. 16. Walsh G, Headon DR. (1994). Protein Biotechnology, John Wiley & Sons, New York. 41 Second Year Semester - III
CC XII Environmental & Agricultural Microbiology - (Theory)
Unit I: Environmental Microbiology Characteristic features of environmental microflora: Important uses and harmful effects of virus, protozoa, Bacteria, actinomycetes, fungi, algae and nematodes. Microorganisms and their environment: Temperature, oxygen, desiccation, extreme cold, ionic effect, electricity, osmotic pressures, radiant energy, hydrostatic pressures, mechanical Impact, vibration, and surface forces.
Unit II: Air and Aquatic Microbiology Aerobiology A brief introduction -droplet nucleus aerosols -air borne transmission of microbes and diseases; assessment of air quality. Aquatic microbiology -factors that affect microbial growth temperature pressure light salinity - turbidity pH -inorganic and organic constituents. Aquatic habitats - freshwater - lakes, ponds and streams; marine habitats - estuaries, deep sea, hydrothermal vents, saltpans, coral reefs and mangroves and their microbial communities.
Unit III: Waste treatment Types of wastes - characterization of solid and liquid wastes. Bioremediation: Types of bioremediation, basics of bioremediation of surface soil and sludges. Principles and applications of bioaccumulation, biomagnification, biodegradation: Degradation of Biopolymers: Xylan, lignin and polyhydroxy alkanoates (bioplastics); Microbial degradation of hydrocarbons: Methane alkanes; Microbial degradation of halogenated and sulfonated compounds and Biodegradation of pesticides.
Unit IV: Agroecosystems Agroecosystems - Populations in agroecosystems, diversification of agroecosystems. Interaction between agroecosystems and natural ecosystems. Agrobiodiversity assessment and management, outline of the threats to agrobiodiversity and the need for conservation management: Impact of genetically modified crops. Microbial interactions: Plant & microbe, microbe & microbe interactions - Mutualism, commensalisms, amensalism, synergism, parasitism, 42 predation and competition. Outline of biogeochemical cycles: transformation, fixation and mobilization of nutrients, R: S ratio.
Unit V: Sustainable agriculture Concepts of sustainable agriculture. Traditional agricultural practice and organic farming; Biofertilizers: symbiotic and non-symbiotic microorganisms - Rhizosphere, Rhizoplane, phyllosphere. Rhizobium, Azospirillum, Azotobacter, phosphobacteria, Frankia, AMF and BGA. Out line of biopesticide, bioinsecticides, bioherbicides and its application to the agriculture.
References: 1. The microbial world 1990. Stanier, P.R., Ingraham., Wheelis, M.L and Painter, P.R. Prentice. Hall of India Private Limited, New Delhi. 2. Microbiology. 1996. Pelzar, Reid and Chan. Tata - Mc Graw Hill Publishing Company Limited. 3. Modern Soil Microbiology. 1997. Dirk J, Elas V, Trevors JT, Wellington, EMH, Marcel Dekker INC, New York, Hong Kong. 4. Environmental Microbiology. 1981. Grant WD, Long PL. Blackie Glasgow and London. 5. Pollution: Ecology and Biotreatment. 1993. Ec Eldowney S, Hardman DJ, Waite DJ, Waite S., Longman Scientific Technical. 6. Handbook of Microbial biofertilizers. 2005. MK. Rai, Food Products Press, New York.
43 Second Year Semester - III
CC XIV Practical (CC IX, CC X CC XI & CC XII)
CC IX Food and Dairy Microbiology - (Lab Course)
1. Microbial analysis of food products bacterial and fungal 2. Microbial spoilage of refrigerated food 3. Extracellular enzyme activities cellulase, protease, lipase and phosphatase 4. Milk microbiology direct microscopic count standard plate count 5. Reductase test (resazurin/methylene blue) 6. Isolation of microbes from yoghurt, curd 7. Field trip to dairy, food industries, sewage treatment plants
References: 1. Collins CH, Lyne PM. (1985) Microbiological methods, Butterworths, London. 2. Benson HJ. (1994) Microbiological Applications Wm. C. Brown Publishers, Oxford. 3. Clesceri LS, Greenberg AE, Eaton AD. (1998) Standard methods for examination of water & waste water American Public Health Association. 4. Aaronson S. (1970) Experimental Microbial Ecology, Academic Press, New York. 5. Official Methods of Analysis (1995), Arlington, Virginia, USA.
CC X Recombinant DNA Technology - (Lab Course)
1. Genomic DNA isolation 2. Plasmid DNA isolation 3. Restriction digestion 4. Transformation 5. PCR 6. Western Blotting 7. RAPD Fingerprinting 8. Competent cell preparation and ligation 9. Southern and Northern Blotting
44
References:
7. Molecular biology and Microbial genetics by David Frifielder, Stanely R. Maloy, 2 nd edition Jones and Barlett Publishers. 8. Genetics by Peter J Russell (1997) 5 th edition Benjamin-Cummings Publishing Company. 9. Genetic Engineering by Macky Macorty. 10. Molecular Biotechnology (2003) by Bernard R. Glick and Jack J.Pasternak., 2 nd
edition by ASM press. 11. Gene Cloning and DNA analysis (2004) by T.A.Brown 2 nd edition. By ASM press. 12. Application of rDNA Technology by Glick & Pasteneuk. 13. Principles of gene Manipulation and Genomics (2006) by sandy Primrose. 7 th
edition by Blackwell publishers.
CC XI Microbial Biotechnology - (Lab Course)
1. Separation of proteins by coloum chromatography ion exchange gel exclusion - adsorption 2. Separation of proteins by SDS PAGE and native gel. 3. Production, quantification, extraction and characterization of followings i) Alcohol, ii) Citric acid, iii) Amylase, iv) Lipase, v) protease, vi) penicillin and vii) Biofertilizers 4. Antibiotic assays- MIC antibiotic resistance 5. Lipid separation using TLC, and fatty acids by gas chromatographic technique 6. Hydrogen production assay by gas Chromatographic technique
References:
1. Ausubel FM, Brent R, Kingston, RE, Moore, D.D, Seidman J.G., Smith J.A and m Struhl K. (1994). Current Protocols in molecular biology 2. Gerhardt P, Murray RG, Wood WA and Kreig NR. (1994) , Methods for general and molecular Bacteriology. 45 3. Hames BD and Rickwood D. (1990) Gel Electrophoresis a practical approach (1990) , Oxford University Press, New York. 4. Lorian V. (1991) Antibiotics in LaboratoryMedicine Williams & Wilkins. 5. Westermeier R. (1993) - Electrophoresis in Practice VCH Federal Republic of Germany 6. Willett JE. (1991) Gas Chromatography John Wiley & Sons. 7. Wilson K and Walker. (1995) Practical Biochemistry Principles and Techniques, Cambridge University Press.
CC XII Environmental & Agricultural Microbiology - (Lab Course)
1. Quantification of microorganisms in air solid liquid impingement techniques. 2. Physical, Chemical & Microbial assessment of water. Colour, pH, alkalinity, acidity, COD, BOD, anions, cations, MPN index presumptive, completed and confirmative tests. 3. Isolation of microflora from different industrial waste. 4. Degradation of phenols colorimetric assay. 5. Microflora from different soil types & habitats. Isolation of N2 fixing, phosphate solubilizing / mobilizing microbes. 6. Localization of AMF. References: 1. Collins CH, Lyne PM. (1985) Microbiological methods, Butterworths, London. 2. Benson HJ. (1994) Microbiological Applications Wm. C. Brown Publishers, Oxford. 3. Clesceri LS, Greenberg AE, Eaton AD. (1998) Standard methods for examination of water & waste water American Public Health Association. 4. Aaronson S. (1970) Experimental Microbial Ecology, Academic Press, New York. 5. Official Methods of Analysis (1995), Arlington, Virginia, USA.