II Course Code: PMI301 T P C CIA-1 CIA-2 CIA-3 CIA-4 · CIA-3 CIA-4 Lab Theory Lab 10 10 - 50 - -...
Transcript of II Course Code: PMI301 T P C CIA-1 CIA-2 CIA-3 CIA-4 · CIA-3 CIA-4 Lab Theory Lab 10 10 - 50 - -...
Year: Second Year
Course: Evolution, Ecology and Environmental Microbiology
Teaching
Scheme
(Hrs/Week)
Continuous Internal Assessment (CIA)
L T P C CIA-1 CIA-2
4 0 - 4 10 20
Max. Time, End Semester Exam (Theory)
Prerequisite • Introduction and basic concepts
• Preliminary awareness of environmental
Objectives
1 To understand the history and development of evolutionary
2 To understand the evolutionary origin of biochemical disorders.
3 To create general understanding of ecological niche and its importance
4 To familiarize the students with
5 To describe environmental issues and apply the knowledge for developing sustainable
approach to address the challenges of field.
Unit
Number
1 History and development of evolutionary theory
Neo-Darwinism: Spontaneous mutation controversy, evolution of
mutation,
types of selection, levels of selection, group selection and selfish gene.
Sociobiology, kin selection, evolutionary stability of cooperation, sociality and
multicellularity in microorganisms , Game theory, Evolution and stability of
sex, sexual selection, parasite theory of sex and sexual selection. Co
evolutionary strategies, hostparasite co
molecular clocks, phylogeny and molecular distances, Molecular evolution:
origin of life, the origin of new genes
ageing, evolutionary trade offs, r and k selection,
2 Evolutionary origin of biochemical disorders
Speciation in sexual and asexual organisms, origin and stability of
diversity of secondary metabolites
Gut Microbiology: Gut Brain access., Fecal Microbial Transplant
3
Community ecology: community structure, benevolent interactions (control
within the microbial communities of rhizosphere), antagonistic
School of Science
M.Sc. Microbiology
Semester: I
Evolution, Ecology and Environmental Microbiology Course Code:
Internal Assessment (CIA) End Semester
Examination
2 CIA-3 CIA-4 Lab Theory Lab
10 10 - 50 -
End Semester Exam (Theory) - 3Hrs.
Introduction and basic concepts evolution, ecology
Preliminary awareness of environmental issues
To understand the history and development of evolutionary theory.
To understand the evolutionary origin of biochemical disorders.
To create general understanding of ecological niche and its importance
To familiarize the students with the concepts of environmental microbiology.
environmental issues and apply the knowledge for developing sustainable
approach to address the challenges of field.
Details
History and development of evolutionary theory
Darwinism: Spontaneous mutation controversy, evolution of
types of selection, levels of selection, group selection and selfish gene.
Sociobiology, kin selection, evolutionary stability of cooperation, sociality and
multicellularity in microorganisms , Game theory, Evolution and stability of
x, sexual selection, parasite theory of sex and sexual selection. Co
evolutionary strategies, hostparasite co-evolution, Neutral evolution and
molecular clocks, phylogeny and molecular distances, Molecular evolution:
origin of life, the origin of new genes and proteins. Evolution of life histories,
ageing, evolutionary trade offs, r and k selection,
Evolutionary origin of biochemical disorders: The case of insulin resistance.
Speciation in sexual and asexual organisms, origin and stability of
diversity of secondary metabolites
Gut Microbiology: Gut Brain access., Fecal Microbial Transplant
: community structure, benevolent interactions (control
within the microbial communities of rhizosphere), antagonistic interactions,
Semester: III
Course Code: PMI301
Total
100
the concepts of environmental microbiology.
environmental issues and apply the knowledge for developing sustainable
Hours
Darwinism: Spontaneous mutation controversy, evolution of rates of
types of selection, levels of selection, group selection and selfish gene.
Sociobiology, kin selection, evolutionary stability of cooperation, sociality and
multicellularity in microorganisms , Game theory, Evolution and stability of
x, sexual selection, parasite theory of sex and sexual selection. Co-
evolution, Neutral evolution and
molecular clocks, phylogeny and molecular distances, Molecular evolution:
and proteins. Evolution of life histories,
12
: The case of insulin resistance.
Speciation in sexual and asexual organisms, origin and stability of diversity, 12
: community structure, benevolent interactions (control
interactions,
12
(competition, antibiosis, predation etc.). Rhizosphere, rhizoplane, siderophore,
flavonide from plants, lectines, octapine, nipotine, indole acetic acid.
Mycorrhiza: Host-fungus specificity, host fungus interactions, rhizosphere
environment and recognition phenomenon, interaction of mycorrhizal fungi
with
non-host plants, functional capability.
Marine ecosystem: Environment of marine bacteria, bacterial growth in sea
and its regulation by environmental conditions, modeling of growth and
distribution of
marine micro plankton, mechanism of dissolved, organic matter production
(DOM), strategies of organic matter utilization and microbial utilization of
organic
matter in sea.
4 Wastewater Treatment
Wastewater treatment system (unit
equalization, mixing, flocculation, flotation, granular medium filtration,
adsorption.
Chemical precipitation, gas transfer, disinfection, dechlorination
Biological: (aerobic and anaerobic, suspended and attached growth
Working treatment systems and their analysis (reactions and kinetics, mass
balance analysis, reactor types, hydraulic character of reactors, selection of
reactor type,) Critical operating parameters like DO, hydraulic retention time,
mean cell residence time, F/M ratio etc. Malfunctioning of treatment systems
due to shock loading, hydraulic loading etc. and remedial measures adapted.
5 Effluent disposal, control and reuse. Water pollution control, Regulation and
limit for disposals in the la
reuse of
treated effluents and solid wastes.
Current industrial wastewater treatment and disposal processes ( Textile,
dyestuff, diary, paper and pulp manufacturing industries)
Course Outcome
Students should able to
CO1 Student will be able to demonstrate an understanding
CO2 Student will be able to demonstrate the basic
CO3 Student will be able to demonstrate the basic idea and applications
CO4 Student will be able to
issues
CO5 Student will be able to
solving approach.
(competition, antibiosis, predation etc.). Rhizosphere, rhizoplane, siderophore,
flavonide from plants, lectines, octapine, nipotine, indole acetic acid.
fungus specificity, host fungus interactions, rhizosphere
nd recognition phenomenon, interaction of mycorrhizal fungi
host plants, functional capability.
: Environment of marine bacteria, bacterial growth in sea
and its regulation by environmental conditions, modeling of growth and
marine micro plankton, mechanism of dissolved, organic matter production
(DOM), strategies of organic matter utilization and microbial utilization of
Wastewater Treatment:
Wastewater treatment system (unit process): Physical screening, flow
equalization, mixing, flocculation, flotation, granular medium filtration,
Chemical precipitation, gas transfer, disinfection, dechlorination
Biological: (aerobic and anaerobic, suspended and attached growth processes.)
Working treatment systems and their analysis (reactions and kinetics, mass
balance analysis, reactor types, hydraulic character of reactors, selection of
reactor type,) Critical operating parameters like DO, hydraulic retention time,
residence time, F/M ratio etc. Malfunctioning of treatment systems
due to shock loading, hydraulic loading etc. and remedial measures adapted.
Effluent disposal, control and reuse. Water pollution control, Regulation and
limit for disposals in the lakes, rivers, oceans, and land. Direct and indirect
treated effluents and solid wastes.
Current industrial wastewater treatment and disposal processes ( Textile,
dyestuff, diary, paper and pulp manufacturing industries)
Student will be able to demonstrate an understanding of evolution of life on earth.
Student will be able to demonstrate the basic understanding of ecological system.
Student will be able to demonstrate the basic idea and applications of ecosystem
Student will be able to develop a sense of understanding to deal with
Student will be able to use the knowlegde of techniques and develop the problem
(competition, antibiosis, predation etc.). Rhizosphere, rhizoplane, siderophore,
fungus specificity, host fungus interactions, rhizosphere
nd recognition phenomenon, interaction of mycorrhizal fungi
: Environment of marine bacteria, bacterial growth in sea
and its regulation by environmental conditions, modeling of growth and
marine micro plankton, mechanism of dissolved, organic matter production
(DOM), strategies of organic matter utilization and microbial utilization of
process): Physical screening, flow
equalization, mixing, flocculation, flotation, granular medium filtration,
processes.)
Working treatment systems and their analysis (reactions and kinetics, mass
balance analysis, reactor types, hydraulic character of reactors, selection of
reactor type,) Critical operating parameters like DO, hydraulic retention time,
residence time, F/M ratio etc. Malfunctioning of treatment systems
due to shock loading, hydraulic loading etc. and remedial measures adapted.
12
Effluent disposal, control and reuse. Water pollution control, Regulation and
kes, rivers, oceans, and land. Direct and indirect
Current industrial wastewater treatment and disposal processes ( Textile,
12
Total 60
evolution of life on earth.
ecological system.
of ecosystem
to deal with environmental
develop the problem-
Resources
Recommended
Books
1. Strickberger M. W. (2000).
2. Macan, T. T. (1974).
3. Richards, B.N. (1987).
Scientific & Technical, New York.
Reference Books
1. Ridley Mark (2004). Evolution. Blackwell Science Ltd.
2. Meadows, P. S. and J. I. Campbell. (1978). An introduction to Marine
Science. Blackie & Son Ltd., Glasgow.
3. Tchobanoglous G. and F. L. Burton. (1991). Wastewater Engineering,
Treatment, Disposal and Reuse. 3rd Ed., Metcalf and Eddy (Eds). Tata
Mac Graw Hill Publishing
1. Strickberger M. W. (2000). Evolution. Jones & Bartelette Publications.
2. Macan, T. T. (1974). Freshwater Ecology. Longman Group Ltd., London,.
3. Richards, B.N. (1987). Microbiology of Terrestrial Ecosystems
Scientific & Technical, New York.
Ridley Mark (2004). Evolution. Blackwell Science Ltd.
Meadows, P. S. and J. I. Campbell. (1978). An introduction to Marine
Science. Blackie & Son Ltd., Glasgow.
Tchobanoglous G. and F. L. Burton. (1991). Wastewater Engineering,
Treatment, Disposal and Reuse. 3rd Ed., Metcalf and Eddy (Eds). Tata
c Graw Hill Publishing Co. Ltd. New Delhi.
. Jones & Bartelette Publications.
. Longman Group Ltd., London,.
Terrestrial Ecosystems. Longman
Meadows, P. S. and J. I. Campbell. (1978). An introduction to Marine
Tchobanoglous G. and F. L. Burton. (1991). Wastewater Engineering,
Treatment, Disposal and Reuse. 3rd Ed., Metcalf and Eddy (Eds). Tata
Year: Second Year
Course: Microbial technology and Genetic E
Teaching
Scheme
(Hrs/Week)
Continuous Internal Assessment (CIA)
L T P C CIA-1 CIA-2
4 0 - 4 10 20
Max. Time, End Semester Exam (Theory)
Prerequisite • Introduction and basic concepts
Objectives
1 To impart the knowledge of microbial technology
2 To familiarize the students with
products of biological origin
3 To introduce the concepts of genetic engineering and its application
4 To apply the knowledge for mitigation of various social
5 To develop research driven approach for better understanding of
biological processes
Unit
Number
1
Bioreactor design and
a. Designing of bioreactors
dimensional ratios of
aspects such as working
b. The configuration (placement)
and the different types
and propellers, and the
c. Immobilized cell reactors
d. Batch, Fed�batch and
Applications, advantages
2
Process Variables and
a. Process Variables:
i.Aeration � Theory of
kinetics (Oxygen Uptake
determination of KLa.
ii.Agitation � Functions
different types of impellers.
iii.Fermentation broth
Concept of Newtonian
School of Science
M.Sc. Microbiology
Semester: I
Microbial technology and Genetic Engineering Course Code:
Continuous Internal Assessment (CIA) End Semester
Examination
2 CIA-3 CIA- 4 Lab Theory Lab
10 10 - 50 -
End Semester Exam (Theory) - 3Hrs.
Introduction and basic concepts microbial applications in industry
impart the knowledge of microbial technology
To familiarize the students with the fundamental processes of fermentation for production of
products of biological origin
introduce the concepts of genetic engineering and its application
for mitigation of various social issues
develop research driven approach for better understanding of
Details
and operation :
bioreactors � Design aspects CSTRs: The
of the outer shell, and the operational
working volume, baffles and impellers.
(placement) of impellers in a vessel
types of impellers (types of turbines
their combinations)
reactors and air�lift reactors – Design and operation.
and Continuous operation:
advantages and limitations of each type.
and Monitoring:
of oxygen transfer in bubble aeration, Oxygen transfer
Uptake Rate –OUR; Oxygen Transfer Rate OTR; Ccrit),
KLa.
Functions of agitation. Flow patterns with
impellers.
broth rheology and power requirements for agitation
Newtonian and nonNewtonian fluids, effect of broth rheology
Semester: III
Course Code: PMI302
Total
100
s in industry
the fundamental processes of fermentation for production of
develop research driven approach for better understanding of the applications of
Hours
operation.
12 L
transfer
Ccrit),
itation –
rheology on
12 L
heat, nutrient and oxygen
Aeration number: working
b. Monitoring of process
Use of various types of
monitoring environme
O2), Basic principles
3
Microbial Processes:
for the following: iv.
Microbial enzymes (Chitinase).
Use of immobilized cells
Microbial Growth cha
a.Concept of primary
associated) metabolites
b.Kinetics of growth and
efficiency etc.)
c.Effect of type of growth
pellet form, mycelial
exopolysaccharides) affects
also cell proliferation
cells. At least one example
s in any suitable fermentation
4
Use of fungi in industry
i. Biofertilizers, Bioremediation
ii. Food industry, biosensors
Animal cell culture technology
a. Recombinant forms
b. Recombinant vaccines(protein
c. Recombinant enzymes(lipase,
d. Monoclonal antibodies
e. Nucleic acid�based
5
Genetic Engineering
Recombinant DNA technology:
Proteomics, DNA fingerprinting, Modern techniques: Use of RFLP, AFLP,
RAPD and Satellites in mapping of genes
Gene technology: Gene
genome libraries, cDNA
screening • Site directed
•Cloning and manipulating
• Gene transfer to host
•Genetically modified
plants and animals.
Applications of recombinant
Concept and meaning
oxygen transfer, Reynold’s number, Power number,
working out examples using different softwares
process variables:
of sensors and biosensors for
environmental parameters (pressure, pH, temperature, DO
of operation, types of biosensors
: Upstream, Fermentation and Downstream Processing
Antibiotics (Rifamycin)
(Chitinase). iii. Exopolysaccharides (Pullulan)
cells / enzymes to produce protease
characteristics and product formation
(growth associated) and secondary (growth non
metabolites and their control,
and product formation (growth rate, yield coefficient,
growth on fermentation: The type of growth (mycelia
mycelial filamentous form, free cell, cells producing
affects mass transfer of nutrients, oxygen and heat;
proliferation can be affected by shearing of
example of each type may be explained to show these
fermentation.
industry like agriculture and environmental applications:
Bioremediation and Biological control.
biosensors and fuel cells
technology to produce:
forms of natural proteins (insulin, erythropoietin),
vaccines(protein: HIV, hepatitis B and DNA: HIV,
enzymes(lipase, restriction endonuclease),
antibodies
based products (introduction to gene therapy)
Genetic Engineering
Recombinant DNA technology: Basic and applied aspects, Genomics and
Proteomics, DNA fingerprinting, Modern techniques: Use of RFLP, AFLP,
RAPD and Satellites in mapping of genes
Gene cloning strategies: preparation of gene,
cDNA libraries, PCR cloning and alternatives. Library
directed mutagenesis and protein engineering,
pulating large fragments of DNA; YAC, BAC, HAC
host cells. •Expression vectors
modified animals and plant , applications of these transgenic
recombinant DNA technology
ng of genome projects and their applications.
number,
DO and DC
rocessing.
ii.
iv.
non�
coefficient,
(mycelia
heat; as
these effect
12 L
applications:
HIV, malaria),
12 L
Basic and applied aspects, Genomics and
Proteomics, DNA fingerprinting, Modern techniques: Use of RFLP, AFLP,
Library
HAC
transgenic
12 L
Total 60
Course Outcome
Students should able to
CO1 Student will be able to describe fundamentals of biological processes.
CO2 Student will be able to explain the fermentation process
CO3 Student will be able to understand the design and types of bioreactor
CO4 Student will be able to apply the knowledge to for production and recovery of bio
products
CO5 Student will be able to understand principles and applications of genetic
engineering
Resources
Recommended
Books
1. Bioreactor
Butterworths
2. Doran Pauline
Press.
3. Lydersen
Engineering:
Sons Inc.
4. Ratledge
Ed. Cambridge
ples and
5. James D.
Michael
Gene, 5th
Publishing,
6. Lewin’s
7. Malom Campbell
Proteomics
8. S.B Primrose
9. Walker J.M.,
Biotechnology,
Reference
Books
10. Molecular
Press, U.K.
11. Lydersen
Bioprocess
Wiley and
12. Operational
Butterworths
13. Shuichi
14. Stanbury
Student will be able to describe fundamentals of biological processes.
Student will be able to explain the fermentation process
Student will be able to understand the design and types of bioreactor
to apply the knowledge to for production and recovery of bio
Student will be able to understand principles and applications of genetic
Bioreactor Design and Product Yield (1992), BIOTOL series,
Butterworths Heinemann.
Pauline (1995) Bioprocess Engineering Principles,
Lydersen B., N. a. D’ Elia and K. M. Nelson (Eds.) (1993)
Engineering: Systems, Equipment and Facilities, John Wiley
Inc.
Ratledge C and Kristiansen B eds. (2001) Basic Biotechnology
Cambridge Univ. Press. Cambridge B. R. Glick, J.J.
applications of recombinant DNA, 3rd Ed., ASM
D. Watson, Tania Baker, Stephen P. Bell, Alexander
Levine, Richard Loswick (2004) Molecular Biology
5th Edition, Pearson Education, Inc. and Dorling
Publishing, Inc.
Genes XI, (2014) Jones and Bartelett Publishers
Campbell and L. J. Heyer, Discovering genomics,
Proteomics and Bioinformatics, 2nd Ed., Pearson Publication,
Primrose and R M Twyman 2006 7th edition. Blackwell
J.M., Rapley R. (eds.) Molecular Biology and
Biotechnology, 4thEd., 2009, Royal Society Press, U.K.
Molecular Biology and Biotechnology, 4th Ed., 2009, Royal
U.K.
Lydersen B., N. a. D’ Elia and K. M. Nelson (Eds.) (1993),
Bioprocess Engineering: Systems, Equipment and Facilities,
and Sons Inc.
Operational Modes of Bioreactors, (1992) BIOTOL series,
Butterworths Heinemann.
Shuichi and Aiba. Biochemical Engineering. Academic
Stanbury and Whittaker. Fermentation technology
Student will be able to describe fundamentals of biological processes.
Student will be able to understand the design and types of bioreactor
to apply the knowledge to for production and recovery of bio-
Student will be able to understand principles and applications of genetic
series,
Principles, Academic
(1993) Bioprocess
Wiley and
Biotechnology 2nd
J.J. Pasterneck, Princi
ASM press.
Alexander Gann,
Biology of the
Kindersley
Publishers Inc.
genomics,
Publication, 2009.
Blackwell publishing
U.K.
Royal Society
(1993),
Facilities, John
series,
Press. 1982
Year: Second Year
Course: Immunology
Teaching
Scheme
(Hrs/Week)
Continuous Internal Assessment (CIA)
L T P C CIA-1 CIA-2
4 0 - 4 10 20
Max. Time, End Semester Exam (Theory)
Prerequisite • Introduction
Objectives
1 To familiarize the student with the basics of immune system and its role in disease
outcome
2 To understand the cellular and molecular basis of immune responsiveness.
3 To describe the function of the immune system in both maintaining health and
contributing to disease.
4 To understand immunological response, its activation and regulation
5 To develop research oriented approach by transferring the knowledge of immunology
into applications.
Unit
Number
1
Introduction Overview of Immune system:
History and scope of Immunology,
Types of immunity,
Hematopoiesis
Cells and organs of the immune system: primary and secondary lymphoid
organs: structure and function.
2
Generation of B cell and T cell responses
Antigens: structure and properties, factors affecting the immunogenicity,
properties of B and T-
Antibody: structure, properties, types and function of antibodies, antigenic
determinants on immunoglobulin; isotypes, allotypes, and idiotypes, molecular
mechanism of antibody diversity and class switching.
Organization and expression of immunoglobulin genes
Cell mediated immunity and its mechanism
School of Science
M.Sc. Microbiology
Semester: I
Course Code:
Internal Assessment (CIA) End Semester
Examination
2 CIA-3 CIA-4 Lab Theory Lab
10 10 - 50 -
End Semester Exam (Theory) - 3Hrs.
Introduction to basic concepts and terms of immunology
To familiarize the student with the basics of immune system and its role in disease
understand the cellular and molecular basis of immune responsiveness.
To describe the function of the immune system in both maintaining health and
contributing to disease.
To understand immunological response, its activation and regulation
develop research oriented approach by transferring the knowledge of immunology
Details
Overview of Immune system:
History and scope of Immunology,
of the immune system: primary and secondary lymphoid
organs: structure and function.
Generation of B cell and T cell responses Antigens: structure and properties, factors affecting the immunogenicity,
- cell epitopes, haptens, mitogens, super antigen, adjuvants
Antibody: structure, properties, types and function of antibodies, antigenic
determinants on immunoglobulin; isotypes, allotypes, and idiotypes, molecular
mechanism of antibody diversity and class switching.
nization and expression of immunoglobulin genes
Cell mediated immunity and its mechanism
Semester: III
Course Code: PMI303
Total
100
to basic concepts and terms of immunology.
To familiarize the student with the basics of immune system and its role in disease
understand the cellular and molecular basis of immune responsiveness.
To describe the function of the immune system in both maintaining health and
To understand immunological response, its activation and regulation
develop research oriented approach by transferring the knowledge of immunology
Hours
of the immune system: primary and secondary lymphoid
12 L
Antigens: structure and properties, factors affecting the immunogenicity,
haptens, mitogens, super antigen, adjuvants
Antibody: structure, properties, types and function of antibodies, antigenic
determinants on immunoglobulin; isotypes, allotypes, and idiotypes, molecular
12 L
Course Outcome
Students should able to
CO1 Student will be able to understand the concepts of immunology
CO2 Student will be able to understand cellular and molecular mechanism involved in
immune response
CO3 Student will be able to describe the roles of immunity for defeating diseases.
CO4 Student will be able to demonstrate a capacity for problem
responsiveness.
CO5 Student will be able to apply this scientific knowledge of the field for developing
applications
3
Immune Effector Mechanisms
Major histocompatibility complex: organization of MHC genes, types and
function of MHC molecules, antigen presentation,
Complement system: components, activation pathways, regulation of activation
pathways and role of complement system in immune response.
Cytokines: types, structure and functions, cytokines receptors, cytokine
regulation of immune receptors.
Immune response to infectious diseases: viral infection, bacterial infection,
protozoan diseases, helminthes related diseases.
4
The Immune System in Health and Disease
Hypersensitivity: type I, II, III and types IV hypersensitivity.
Immunodeficiency diseases: primary and secondary immunodeficiency.
Autoimmunity: organ specific autoimmune diseases, mechanism of
autoimmune diseases and therapeutic approaches.
Transplantation immunology: immunologic basis of graft rejection, clinical
manifestation of graft rejection and clinical transplantation.
Cancer immunology: tumor antigen, immune response to tumor, oncogene and
induction, cancer immunotherapy.
5
Applications of Immunology:
Antigen- antibody interaction: avidity and affinity measurements, detection of
antigen- antibody interaction by precipitation, agglutination, RIA, and ELISA,
Western Blotting, Immunofluorenscence, Flow cytometry.
Vaccines: Active and passive immunization, vaccine schedule, whole organism
vaccine, subunit vaccine, vaccine, DNA vaccine, recombinant vaccine, subunit
vaccines
Hybridoma technology: murine monoclonal antibody production, principle of
selection, characterization and app
research.
Antibody engineering: Chimeric and Humanized monoclonal antibodies.
Student will be able to understand the concepts of immunology
Student will be able to understand cellular and molecular mechanism involved in
Student will be able to describe the roles of immunity for defeating diseases.
Student will be able to demonstrate a capacity for problem-solving about immune
Student will be able to apply this scientific knowledge of the field for developing
Immune Effector Mechanisms Major histocompatibility complex: organization of MHC genes, types and
function of MHC molecules, antigen presentation,
Complement system: components, activation pathways, regulation of activation
pathways and role of complement system in immune response.
Cytokines: types, structure and functions, cytokines receptors, cytokine
regulation of immune receptors.
se to infectious diseases: viral infection, bacterial infection,
protozoan diseases, helminthes related diseases.
The Immune System in Health and Disease Hypersensitivity: type I, II, III and types IV hypersensitivity.
Immunodeficiency diseases: primary and secondary immunodeficiency.
Autoimmunity: organ specific autoimmune diseases, mechanism of
autoimmune diseases and therapeutic approaches.
tion immunology: immunologic basis of graft rejection, clinical
manifestation of graft rejection and clinical transplantation.
Cancer immunology: tumor antigen, immune response to tumor, oncogene and
induction, cancer immunotherapy.
Applications of Immunology:
antibody interaction: avidity and affinity measurements, detection of
antibody interaction by precipitation, agglutination, RIA, and ELISA,
Western Blotting, Immunofluorenscence, Flow cytometry.
e and passive immunization, vaccine schedule, whole organism
vaccine, subunit vaccine, vaccine, DNA vaccine, recombinant vaccine, subunit
Hybridoma technology: murine monoclonal antibody production, principle of
selection, characterization and applications in diagnosis, therapy and basis
Antibody engineering: Chimeric and Humanized monoclonal antibodies.
Student will be able to understand cellular and molecular mechanism involved in
Student will be able to describe the roles of immunity for defeating diseases.
about immune
Student will be able to apply this scientific knowledge of the field for developing
Major histocompatibility complex: organization of MHC genes, types and
Complement system: components, activation pathways, regulation of activation
Cytokines: types, structure and functions, cytokines receptors, cytokine
se to infectious diseases: viral infection, bacterial infection,
12 L
Hypersensitivity: type I, II, III and types IV hypersensitivity.
Immunodeficiency diseases: primary and secondary immunodeficiency.
Autoimmunity: organ specific autoimmune diseases, mechanism of
tion immunology: immunologic basis of graft rejection, clinical
Cancer immunology: tumor antigen, immune response to tumor, oncogene and
12 L
antibody interaction: avidity and affinity measurements, detection of
antibody interaction by precipitation, agglutination, RIA, and ELISA,
e and passive immunization, vaccine schedule, whole organism
vaccine, subunit vaccine, vaccine, DNA vaccine, recombinant vaccine, subunit
Hybridoma technology: murine monoclonal antibody production, principle of
lications in diagnosis, therapy and basis
Antibody engineering: Chimeric and Humanized monoclonal antibodies.
12 L
Total 60
Resources
Recommended
Books
• Jacquelyn G. Black (2013) Microbiology: Principles and
Explorations, 6th Edition, John
• Microbial Diversity: Form and Function in Prokaryotes,
Published Online: 30 NOV 2007.
DOI: 10.1002/9780470750490.ch1
• Ridley Mark (2004). Evolution. Blackwell Science Ltd.
• Breed and Buchanan. Bergey’s Manual of Determinative
Bacteriology. 8
• Breed and Buchanan. Bergey’s Manual of Determinative
Bacteriology. 9
• Breed and Buchanan. Bergey’s Manual of Systematic
Bacteriology. 2
Reference
Books
• Sykes, G. and F. A. Skinner (Eds). Actinomycetales:
Characteristics and Practical Importance. Society for Applied
Bacteriology Symposium Series No. 2, Academic Press. 1973.
• Jacquelyn G. Black (2013) Microbiology: Principles and
Explorations, 6th Edition,
• Lodder J. (1974). The Yeasts: A Taxonomic Study, North
Holland Publishing Co. Amsterdam.
Jacquelyn G. Black (2013) Microbiology: Principles and
Explorations, 6th Edition, John Wiley & Sons, Inc.,
Microbial Diversity: Form and Function in Prokaryotes,
Published Online: 30 NOV 2007.
DOI: 10.1002/9780470750490.ch1
Ridley Mark (2004). Evolution. Blackwell Science Ltd.
Breed and Buchanan. Bergey’s Manual of Determinative
Bacteriology. 8th Edition, 1974.
Breed and Buchanan. Bergey’s Manual of Determinative
Bacteriology. 9th Edition, 1982.
Breed and Buchanan. Bergey’s Manual of Systematic
Bacteriology. 2nd Edition, (Volumes. 1 – 5) (2001 – 2003).
Sykes, G. and F. A. Skinner (Eds). Actinomycetales:
Characteristics and Practical Importance. Society for Applied
Bacteriology Symposium Series No. 2, Academic Press. 1973.
Jacquelyn G. Black (2013) Microbiology: Principles and
Explorations, 6th Edition, John Wiley & Sons, Inc.,
Lodder J. (1974). The Yeasts: A Taxonomic Study, North
Holland Publishing Co. Amsterdam.
Characteristics and Practical Importance. Society for Applied
Bacteriology Symposium Series No. 2, Academic Press. 1973.
Year: Second Year
Course: Bioinformatics and Structural Biology
Teaching
Scheme
(Hrs/Week)
Continuous Internal Assessment (CIA)
L T P C CIA-1 CIA-2
4 0 - 4 10 20
Max. Time, End Semester Exam (Theory)
Prerequisite To understand the genomics and proteomics data for the disease diagnosis and
drug development
Objectives
1 To study the development and scope of bioinformatics
2 To study the various biological databases and its importance
3 To study the basis of proteomics
4 To study the genomics and phylogenetics analysis
5 To study the basic concepts of molecular modeling
Unit
Number
1 Introduction to Bioinformatics
History, development, scope, importance and application of Bioinformatics,
introduction of computer, internet and related programs for
e.g. WWW, HTML, HTTP, telnet, ftp etc., Internet resources of biological
data; Pubmed, Entrez, NCBI, NLM, NIH, EMBnet, Genomnet, DBGet,
EMBL, database retrieval. Concept of database, various types of biological
databases.
2 Biological sequence and structure databases
sequencing, cDNA libraries, submission of sequence to databases, sequence
formats, protein primary, composite, secondary sequence databases.
sequence databases
European molecular Biology laboratory (EMBL), DNA Databank of Japan
(DDBJ), GenBank, websites for protein sequence databases.
databases: Three-dimensional structure prediction, X
EM techniques, protein folding classe
Protein Data bank (PDB), Nucleic Acid Data Bank (NDB), Molecular
School of Science
M.Sc. Microbiology
Semester: I
and Structural Biology Course Code:
Continuous Internal Assessment (CIA) End Semester
Examination
2 CIA-3 CIA- 4 Lab Theory Lab
10 10 - 50 -
End Semester Exam (Theory) - 3Hrs.
To understand the genomics and proteomics data for the disease diagnosis and
drug development
To study the development and scope of bioinformatics
To study the various biological databases and its importance
To study the basis of proteomics
To study the genomics and phylogenetics analysis
To study the basic concepts of molecular modeling
Details
Introduction to Bioinformatics:
History, development, scope, importance and application of Bioinformatics,
introduction of computer, internet and related programs for file/data sharing
e.g. WWW, HTML, HTTP, telnet, ftp etc., Internet resources of biological
data; Pubmed, Entrez, NCBI, NLM, NIH, EMBnet, Genomnet, DBGet,
EMBL, database retrieval. Concept of database, various types of biological
Biological sequence and structure databases: Protein and DNA
sequencing, cDNA libraries, submission of sequence to databases, sequence
formats, protein primary, composite, secondary sequence databases.
sequence databases: Human genome project, Microbiome genome,
European molecular Biology laboratory (EMBL), DNA Databank of Japan
(DDBJ), GenBank, websites for protein sequence databases. Structural
dimensional structure prediction, X-ray, NMR and Cryo
EM techniques, protein folding classes, structure classification databases,
Protein Data bank (PDB), Nucleic Acid Data Bank (NDB), Molecular
Semester: III
Course Code: PMI304
Total
100
To understand the genomics and proteomics data for the disease diagnosis and
Hours
History, development, scope, importance and application of Bioinformatics,
file/data sharing
e.g. WWW, HTML, HTTP, telnet, ftp etc., Internet resources of biological
data; Pubmed, Entrez, NCBI, NLM, NIH, EMBnet, Genomnet, DBGet,
EMBL, database retrieval. Concept of database, various types of biological
12 L
Protein and DNA
sequencing, cDNA libraries, submission of sequence to databases, sequence
formats, protein primary, composite, secondary sequence databases. DNA
me genome,
European molecular Biology laboratory (EMBL), DNA Databank of Japan
Structural
ray, NMR and Cryo-
s, structure classification databases,
Protein Data bank (PDB), Nucleic Acid Data Bank (NDB), Molecular
12 L
modeling Data Bank (MMDB).
3 Proteomics study: Protein sequence and structure information,
physicochemical properties of protein based on sequence, secondary
structure analysis, sequence comparison, pair
alignment, gaps, gap
structure prediction from sequence, Homology modeling; 3D protein
structure prediction from sequence, validation of protein model,
Ramachandran plot, significance of 3
using internet tools, protein folding classes.
4 Genomics study: Goals of the Human Genome Project, structural and
functional aspects of DNA and RNA, Central dogma, recombinant DNA
technology, next generation sequencing (NGS), designing primer for DNA
sequencing, Genome Mapping, Genome information
Nucleotide sequence analysis, Expressed sequence tag, DNA Microarray and
analysis, Gene identification: masking repetitive DNA, DNA database
search, codon-bias detection, identification of functional sites in the DNA.
Internet resources for gene identification.
elements of phylogeny, methods of phylogenetic analysis, phylogenetic tree
of life, phylogenetic analysis online tools.
5 Molecular Modeling
ordinate system; bond distance, bond angle, torsion angle, Van der Waals
and electrostatic interactions, Introduction of quantum mechanics, force
field, energy calculations, energy minimization and geometry optimization,
conformational search, Molecular
docking analysis, Computer aided drug design, ligand and structure based
approach. Introduction to molecular dynamics simulation, theory and
applications of MD simulations.
Course Outcome
Students should able to
CO1 Understand the history and development of Bioinformatics
CO2 Understand the use of biological databases and its use
CO3 Understand the proteomics data and how to analyze
CO4 Analyze the genomics data
CO5 Understand the basis of molecular modeling and molecular dynamics simulations
Resources
modeling Data Bank (MMDB).
: Protein sequence and structure information,
physicochemical properties of protein based on sequence, secondary
structure analysis, sequence comparison, pair-wise and multiple sequence
alignment, gaps, gap-penalties, scoring matrices, ClustalW. Secondary
structure prediction from sequence, Homology modeling; 3D protein
structure prediction from sequence, validation of protein model,
Ramachandran plot, significance of 310
helix and loops, proteomics analysis
using internet tools, protein folding classes.
Goals of the Human Genome Project, structural and
functional aspects of DNA and RNA, Central dogma, recombinant DNA
technology, next generation sequencing (NGS), designing primer for DNA
sequencing, Genome Mapping, Genome information and special features,
Nucleotide sequence analysis, Expressed sequence tag, DNA Microarray and
analysis, Gene identification: masking repetitive DNA, DNA database
bias detection, identification of functional sites in the DNA.
es for gene identification. Phylogenetic analysis: Evolution,
elements of phylogeny, methods of phylogenetic analysis, phylogenetic tree
of life, phylogenetic analysis online tools.
Molecular Modeling: Introduction of molecular modeling approach, c
ordinate system; bond distance, bond angle, torsion angle, Van der Waals
and electrostatic interactions, Introduction of quantum mechanics, force
field, energy calculations, energy minimization and geometry optimization,
conformational search, Molecular docking and virtual screening, post
docking analysis, Computer aided drug design, ligand and structure based
approach. Introduction to molecular dynamics simulation, theory and
applications of MD simulations.
he history and development of Bioinformatics
Understand the use of biological databases and its use
Understand the proteomics data and how to analyze
Analyze the genomics data
Understand the basis of molecular modeling and molecular dynamics simulations
: Protein sequence and structure information,
physicochemical properties of protein based on sequence, secondary
wise and multiple sequence
penalties, scoring matrices, ClustalW. Secondary
structure prediction from sequence, Homology modeling; 3D protein
structure prediction from sequence, validation of protein model,
helix and loops, proteomics analysis
12 L
Goals of the Human Genome Project, structural and
functional aspects of DNA and RNA, Central dogma, recombinant DNA
technology, next generation sequencing (NGS), designing primer for DNA
and special features,
Nucleotide sequence analysis, Expressed sequence tag, DNA Microarray and
analysis, Gene identification: masking repetitive DNA, DNA database
bias detection, identification of functional sites in the DNA.
: Evolution,
elements of phylogeny, methods of phylogenetic analysis, phylogenetic tree
12 L
: Introduction of molecular modeling approach, co-
ordinate system; bond distance, bond angle, torsion angle, Van der Waals
and electrostatic interactions, Introduction of quantum mechanics, force
field, energy calculations, energy minimization and geometry optimization,
docking and virtual screening, post
docking analysis, Computer aided drug design, ligand and structure based
approach. Introduction to molecular dynamics simulation, theory and
12 L
Total 60
Understand the basis of molecular modeling and molecular dynamics simulations
Recommended
Books
1. Introduction to computational Biology by C. Stan Tsai
2. Essential Bioinformatics by Jin xiong
3. Introduction to Bioinformatics by Attwood and Parry
Reference Books
1.Molecular modeling of proteins by Andreas Kukol, Humana press
2.Introduction to computational biochemistry, by C.
WILEY & SONS, Inc., Publication.
3.Bioinformatics,
4.Introduction to Bioinformatics, Teresa K Attwood and David J Parry
smith.
5.Essential Bioinformatics, Jin Xiong, Cambridge University press.
6.Molecular modeling of proteins by Andreas Kukol, Humana press.
Introduction to computational Biology by C. Stan Tsai
Essential Bioinformatics by Jin xiong
Introduction to Bioinformatics by Attwood and Parry-Smith
Molecular modeling of proteins by Andreas Kukol, Humana press
Introduction to computational biochemistry, by C. Stan Tsai, A John
WILEY & SONS, Inc., Publication.
Bioinformatics, Sequence and Genome analysis by David Mount.
Introduction to Bioinformatics, Teresa K Attwood and David J Parry
Essential Bioinformatics, Jin Xiong, Cambridge University press.
Molecular modeling of proteins by Andreas Kukol, Humana press.
Smith
Molecular modeling of proteins by Andreas Kukol, Humana press
Stan Tsai, A John
Sequence and Genome analysis by David Mount.
Introduction to Bioinformatics, Teresa K Attwood and David J Parry-
Essential Bioinformatics, Jin Xiong, Cambridge University press.
Molecular modeling of proteins by Andreas Kukol, Humana press.
Year: Second Year
Course: Evolution, Ecology and Environmental Microbiology
Microbial technology and genetic engineering Laboratory
Teaching
Scheme
(Hrs/Week)
Continuous Internal Assessment (CIA)
L T P C CIA-1 CIA-2
0 0 4 2 - -
Max. Time, End Semester Exam (Theory)
Objectives
1 To acquire proficiency in
2 To impart the knowledge of fermentation techniques for production and recovery of bio
products
3 To train the students in genetic engineering techniques.
Sr.
No.
1 Water and soil sampling
2 Microbial population (Direct and indirect
3 Isolation of free-living and symbiotic N2
4 Isolation and enumeration of phosphate solubilising
degraders or pesticide degraders 5 Physico-chemical analysis of water
Chemical oxygen demand, Biological oxygen demand6 Determination of potability of water following MPN methods
and confirmatory tests of 7 Collection and identification of important bacterial/fungal strains of industrial importance
8 Media optimization for large scale production (effect of medium composition on any one
of the products 9 Antibiotic production, its recovery and
10 Alcoholic fermentation 11 Citric acid production in batch culture.12 Transformation and conjugation of bacteria13 PCR technique 14 Southern blotting
School of Science
M.Sc. Microbiology
Semester: I
Evolution, Ecology and Environmental Microbiology And
Microbial technology and genetic engineering Laboratory Course Code:
Internal Assessment (CIA) End Semester
Examination
2 CIA-3 CIA- 4 Lab Theory Lab
- - 50 - 50
End Semester Exam (Theory) - 2Hrs.
To acquire proficiency in the field of ecology and environmental microbiology
To impart the knowledge of fermentation techniques for production and recovery of bio
To train the students in genetic engineering techniques.
Description
sampling
Microbial population (Direct and indirect methods)
living and symbiotic N2-fixing bacteria
Isolation and enumeration of phosphate solubilising /cellulose decomposing
degraders or pesticide degraders bacteria from different habitats (plate count method).
chemical analysis of water -pH, total and dissolved solids, Dissolved oxygen,
Chemical oxygen demand, Biological oxygen demand.
Determination of potability of water following MPN methods-MPN index, presumptive
and confirmatory tests of coliforms.
Collection and identification of important bacterial/fungal strains of industrial importance
Media optimization for large scale production (effect of medium composition on any one
Antibiotic production, its recovery and its purification
Citric acid production in batch culture.
Transformation and conjugation of bacteria
Semester: III
Course Code: PMI311
Total
100
the field of ecology and environmental microbiology
To impart the knowledge of fermentation techniques for production and recovery of bio
cellulose decomposing/ chitinase
bacteria from different habitats (plate count method).
pH, total and dissolved solids, Dissolved oxygen,
MPN index, presumptive
Collection and identification of important bacterial/fungal strains of industrial importance
Media optimization for large scale production (effect of medium composition on any one
Term Work:
Term Work assessment shall be conducted for the Project, Tutorials and Seminar. Term work is
continuous assessment based on
journal/record book, oral/viva, respectively
institute. At the end of the semester, the final grade for a Term Work shall be assigned based on
the performance of the student and is to be submitted to the University.
Notes
1 The regular attendance of
monitored and marks will be given accordingly (10
2 Good Laboratory Practices (
3 Timely Completion (10 Marks)
4 Journal / Record Book (10 Marks)
5 Oral / Viva (10 Marks)
Practical/Oral/Presentation:
Practical/Oral/Presentation shall be conducted and assessed jointly by at least a pair of examiners
appointed as internal and external
mark/grade sheet in the format as specified by the University, authenticate and seal it. Sealed
envelope shall be submitted to the head of the department or authorized person.
Notes
1 One experiment from the regular
2 Oral/Viva-voce (10 Marks).
Term Work assessment shall be conducted for the Project, Tutorials and Seminar. Term work is
continuous assessment based on attendance, good laboratory practice (GPL), timely completion,
journal/record book, oral/viva, respectively. It should be assessed by course
institute. At the end of the semester, the final grade for a Term Work shall be assigned based on
the performance of the student and is to be submitted to the University.
The regular attendance of the students during semester for practical course will be
rks will be given accordingly (10 Marks).
Good Laboratory Practices (10 Marks)
Timely Completion (10 Marks)
Journal / Record Book (10 Marks)
Practical/Oral/Presentation shall be conducted and assessed jointly by at least a pair of examiners
internal and external examiners by the University. The examiners will prepare the
mark/grade sheet in the format as specified by the University, authenticate and seal it. Sealed
envelope shall be submitted to the head of the department or authorized person.
One experiment from the regular practical syllabus will be conducted (40 Marks).
Term Work assessment shall be conducted for the Project, Tutorials and Seminar. Term work is
attendance, good laboratory practice (GPL), timely completion,
course teacher of the
institute. At the end of the semester, the final grade for a Term Work shall be assigned based on
practical course will be
Practical/Oral/Presentation shall be conducted and assessed jointly by at least a pair of examiners
The examiners will prepare the
mark/grade sheet in the format as specified by the University, authenticate and seal it. Sealed
practical syllabus will be conducted (40 Marks).
Year: Second Year
Course: Immunology and Bioinformatics and Structural Biology
Laboratory
Teaching
Scheme
(Hrs/Week)
Continuous Internal Assessment (CIA)
L T P C CIA-1 CIA-
2
0 0 4 2 - -
Max. Time, End Semester Exam (Theory)
Objectives
1 To train the students in immunological techniques
2 Queering and analyzing the proteomics and genomics data, and its use in the finding the cause
of disease and in the drug development
Sr. No.
1 Determination of phagocytic index2 ABO blood grouping3 Immuno-diffusion method
4 Immunoelectrophoresis technique5 Serological test- Widal test for titre determination6 ELISA for detection of antigen and antibodies.7 Introduction to scientific literature database at National Centre for Biotechnology
Information (NCBI) and querying the PUBMED literature database.
8 Getting the primary sequences of protein or DNA from protein database and
querying the protein/DNA sequence database. 9 Introduction of Basic local alignment search tool (BLAST).
10 Pairwise and multiple protein sequence analysis using the Clustal Omega. 11 Introduction of RCSB and querying, and analyzing the primary, secondary tertiary
and quaternary structure of protein using PyMol.
12 Three dimensional protein structure
technique. 13 Molecular docking of protein and ligand using AutoDock4.2 software. 14 Molecular dynamics simulation using GROMACS/AMBER.
School of Science
M.Sc. Microbiology
Semester: I
Immunology and Bioinformatics and Structural Biology Course Code:
Continuous Internal Assessment (CIA) End Semester
Examination
CIA-
3
CIA-
4 Lab Theory Lab
- - 50 - 50
End Semester Exam (Theory) - 2Hrs.
To train the students in immunological techniques
Queering and analyzing the proteomics and genomics data, and its use in the finding the cause
of disease and in the drug development
Description
Determination of phagocytic index
ABO blood grouping
diffusion method (Ouchterlony method)
Immunoelectrophoresis technique
Widal test for titre determination
ELISA for detection of antigen and antibodies./ dot ELISA
Introduction to scientific literature database at National Centre for Biotechnology
Information (NCBI) and querying the PUBMED literature database.
Getting the primary sequences of protein or DNA from protein database and
querying the protein/DNA sequence database.
Introduction of Basic local alignment search tool (BLAST).
Pairwise and multiple protein sequence analysis using the Clustal Omega.
Introduction of RCSB and querying, and analyzing the primary, secondary tertiary
and quaternary structure of protein using PyMol.
Three dimensional protein structure prediction using homology modeling
Molecular docking of protein and ligand using AutoDock4.2 software.
Molecular dynamics simulation using GROMACS/AMBER.
Semester: III
Course Code: PMI312
Total
100
Queering and analyzing the proteomics and genomics data, and its use in the finding the cause
Introduction to scientific literature database at National Centre for Biotechnology
Information (NCBI) and querying the PUBMED literature database.
Getting the primary sequences of protein or DNA from protein database and
Pairwise and multiple protein sequence analysis using the Clustal Omega.
Introduction of RCSB and querying, and analyzing the primary, secondary tertiary
prediction using homology modeling
Molecular docking of protein and ligand using AutoDock4.2 software.
Term Work:
Term Work assessment shall be conducted for the Project, Tutorials and Seminar. Term work is
continuous assessment based on Attendance, G
Completion, Journal/Record book and Oral. It
institute. At the end of the semester, the final grade for a Term Work shall be assigned based on
the performance of the student and is to be submitted to the University.
Notes
1 The regular attendance of the
and marks will be given accordingly (10
2 Good Laboratory Practices (
3 Timely Completion (10 Marks)
4 Journal / Record Book (10 Marks)
5 Oral / Viva (10 Marks)
Practical/Oral/Presentation:
Practical/Oral/Presentation shall be conducted and assessed jointly by at least a pair of examiners
appointed as internal and external
mark/grade sheet in the format as specified by the University
envelope shall be submitted to the head of the department or authorized person.
Notes
1 One experiment from the regular practical syllabus will be conducted (40 Marks).
2 Oral/Viva-voce (10 Marks).
Term Work assessment shall be conducted for the Project, Tutorials and Seminar. Term work is
based on Attendance, Good Laboratory Practice
Completion, Journal/Record book and Oral. It should be assessed by subject teache
institute. At the end of the semester, the final grade for a Term Work shall be assigned based on
the performance of the student and is to be submitted to the University.
the students during semester for practical course will be monitored
rks will be given accordingly (10 Marks).
Good Laboratory Practices (10 Marks)
Timely Completion (10 Marks)
Journal / Record Book (10 Marks)
Practical/Oral/Presentation shall be conducted and assessed jointly by at least a pair of examiners
internal and external examiners by the University. The examiners will prepare the
mark/grade sheet in the format as specified by the University, authenticate and seal it. Sealed
envelope shall be submitted to the head of the department or authorized person.
One experiment from the regular practical syllabus will be conducted (40 Marks).
Term Work assessment shall be conducted for the Project, Tutorials and Seminar. Term work is
(GLP), Timely
should be assessed by subject teacher of the
institute. At the end of the semester, the final grade for a Term Work shall be assigned based on
practical course will be monitored
Practical/Oral/Presentation shall be conducted and assessed jointly by at least a pair of examiners
The examiners will prepare the
, authenticate and seal it. Sealed
One experiment from the regular practical syllabus will be conducted (40 Marks).