MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-Out

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out

A. Introduction: This course is offered by Dept. of Biosciences as a core course in B.Sc. (Hons.) Biotechnology Programme targeting students who wish to pursue their career in the research field of Biotechnology or higher studies in applied field of Biology. The course offers basic understanding of different terms and applications of Biotechnology processes. Students are expected to have background knowledge of Biology

B. Course Outcomes: At the end of the course, students will be able to [BT 1106.1]. List the tools and techniques employed in Biotechnology [BT 1106.2]. Understand the potential benefits and applications of Biotechnology [BT 1106.3]. Understand about various branches of Biotechnology and their applications [BT 1106.4]. Describe the steps used in RDT, DNA fingerprinting etc. [BT 1106.5]. Apply the concepts and techniques related to antibody production [BT 1106.6]. Relate the concepts of gene and genomes and Proteins and proteome. [BT 1106.7]. Select safety guidelines and risk assessment in biotechnology [BT 1106.8]. Construct the future applications of Biotechnology

C. PROGRAM OUTCOMES AND PROGRAM SPECIFIC OUTCOMES [PO.1]. Critical Thinking: Take informed actions after identifying the assumptions that frame our thinking and actions, checking out the degree to which these assumptions are accurate and valid, and looking at our ideas and decisions (intellectual, organizational and personal) from different perspectives. [PO.2]. Effective Communication: Speak, read, write and listen clearly in person and through electronic media in English and in one Indian language, and make meaning of the world by connecting people, ideas, books, media and technology. [PO.3]. Social Interaction: Elicit views of others, mediate disagreements and help reach conclusions in group settings. [PO.4]. Effective Citizenship: Demonstrate empathetic social concern and equity centred national development, and the ability to act with an informed awareness of issues and participate in civic life through volunteering. [PO.5]. Ethics: Recognize different value systems including your own, understand the moral dimensions of your decisions, and accept responsibility for them. [PO.6]. Environment and Sustainability: Understand the issues of environmental contexts and sustainable development. [PO.7]. Self-directed and Life-long Learning: Acquire the ability to engage in independent and life-long learning in the broadest context socio-technological changes.

[PSO.1.] To demonstrate competency in factual content and interpretation of the major biological concept areas of cell and molecular biology, genetics, organismal biology, and evolution and ecology. [PSO.2.] To demonstrate the ability to identify significant biological research questions, develop research protocols, and properly analyze research questions through the use of the scientific method. [PSO.3.] Enhance analytical and quantitative skills and demonstrate an understanding of basic computational and statistical techniques in the field of Biotechnology

D. Assessment Plan:

Criteria Description Maximum Marks Mid Term Exam 1 – IA 1 20 Internal Assessment Mid Term Exam 2 - IA 2 20 (IA) CWS Assessment IA 3 10 10 marks of IA 3 are awarded based on the various assignments, class tests, seminar presentation etc. End Term Exam (EX) End Term Exam – EX 1 50

Total 100 Note: A minimum of 75% Attendance is required to be maintained by a student to be qualified for taking up the End Semester examination. The allowance of 25% includes all types of leaves including medical leaves.

E. SYLLABUS Introduction and history of biotechnology. Basic concepts of biotechnology. Definition and descriptions of some important terminology in biotechnology. Study of various branches of Biotechnology including plant, animal, medical, industrial, environmental, marine biotechnology, bioinformatics. Introduction of genetic engineering; plant and animal tissue culture; fermentation technology; immobilized enzymes; monoclonal antibodies and hybridoma Technology; embryo transfer technology; introduction to gene and genomes, Proteins and proteome, recombinant DNA technology, DNA fingerprinting and forensic analysis. Current status of biotechnology and future of biotechnology in developing world. Role of biotechnology in Indian industry. Impact on agricultural sector. New trends in biotechnology. Practice of biotechnology in medicine, industry, agriculture, livestock improvement and environment. Brief account of safety guidelines and risk assessment in biotechnology. Future perspectives.

F. .TEXT BOOKS 1. Bhatia, S.C. Text Book of Biotechnology. Atlantic Publisher and Distributor, New Delhi. 2. Chakravarty. A.K. Introduction to Biotechnology. OUP India. 2013.

G. REFERENCE BOOKS 1 Old, R.W. and Primrose, S.B. Principles of gene manipulation: an introduction to genetic engineering, Blackwell Science Publications, New Delhi, 2003. 2. William, J., Thieman M.and Palladino, A. Introduction to Biotechnology. Benjamin Cummings. 2013. H. Lecture Plan: LEC TOPICS NO 1. Introduction and history of biotechnology 2. Introduction and history of biotechnology 3. Tutorial 4. Basic concepts of biotechnology 5. Definition and descriptions of some important terminology in biotechnology 6. Tutorial 7. Study of various branches of Biotechnology : plant, animal 8. Study of various branches of Biotechnology : Medical, industrial 9. Tutorial 10. Study of various branches of Biotechnology : environmental, marine biotechnology 11. Study of various branches of Biotechnology : bioinformatics 12. Tutorial 13. Introduction of genetic engineering 14. plant and animal tissue culture; 15. Tutorial 16. fermentation technology 17. immobilized enzymes 18. Tutorial 19. monoclonal antibodies and hybridoma Technology 20. monoclonal antibodies and hybridoma Technology 21. Application of Hybridoma 22. Tutorial 23. embryo transfer technology 24. introduction to gene and genomes 25. Tutorial 26. Proteins and proteome 27. recombinant DNA technology, 28. recombinant DNA technology Applications 29. Tutorial 30. DNA fingerprinting and forensic analysis. 31. DNA fingerprinting and forensic analysis. 32. Tutorial 33. Current status of biotechnology and future of biotechnology in developing world. 34. Role of biotechnology in Indian industry 35. Tutorial 36. Impact on agricultural sector 37. New trends in biotechnology 38. Tutorial 39. Practice of biotechnology in medicine, industry. 40. Practice of biotechnology in agriculture, livestock improvement and environment. 41. Tutorial 42. Brief account of safety guidelines and risk assessment in biotechnology. 43. Brief account of safety guidelines and risk assessment in biotechnology. 44. Tutorial 45. Applications of Biotechnology 46. Future perspectives. 47. Future perspectives. 48. Tutorial

I. Course Articulation Matrix: (Mapping of COs with POs) List the tools and techniques employed in Biotechnology CORRELATION WITH PROGRAM OUTCOMES CORRELATION WITH CO PROGRAM SPECIFIC OUTCOMES PO PO PO PO PO PO 6 PO 7 PSO 1 PSO 2 PSO 3 1 2 3 4 5 [BT 1106.1] List the tools and techniques employed in Biotechnology 1 2 [BT 1106.2] Understand the potential benefits and applications of Biotechnology 1 [BT 1106.3] Understand about various branches of Biotechnology and their applications 1 [BT 1106.4] Describe the steps used in RDT, DNA fingerprinting etc. 1 2 [BT 1106.5] Apply the concepts and techniques related to antibody production 1 1 [BT 1106.6] Relate the concepts of gene and genomes and Proteins and proteome. 1 [BT 1106.7] Select safety guidelines and risk assessment in biotechnology [BT 1106.8] Construct the future applications of Biotechnology 1 1 1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out Cell Biology: Structure and Dynamics | BT 1107 | 4 Credits | 3 1 0 4

Session: Aug 17 – Nov 17 | Faculty: Dr. Dakal TC | Class: Core Course

A. Introduction: This course is offered by Dept. of Biosciences as a core course in B.Sc. (Hons) Biotechnology targeting students who wish to pursue their career in the research field of cell, micro and molecular biology. Cell biology is an important course and is an integral part of any biological and life sciences program at undergraduate level in any university. The cell biology course work provides a basic and comprehensive grounding in the multidisciplinary science of eukaryotic cell biology. The aim of the course is to demonstrate to the students the intricate relationship between various cellular structures and their corresponding functions. This course has been designed for undergraduate level studies and has been deliberately kept at a basic level which provides an opportunity for the learner to familiarise themselves with the fundamentals of cell biology and its application such as understanding the structures and purposes of basic components of prokaryotic and eukaryotic cells, especially macromolecules, membranes, and organelles. B. Course Outcomes: At the end of the course, students will be able to: [BT 1107.1]. Recall structure and function of prokaryotic and eukaryotic cells (both plant and animal cells). [BT 1107.2]. Understand an overview of cell cycle comprising G1, S, G2 and M phases; division of cells in both somatic and germ cells in both plant and animal cells. [BT 1107.3]. Understand ultra- and fine-structure of difference cell organelles such as mitochondria, nucleus, golgi apparatus etc. [BT 1107.4]. Differentiate and relate the role of each and every cell organelle of the cell and their role in enabling cell performing necessary cellular responsibilities such as cell division, metabolism etc. [BT 1107.5]. Appraise different cell signalling pathways and how the pathways transmit signals from environmental response to gene expression to maintain cellular homeostasis. [BT 1107.6]. Investigate the mechanisms by which different cellular insults make cells become diseased which finally led to illness or death. [BT 1107.7]. Investigate recent advancements cell biology research and technologies that has enabled us understanding the structure and function of the cell with deep understanding.

PROGRAM OUTCOMES AND PROGRAM SPECIFIC OUTCOMES [PO.1]. Critical Thinking: Take informed actions after identifying the assumptions that frame our thinking and actions, checking out the degree to which these assumptions are accurate and valid, and looking at our ideas and decisions (intellectual, organizational and personal) from different perspectives. [PO.2]. Effective Communication: Speak, read, write and listen clearly in person and through electronic media in English and in one Indian language, and make meaning of the world by connecting people, ideas, books, media and technology. [PO.3]. Social Interaction: Elicit views of others, mediate disagreements and help reach conclusions in group settings. [PO.4]. Effective Citizenship: Demonstrate empathetic social concern and equity centred national development, and the ability to act with an informed awareness of issues and participate in civic life through volunteering. [PO.5]. Ethics: Recognize different value systems including your own, understand the moral dimensions of your decisions, and accept responsibility for them. [PO.6]. Environment and Sustainability: Understand the issues of environmental contexts and sustainable development. [PO.7]. Self-directed and Life-long Learning: Acquire the ability to engage in independent and life-long learning in the broadest context socio-technological changes.

C. Assessment Plan:

D. SYLLABUS History and introduction of cell, cell theory, eukaryotic and prokaryotic cells, different models of cell membrane and structure of cell wall, active & passive transport. Cell organelles: Endoplasmic reticulum, Golgi complex, Mitochondria, Chloroplasts, Ribosome, Liposome, Peroxisomes, Nucleus, lysosomes, Vacuole, Cytosol and Cytoskeleton (Microtubules, Microfilaments and Intermediate filaments). Discovery, morphology and structural organization of chromosome- chemical composition and karyotype, special types of chromosome: salivary gland and lamp brush chromosomes. Cell Division: mitosis & meiosis, cell cycle. Cell signalling: Hormones and their receptors, cell surface receptor, signalling through G-protein coupled receptors, signal transduction pathways. Cellular communication: cell adhesion and roles of different adhesion molecules, gap junctions, extracellular matrix, integrins. Cell Senescence and Programmed Cell Death (PCD). E. TEXT BOOKS 1. Rastogi. S.C. Cell Biology, Tata Mc Graw Hill Pub. Co. New Delhi, 2010. 2. Gupta. P. K. A Text Book of Cell and Molecular Biology, Rastogi Publications, Merrut, 2012. F. REFERENCE BOOKS 1 Alberts B., Bray D., Lewis J., Raff M. and Watson J.D.. Molecular Biology of the Cell, Garland Publishing Inc. New York, 2008. 2. Robertis D., Cell and Molecular Biology, Waverly International, New York, 2011. 3. Lodish H., Berk A. , Zipursky S.L. , Matsudiara P., Baltimore D., and Darnell J., Molecular Cell Biology, WH Freeman & Co., New York, 2013. G. Lecture Plan:

LEC TOPICS NO 1. History and introduction of cell 2. Cell theory 3. Eukaryotic and prokaryotic cells 4. Tutorial 5. Different models of cell membrane 6. Structure of cell wall 7. Active & passive transport 8. Tutorial 9. Cell organelles: Nucleus 10. Cell organelles: Mitochondria, Ribosomes 11. Cell organelles: Endoplasmic reticulum, Golgi apparatus 12. Tutorial 13. Cell organelles: Vacuoles 14. Cell organelles: Liposomes 15. Cell organelles: Lysosomes 16 Tutorial 17 Cell organelles: Perioxisomes 18 Cell organelles: Centrosomes 19 Cytoskeleton, microtubules, microfilaments & intermediate filaments 20 Tutorial 21 Discovery of chromosome 22 Morphology and structural organization of chromosome 23 Chemical composition and karyotype 24 Tutorial 25 Special types of chromosome: introduction 26 Special types of chromosome: salivary gland chromosomes, lampbrush chromosomes 27 Cell Division: Mitosis 28 Tutorial 29 Cell Division: Meiosis 30 Cell Cycle 31 Cell signalling: introduction 32 Tutorial 33 Cell signalling: hormones and their receptors, cell surface receptors 34 Cell signalling: signalling through G-protein coupled receptors 35 Cell signalling: signal transduction pathways. 36 Tutorial 37 Cell signalling: signal transduction pathways. 38 Cellular communication: introduction 39 Cellular communication: cell adhesion roles of different adhesion molecules 40 Tutorial 41 Cellular communication: gap junctions 42 Cellular communication: extracellular matrix 43 Cellular communication: integrins 44 Tutorial 45 Cell Senescence 46 Necrosis 47 Apoptosis: programmed Cell Death (PCD) 48 Tutorial

H. Course Articulation Matrix: (Mapping of COs with POs) CORRELATION WITH PROGRAM OUTCOMES CORRELATION WITH PROGRAM SPECIFIC CO STATEMENT OUTCOMES PO PO PO PO PO PO PO 7 PSO 1 PSO 2 PSO 3 1 2 3 4 5 6 [BT 1107.1]. Recall structure and function of a prokaryotic and eukaryotic cells (both 1 plant and animal cells). [BT 1107.2]. Understand an overview of cell cycle comprising G1, S, G2 and M phases; 1 1 1 division of cells in both somatic and germ cells in both plant and animal cells. [BT 1107.3]. Understand ultra- and fine-structure of difference cell organelles such as 1 2 mitochondria, nucleus, golgi apparatus etc.

[BT 1107.4]. Differentiate and relate the role of each and every cell organelle of the cell 1 1 1 1 and their role in enabling cell performing necessary cellular responsibilities such as cell division, metabolism etc.

[BT 1107.5]. Appraise different cell signalling pathways and how the pathways transmit 1 2 3 signals from environmental response to gene expression to maintain cellular homeostasis. [BT 1107.6]. Investigate the mechanisms by which different cellular insults make cells 2 2 become diseased which finally led to illness or death.

[BT 1107.7]. Investigate recent advancements in cell biology research and technologies 1 1 3 that has enabled us understanding the structure and function of the cell with deep understanding.

1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out

A. Introduction: This course is offered by Dept. of Biosciences as a core course in B.Sc. (pass) Biotechnology, Botany/Bioscience, Chemistry/Psychology and, as a subsidiary course in B.Sc. (Hons) Biotechnology Programme targeting students who wish to pursue their career in the research field of Plant Sciences and Microbiology or higher studies in the field of Virology, Bacteriology, Phycology, Bryology and Pteridology. The course offers in depth knowledge of the distribution, classification, general characteristics and economic importance of various groups living world such as Viruses, Bacteria, Mycolpasma, Algae, Bryphyta and Pteridophyta and the salient features of the life cycles of model organisms of every group. Students are expected to have background knowledge of the different types of classification systems for living world. B. Course Outcomes: At the end of the course, students will be able to: [BY 1101.1]. Identify DNA & RNA viruses and diseases caused by them in plants and animals (H1N1, HIV, Polio, TMV etc.) and their epidemiology [BY 1101.2]. List Gram Negative & Gram positive bacteria, Algae , Bryophytes and Pteridophytes growing in different habitats based on their morphology and anatomy [BY 1101.3]. Classify mycoplasma and diseases caused by them and their economic importance [BY 1101.4]. Use these microorganisms in industry and agriculture. [BY 1101.5]. Distinguish Different organisms based on their contrasting characteristics [BY 1101.6]. Evaluate the work done by scientist in Phycology, Bryology, Pteridology, Virology, Bacteriology and Mycology Research in India and contributions of different scientists in their morphology and industrial uses [BY 1101.7]. Design the protocol for investigating commercial uses of these organisms C. PROGRAM OUTCOMES AND PROGRAM SPECIFIC OUTCOMES [PO.1]. Critical Thinking: Take informed actions after identifying the assumptions that frame our thinking and actions, checking out the degree to which these assumptions are accurate and valid, and looking at our ideas and decisions (intellectual, organizational and personal) from different perspectives. [PO.2]. Effective Communication: Speak, read, write and listen clearly in person and through electronic media in English and in one Indian language, and make meaning of the world by connecting people, ideas, books, media and technology. [PO.3]. Social Interaction: Elicit views of others, mediate disagreements and help reach conclusions in group settings. [PO.4]. Effective Citizenship: Demonstrate empathetic social concern and equity centred national development, and the ability to act with an informed awareness of issues and participate in civic life through volunteering. [PO.5]. Ethics: Recognize different value systems including your own, understand the moral dimensions of your decisions, and accept responsibility for them. [PO.6]. Environment and Sustainability: Understand the issues of environmental contexts and sustainable development. [PO.7]. Self-directed and Life-long Learning: Acquire the ability to engage in independent and life-long learning in the broadest context socio-technological changes.

D. Assessment Plan:

E. SYLLABUS Viruses: History, general characteristics, classification, structure, types, life cycle and importance, Bacteriophages and their importance, Mycoplasma: General characteristics, morphology, reproduction and importance, Bacteria: History, general characters, classification, structure and economic importance. Algae: Occurrence, general characteristics, classification (F,E, Fritsch, 1935), thallus structure, pigments, reproduction and importance, Study of life cycle of the following genera: Volvox, Chara, Vaucheria, Polysiphonia. Bryophytes: Occurrence, distribution, general characteristics, alternation of generation, classification (Rothmaler, 1951) and economic importance. Study of life cycle of the Marchantia. Pteridophytes: Occurrence, general characteristics, classification (Reimer, 1954), stele system, seed habit and heterospory, apospory and apogamy, Study of life cycle of the Marsilea. Comparative study of the algae, bryophytes and pteridophytes in general. F. TEXT BOOKS 1. Verma, H. N. Basics of Plant Virology, Oxford & IBH Publishing House, New Delhi, 2003. 2. Singh, V., Pandey, P.C. and Jain, D.K. Diversity of Microbes and Cryptogams, 5th Revised Edition, Rastogi Publication, Meerut, India. 2012. 3. Parihar, N. S. Biology and Morphology of Pteridophytes, Central Book Depot., Allahabad, 2002.

G. REFERENCE BOOKS 2 Pelczar, M. J. Introduction to Microbiology, Tata McGraw Hill Publishing Co., New Delhi, 2012. 2 Smith, G. M. Cryptogamic Botany: Bryophytes and Pteridophytes, Tata McGraw Hill Publishing Co., New Delhi, 1971. H. Lecture Plan: LEC TOPICS NO 1. Introduction to Plant Kingdom and differences between Cryptogames and Phenerogames 2. Virus: a connecting link between Non Living and Living, General characteristics 3. Tutorial 4. Virus structure and classification, plant and animal viruses 5. Diseases caused by viruses in plants and animals (H1N1, HIV, Polio, TMV etc.) and their epidemiology 6. Tutorial 7. General characteristics and identification of mycoplasma, diseases caused by mycoplasma and their economic importance 8. Bacteria: Structures and reproduction, Bacteria as an important microorganism in living world 9. Tutorial 10. Importance of bacteria in industry and agriculture, common bacterial diseases in animals and plants and their treatment 11. Study of different groups of Algae, general characteristics, Algae as ancestors of higher plants 12. Tutorial 13. Photosynthetic pigments and stored food and economic importance of algae 14. Study of Life Cycle of Volvox 15. Tutorial 16. Study of Life Cycle of Polysiphonia 17. Study of Life Cycle of Vaucheria 18. Tutorial 19. Study of Life Cycle of Chara 20. Research in India in the field of Bryology and contribution of Prof. S.R. Kashyap 21. Tutorial 22. Bryophyta: General characteristics and modes of reproduction 23. Life Cycle of Marchantia: Vegetative Phase 24. Tutorial 25. Life Cycle of Marchantia: Sexual Phase and Fertilization 26. Economic importance of Bryophyta (Mosses) 27. Tutorial 28. Pteridophyta: First successful land plants with seed habit, general characteristicsand classification 29. Development of seed habit and heterospory in Pteridophyta 30. Tutorial 31. Economic importance of pteridophytes and modes of asexual reproduction: Apogamy and Apospory 32. Life cycle of Marsilea: Vegetative phase 33. Tutorial 34. Marsilea: Sexual phase and fertilization 35. Comparative studies between Algae, Bryophyta and Pteridophyta 36. Tutorial

3 Course Articulation Matrix: (Mapping of COs with POs) CORRELATION WITH PROGRAM CORRELATION OUTCOMES WITH CO STATEMENT PROGRAM SPECIFIC OUTCOMES PO PO PO PO PO PO PO PS PS PSO 1 2 3 4 5 6 7 O O 3 1 2 [BY 1101.1]. Identify DNA & RNA viruses and diseases caused by them in plants and animals 1 (H1N1, HIV, Polio, TMV etc.) and their epidemiology [BY 1101.2]. List Gram Negative & Gram positive bacteria, Algae , Bryophytes and 1 Pteridophytes growing in different habitats based on their morphology and anatomy [BY 1101.3]. Classify mycoplasma and diseases caused by them and their economic importance [BY 1101.4]. Use these microorganisms in industry and agriculture 1 [BY 1101.5]. Distinguish Different organisms based on their contrasting characteristics 1 [BY 1101.6]. Evaluate the work done by scientist in Phycology, Bryology, Pteridology, 1 1 Virology, Bacteriology and Mycology Research in India and contributions of different scientists in their morphology and industrial uses [BY 1101.7]. Design the protocol for investigating commercial uses of these organisms 1 2 1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out Advanced Microbiology| BT 1206 | 4 Credits | 3 1 0 4

Session: Jan 17 – May 17 | Faculty: Dr. Jain Rohit| Class: Core course

A. Introduction: This course is offered by Dept. of Biosciences as a core course in B.Sc. Biotechnology (Hons.) Programme targeting students who wish to pursue their career in the field of industrial microbiology, medical microbiology, microbial taxonomy, etc. This course encompasses wide range of topics such as structure and metabolism of microbes, biotechnological strategies for isolation, identification and classification of novel microorganisms, importance of microbes to human and environment, epidemiology of microbial disease, methods to control microbial proliferation, etc. The diverse contents of the course allow the students to explore, understand and manifest the multiple utilities of microorganisms. This course thus provides a launch pad into a career that involves working knowledge of scientific research and academics, health clinics and industries. B. Course Outcomes: At the end of the course, students will be able to understand the:

[BT 1206.1]. Discuss the general characteristics, classification, structure and function, difference between bacteria and archaea of Archaea and Bacteria [BT 1206.2]. Discuss the epidemiology of various microbial diseases prevailing in plants and animals in contest with Rajasthan, Health schemes implemented by state and central govt. for microbial disease prevention and cure. [BT 1206.3]. Explain that viruses are connecting link between Non Living and Living, General characteristics and structure of Viruses, types of viruses, differences between Plant and Animal viruses [BT 1206.4]. Identify role and applications of microorganisms in industry, health-care, environmental protection, food, beverage, agriculture and research [BT 1206.5]. Execute the strategies for isolation, identification and characterisation of microorganisms for food and water quality assessment, microbial product formulations and many more [BT 1206.6]. Classify different culture systems for microbial growth and their modification for development of microbial products at industrial scale [BT 1206.7]. Develop methods for controlling the microbial growth and their application in clinics, labs, industry, etc C. PROGRAM OUTCOMES AND PROGRAM SPECIFIC OUTCOMES [PO.1]. Critical Thinking: Take informed actions after identifying the assumptions that frame our thinking and actions, checking out the degree to which these assumptions are accurate and valid, and looking at our ideas and decisions (intellectual, organizational and personal) from different perspectives. [PO.2]. Effective Communication: Speak, read, write and listen clearly in person and through electronic media in English and in one Indian language, and make meaning of the world by connecting people, ideas, books, media and technology. [PO.3]. Social Interaction: Elicit views of others, mediate disagreements and help reach conclusions in group settings. [PO.4]. Effective Citizenship: Demonstrate empathetic social concern and equity centred national development, and the ability to act with an informed awareness of issues and participate in civic life through volunteering. [PO.5]. Ethics: Recognize different value systems including your own, understand the moral dimensions of your decisions, and accept responsibility for them. [PO.6]. Environment and Sustainability: Understand the issues of environmental contexts and sustainable development. [PO.7]. Self-directed and Life-long Learning: Acquire the ability to engage in independent and life-long learning in the broadest context socio-technological changes.

D. Assessment Plan:

E. SYLLABUS History and scope of microbiology. Microbial evolution, primitive organisms and their metabolic stratagies and molecular coding. Classification of Microbes: Systems of classification, Numerical taxonomy, identifying characters for classification, New approaches to bacterial taxonomy, ribotyping, ribosomal RNA sequencing. Systematics of bacteria, Nutritional types. Classification on the basis of oxygen requirement. Concept of Sterilization: Definition of sterilization, dry and moist heat, pasteurization, tyndalization; radiation, ultrasonication, filtration. Physical and Chemical methods of sterilization; disinfection sanitization, antisepsis sterilants and fumigation. Stains and staining techniques: Mechanism of gram staining, acid fast staining, negative staining, capsule staining, flagella staining, endospore staining. Factors affecting growth: nutrients, temperature, oxygen, pH, osmotic pressure. Synchronous culture, continuous culture and batch culture. Role of microbiology in the field of food, agriculture, industry and environment. Basic concepts of Virology – Origin and status of viruses, General characteristics of viruses, differences between bacteria and viruses. Classification of viruses, Physical and chemical structures of different Viruses, plant and animal viruses: ultrastructure of Tobacco Mosiac Virus (TMV), Cauliflower Mosaic Virus, HIV and Influenza Virus F. TEXT BOOKS 1. Dubey, R.C. and Maheswari, D.K. A Text Book of Microbiology, S. Chand & Company Ltd., New Delhi, 2005. 2. Pelczar, T.M.J., Chan, E.C.S., and Kreig, N.R. Microbiology, Tata Mc Graw-Hill Publications, 5th Edition, New Delhi, 2006. G. REFERENCE BOOKS 1. Prescott, L..M., Harley, J.P. and Klein, D.A. Microbiology. McGraw-Hill Science, USA, 2004. 2. Robert, F. General Microbiology, Times Mirror / Monsby College Publishers, California, 2000.

H. Lecture Plan:

LEC NO TOPICS 1. Introduction to microbiology, History of microbiology

2. Microbial evolution: theories of origin & evolution of life 3. Process of evolution of prokaryotes and eukaryotes from first life 4. Tutorial 5. Classification systems: basic terminology used, types and basis of classification 6. Concept of numerical taxonomy and its use in microbial classification 7. Strategies for bacterial taxonomy: classical methods vs modern approaches 8. Tutorial 9. Strategies for evaluating Phenotypic, metabolic and genetic characteristics for microbial classification 10. Molecular techniques for microbial phylogeny: GC ratio, nucleic acid hybridisation, nucleic acid sequencing 11. Molecular techniques for microbial phylogeny: genome fingerprinting, riboswitches 12. Tutorial 13. Prokaryotic cell: structure, components and its functions 14. Gram positive and Gram bacteria: structural differences and method for identification 15. Staining techniques: basic terminology, principle, types and applications 16. Tutorial 17. Microbial Nutrition: basic nutrient requirements (macro and micronutrients) and their role in microbial growth and multiplication 18. Nutritional types of micro-organisms based on their requirements for Carbon, Hydrogen, Oxygen and Electrons with examples 19. Growth factors, Mechanism of uptake of nutrients by cell 20. Tutorial 21. Culture media: basic components; chemical, physical and functional types 22. Methods of Microbial Isolation: streak plate, spread plate, pour plate, serial dilution 23. Types of microbial culture: continuous and batch, solid and broth 24. Tutorial 25. Prokaryotic cell cycle: methods of growth and multiplication 26. Stages of Microbial Growth Curve in batch culture: lag, log, stationary, senescence (death) 27. Mathematics of Growth: calculation of generation time, mean growth rate, etc. 28. Tutorial 29. Methods of Measurement of Microbial Growth by measurement of cell number and cell mass 30. Microbial growth in Continuous culture systems: turbidostat and chemostat 31. Factors affecting Microbial Growth: physical and environmental factors 32. Tutorial 33. Classification of Microbes based on their response to environmental factors 34. Control of Micro-organisms: principle, definitions to common terms such as disinfection, sterilisation, antisepsis, bactericidal, fungicidal, bacteriostatic 35. Pattern of microbial death, Antimicrobial agents (characteristics, examples, factors affecting its effectiveness) 36. Tutorial 37. Strategies for evaluation of activity of antimicrobial agents 38. Strategies of microbial control: physical, chemical and mechanical methods, their merits and demerits 39. Physical methods of microbial control: dry heat sterilisation, steam sterilisation, applications 40. Tutorial 41. Chemical methods for microbial control: chemicals used for sterilisation, disinfection and antisepsis, applications 42. Mechanical methods for microbial control: filtration techniques, applications 43. Virus: origin, general characteristics, 44. Tutorial 45. Classification of viruses based on their structure, host organism and genetic material 46. Role of microbiology in Medicine, Agriculture, Food and Industry 47. Epidemiology of bacterial and viral diseases prevailing in state and country 48. Tutorial

I. Course Articulation Matrix: (Mapping of COs with POs) CORRELATION WITH PROGRAM OUTCOMES CORRELATION WITH PROGRAM SPECIFIC CO STATEMENT OUTCOMES PO PO PO PO PO PO PO 7 PSO 1 PSO 2 PSO 3 1 2 3 4 5 6 [BT 1206.1]. Discuss the general characteristics, classification, structure and function, 1 1 difference between bacteria and archaea of Archaea and Bacteria [BT 1206.2]. Discuss the epidemiology of various microbial diseases prevailing in plants 1 1 and animals in contest with Rajasthan, Health schemes implemented by state and central govt. for microbial disease prevention and cure. [BT 1206.3]. Explain that viruses are connecting link between Non Living and Living, 1 1 General characteristics and structure of Viruses, types of viruses, differences between Plant and Animal viruses [BT 1206.4]. Identify role and applications of microorganisms in industry, health-care, 1 1 2 environmental protection, food, beverage, agriculture and research [BT 1206.5]. Execute the strategies for isolation, identification and characterisation of 1 1 microorganisms for food and water quality assessment, microbial product formulations and many more [BT 1206.6]. Classify different culture systems for microbial growth and their 1 modification for development of microbial products at industrial scale [BT 1206.7]. Develop methods for controlling the microbial growth and their application 1 1 1 2 in clinics, labs, industry, etc

1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out Elements of Biochemistry| BT1207 | 3 Credits | 2 1 0 3

Session: Jan 17 – May 17 | Faculty: Dr. Srivastava Sandeep | Class: Core

A. Introduction: This course is offered by Dept. of Biosciences as a core course in B.Sc. (Hons) Biotechnology Programme targeting students who wish to pursue their career in the research field of Biochemistry or higher studies in the field of enzymology, biochemical mechanisms, metabolism. The course offers in depth knowledge of the biochemistry and metabolism and the salient features of the metabolism in model organisms. Students are expected to have background knowledge of the biomolecules and chemical properties. B. Course Outcomes: At the end of the course, students will be able to:

[BT 1207.1]. Remember the five classes of polymeric biomolecules and their monomeric building blocks. [BT 1207.2]. Understand an understanding of fundamental biochemical principles, such as the structure/function of biomolecules [BT 1207.3]. Apply the specificity of enzymes (biochemical catalysts), and the chemistry involved in enzyme action. [BT 1207.4]. Analyse the structure of DNA, and explain how it carries genetic information in its base sequence. [BT 1207.5]. Evaluate the DNA, RNA replication and protein synthesis. [BT 1207.6]. Develop an idea about the various biomolecular processes and their importance

D. Assessment Plan:

E. SYLLABUS

Introduction to Biochemistry: Structure and properties of important biomolecules: Carbohydrates: Classification of carbohydrates, chemical structure and properties of monosaccharide, disaccharides, oligosaccharides and polysaccharides- Starch, cellulose and glycogen. Lipids: Saturated and unsaturated fatty acids. Protein: Structure and classification of amino acids. Primary, secondary and tertiary structure of protein. Ramachandran Plot. Vitamins: Structure and functions. Principles of thermodynamics: First and Second law of thermodynamics, concept of free energy. Enzymes: classification, nomenclature, mechanism of action (binding to substrate, lowering of activation energy), holoenzyme, co-enzyme and cofactors, isozymes and ribozymes. Enzyme kinetics: Michalis-Menten equation, Km value, enzyme inhibition, factors controlling enzyme activity, role of enzymes as catalysts, Purine and Pyrimidine: structure and properties, nucleotide biosynthesis, Conformation of nucleic acids [helix (A, B, Z), t-RNA, micro-RNA]. .

F. TEXT BOOKS 1. Srivastav, H.S. Elements of Biochemistry, Rastogi Publication, Meerut, 2005. 2. Jain,J.L.. Fundamentals of Biochemistry. S. Chand & Co. Pvt. Ltd. New Delhi, 2008. G. REFERENCE BOOKS 1. Voet, D. and Voet, J.G. Biochemistry, John Wiley & Sons Inc., New Delhi, India, 1995. 2. Lehninger, A., Nelson, D.L. and Cox, M.M. Principles of Biochemistry, Freeman Publishers, New York, 2000. H. Lecture Plan:

LEC TOPICS NO 1. Introduction to Biochemistry: Structure and properties of important biomolecules 2. Introduction to Biochemistry: Structure and properties of important biomolecules 3. Tutorial 4. Carbohydrates: Classification of carbohydrates, chemical structure and properties of monosaccharide 5. Carbohydrates: Classification of carbohydrates, chemical structure and properties of disaccharides, oligosaccharides 6. Tutorial 7. Carbohydrates: Classification of carbohydrates, chemical structure and properties of polysaccharides- Starch, cellulose and glycogen. 8. Lipids: Saturated and unsaturated fatty acids.

9. Tutorial 10. Protein: Structure and classification of amino acids.

11. Primary, secondary and tertiary structure of protein.

12. Tutorial 13. Primary, secondary and tertiary structure of protein. 14. Ramachandran Plot. 15. Tutorial 16. Vitamins: Structure and functions.

17. Principles of thermodynamics: First and Second law of thermodynamics, concept of free energy. 18. Tutorial 19. Enzymes: classification, nomenclature, mechanism of action (binding to substrate, lowering of activation energy), holoenzyme, co-enzyme and cofactors, isozymes and ribozymes. 20. Enzyme kinetics: Michalis-Menten equation, Km value, enzyme inhibition, factors controlling enzyme activity, role of enzymes as catalysts, Purine and Pyrimidine: structure and properties, nucleotide biosynthesis, Conformation of nucleic acids [helix (A, B, Z), t- RNA, micro-RNA]. 21. Tutorial 22. Enzyme kinetics: Michalis-Menten equation, Km value, 23. Enzyme inhibition, 24. Tutorial 25. Factors controlling enzyme activity 26. Role of enzymes as catalysts,

27. Tutorial

28. Purine : structure and properties 29. Pyrimidine: structure and properties,

30. Tutorial

31. Nucleotide biosynthesis 32. Conformation of nucleic acids [helix (A, B, Z)]. 33. Tutorial 34. Conformation of t-RNA. 35. Conformation of nucleic acids micro-RNA. 36. Tutorial

I. Course Articulation Matrix: (Mapping of COs with POs) CORRELATION WITH PROGRAM OUTCOMES CORRELATION WITH PROGRAM SPECIFIC CO STATEMENT OUTCOMES PO PO PO PO PO PO PO 7 PSO 1 PSO 2 PSO 3 1 2 3 4 5 6 [BT1207.1] Remember the five classes of polymeric biomolecules and their monomeric 1 3 2 building blocks. [BT1207.2] Understand an understanding of fundamental biochemical principles, such as 1 1 the structure/function of biomolecules [BT1207.3] Apply the specificity of enzymes (biochemical catalysts), and the chemistry 2 1 2 involved in enzyme action. [BT1207.4] Analyse the structure of DNA, and explain how it carries genetic 3 2 information in its base sequence. [BT1207.5] Evaluate the DNA, RNA replication and protein synthesis. 1 [BT1207.6] Develop an idea about the various biomolecular processes and their 1 2 1 importance 1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out Mycology, plant Pathology and Lichenology| BY 1201 | 3 Credits | 2 1 0 3

Session: Jan 17 – May 17 | Faculty: Dr. Jain Rohit| Class: Core Course

[BY 1201.1]. Classify Kingdom Mycota on the basis of different morphological and reproductive features [BY 1201.2]. Identify the habit and habitat and economic importance of fungi [BY 1201.3]. Interpret the process of heterothallism in fungi and its utility in Mushroom cultivation [BY 1201.4]. Examine the symptoms and major causes of recurrence of diseases in crop plants and analyse the specific defence mechanisms executed by plant for disease resistance [BY 1201.5]. Evaluate the importance of phytopathology for sustainable development of disease free high yielding crops [BY 1201.6]. Investigate the effect of different strategies proposed earlier in the modern day phytopathology and design new methodologies for better yield with less use of pesticides.

D. Assessment Plan:

E. SYLLABUS

Fungi: Occurrence, general characteristics, structure, classification (Alexopoulous and Mims, 1979), reproduction, parasexual cycle, heterothallism, mushroom cultivation and importance, Study of life cycle of the following genera: Albugo, Aspergillus, Puccinia. Plant diseases and their control measures: history, classification, symptoms, defense mechanism, mechanism of infection, host parasite interaction, transmission and dissemination of diseases. Causal organisms of disease cycle of the following: green ear disease of Bajra, rust of Crucifers, rusts and smuts of Wheat, red rot of sugarcane. Disease Management: prophylaxis-quarantine measures, seed certification brief account of physical, chemical and biological control. Lichens: General characteristics, structure, types, reproduction and ecological importance, .

F. TEXT BOOKS 1. Dubey, H.C. An Introduction to Fungi, Vikas Publishing House Pvt., Ltd. Delhi, 2011. 2. Pathak, V.N. Khatri N.K. and Pathak, M. Fundamentals of Plant Pathology, Agrobios, Jodhpur, 2012. G. REFERENCE BOOKS 1 Rangaswamy, G., and Mahadevan A., Diseases of Crop Plants in India, Prentice Hall of India Pvt., New Delhi, 2012. 2. Alexopoulous, C.J. Mims, C.W., and Blackwel, M. Introductory Mycology, John Wiley & Sons Inc, New Delhi, 2012. 3. Singh, R.S. An Introduction to Principles of Plant Pathology, Oxford and IBH Publishing Co. Pvt. Ltd., New Delhi, 2011. H. Lecture Plan:

Lecture Topic 1. Fungi: Occurrence and distribution and General characteristics 2. Fungi: Structure and classification (Alexopolous & Mims) 3. Tutorial 4. Reproduction (Sexual & Asexual), Parasexual cycle in Fungi and its importance, Heterothalism Homothallism in fungi, 5. Mushroom cultivation and importance 6. Tutorial 7. Study of life cycle of Albugo candida: Asexual reproduction in host and disease symptoms 8. Albugo candida: Sexual reproduction 9. Tutorial 10. Study of life cycle of Aspergillus flavus : Asexual reproduction and disease symptoms 11. Aspergillus flavus : Sexual reproduction 12. Tutorial 13. Study of life cycle of Puccinia graminis: Aciospores, Pycniospores and Uredospores, Basidiospores and Teleutospores 14. Puccinia graminis: Sexual reproduction 15. Tutorial 16. Plant pathology: History, definition of disease and general terminology used in plant pathology 17. Plant disease: Pathogenesis and pathogenicity, Different stages of pathogenesis 18. Tutorial 19. Plant defense mechanism against pathogens, Systemic acquired resistance (SAR), 20. Plant disease: Host parasite interactions 21. Tutorial 22. Green ear disease of Bajra: Causal organism, disease symptoms and occurrence, Disease cycle and control measures 23. Green ear disease of Bajra: Disease cycle and control measures 24. Tutorial 25. White rust of Crucifers: Causal organism, occurrence, disease cycle, Dissemination and control measures 26. Rust of wheat: Causal organism, types of rust, disease cycle, 27. Tutorial 28. Black rust, yellow rust and brown rust in wheat and control measures 29. Loose smut of wheat: Causal organism, occurrence, disease cycle, control measures 30. Tutorial 31. Red rot of sugarcane: Causal organism, occurrence, disease cycle and disease control 32. Disease Management: prophylaxis-quarantine measures, Seed certification brief account of physical, chemical and biological control 33. Tutorial 34. Lichens: General characteristics, structure, types 35. Lichens: reproduction and ecological importance 36. Tutorial

I. Course Articulation Matrix: (Mapping of COs with POs) CORRELATION WITH PROGRAM OUTCOMES CORRELATION WITH PROGRAM SPECIFIC CO STATEMENT OUTCOMES PO PO PO PO PO PO PO 7 PSO 1 PSO 2 PSO 3 1 2 3 4 5 6 [BY 1201.1]. Classify Kingdom Mycota on the basis of different 1 morphological and reproductive features [BY 1201.2]. Identify the habit and habitat and economic importance of fungi [BY 1201.3]. Interpret the process of heterothallism in fungi and its 1 utility in Mushroom cultivation [BY 1201.4]. Examine the symptoms and major causes of recurrence 1 1 1 of diseases in crop plants and analyse the specific defence mechanisms executed by plant for disease resistance [BY 1201.5]. Evaluate the importance of phytopathology for 1 1 sustainable development of disease free high yielding crops [BY 1201.6]. Investigate the effect of different strategies proposed 1 2 earlier in the modern day phytopathology and design new methodologies for better yield with less use of pesticides. 1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out

E. SYLLABUS Gymnosperms: Occurrence, distribution, general characteristics, classification (Sporne, 1974; Kremer and Green, 1990), evolution of seed habit, origin and evolution of gymnosperms and economic importance, Life cycle of the following genera: Cycas, Pinus, Ephedra. Comparative study of gymnosperms, angiosperms and pteridophytes. Palaeobotany: Geological time scale. Fossilization: types of fossils, techniques for study of fossils. Applied aspects of fossils: use in coal and petroleum exploration. Study of primitive land plant: Rhynia; Fossil Pteridophyta: Lepidodendron; Fossil Gymnosperm: Williamsonia. F. TEXT BOOKS 1. Bhatnagar, S. P. and Moitra, A. Gymnosperms, New Age International Pvt. Ltd., New Delhi, 2010. 2. Purohit, S. and Vyas. A Text Book of Gymnosperms, Ramesh Book Depot, Jaipur, 1997.

G. REFERENCE BOOKS 1 Sporne, K. R. The Morphology of Gymnosperms, Hutchinson and Co. Ltd., London, 1994. 2. Stewart, W.N. and Rathwell, G.W. Palaeobotany and the Evolution of Plants, Cambridge University Press, Cambridge, 1993. 3. Chamberlain, C. J. Gymnosperms: Structure and Evolution, CBS Publishers and Distributors, New Delhi, 2010.

H. Lecture Plan:

Lecture Topic 1. Gymnosperms: Occurrence, distribution, general characteristics 2. Gymnosperms: Classification proposed by Sporne, Kremer & Green 3. Tutorial 4. Evolution of seed habit and its significance, Origin and evolution of gymnosperms and economic importance 5. Cycas: External morphology (Root, stem, leaf) 6. Tutorial 7. Cycas: Internal structure of coralloid root and normal root 8. Cycas: Internal structure of young and mature stems 9. Tutorial 10. Cycas: Internal structure of foliage leaf – Rachis and leaflet 11. Cycas: Shoot apex organization and vegetative reproduction 12. Tutorial 13. Sexual reproduction in Cycas: Structure and development of male cone (microsporangium) and female reproductive structure (ovule) 14. Embryo development in Cycas and Germination of seed 15. Tutorial 16. Pinus: External morphology of root, stem, leaf 17. Pinus: internal structure of root and stem 18. Tutorial 19. Pinus: foliage leaf – internal structure 20. Pinus: Reproduction- Structure of Male and female cone, development of microsporangium and ovule 21. Tutorial 22. Pinus: Fertilization and embryo development, seed development 23. Ephedra: External morphology 24. Tutorial 25. Ephedra: Internal structure of root, stem and leaf 26. Ephedra: Male and female cone and their development, Development of male and female gametophytes 27. Tutorial 28. Ephedra: Fertilization and Embryo development; Seed germination 29. Palaeobotany: Introduction and scope, Geological time scale 30. Tutorial 31. Fossilization: types of fossils, techniques for study of fossils 32. Applied aspects of fossils: use in coal and petroleum exploration. Study of primitive land plant: Rhynia 33. Tutorial 34. Fossil Pteridophyta: Lepidodendron 35. Fossil Gymnosperm: Williamsonia 36. Tutorial

I. Course Articulation Matrix: (Mapping of COs with POs) CORRELATION WITH PROGRAM OUTCOMES CORRELATION WITH PROGRAM SPECIFIC CO STATEMENT OUTCOMES PO PO PO PO PO PO PO 7 PSO 1 PSO 2 PSO 3 1 2 3 4 5 6 [BY 1202.1]. Identify various Gymnosperms in the nature based on 1 their characteristics. [BY 1202.2]. Locate the sites from where Gymnosperms can be collected and classify Gymnosperms as per their varied importance [BY 1202.3]. Interpret importance of Gymnosperms as ornamental 1 1 plant as well as food. [BY 1202.4]. Distinguish important Gymnosperm 1 [BY 1202.5]. Critically analyse uses of Gymnosperms and 1 Palaeobotany in modern day science [BY 1202.6]. Assess their importance as food, medicine, ornament, 1 fossil fuel etc.

[BY 1202.7]. Develop the protocol to preserve fossils and 1 2 identification of their age and locations where fossil fuel (petroleum) is abundant 1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out Principles of Genetics | BT 1306 | 4 Credits | 3 1 0 4

Session: Aug 17 – Nov 17 | Faculty: Dr. Dakal TC | Class: Core Course

A. Introduction: This course is offered by Dept. of Biosciences as a core course in B.Sc. (Hons) Biotechnology targeting students who wish to pursue their career in the research field of genetics, genetic engineering and allied fields. The genetics course work at undergraduate level is designed to cover both the classical (Mendelian) and modern genetics with aim to enable students to understand how genetic traits are inherited from one generation to other and to know the genetic basis of cellular functions and mechanisms. This course focuses on genetics in three branches: Mendelian (classical or transmission) genetics, molecular genetics, and population genetics. The objective of this course is to understand the Mendelian and non-mendelian modes of inheritance that govern passage of genetic traits across generation; to use this knowledge of inheritance to track alleles through generations and categorize and predict genotypes and phenotypes; to understand basic structure and function of DNA and chromosomes B. Course Outcomes: At the end of the course, students will be able to: [BT 1306.1]. Recall the background history and major contributions in the field of genetics [BT 1306.2]. Understand the overview of chromosomes, genes, alleles, genotype, phenotype, homologous chromosomes, traits etc. [BT 1306.3]. Understand Mendelian genetics comprising Mendel’s principles of inheritance such as dominance, segregation and independent assortment. These principles explain how different alleles of a gene contribute differently to a particular trait under study, how alleles segregate and assort during meiosis. [BT 1306.4]. Demonstrate different genetic phenomenon that relies on non-Mendelian inheritance such as co-dominance, incomplete dominance. [BT 1306.5]. Evaluate the effect of environmental factors on trait expression and how it contribute to expressivity and penetrance of a trait [BT 1306.6]. Analyze different types of genetic mutations and their causal factors. [BT 1306.7]. Investigate different intra- and inter-genic interactions such as epistasis, complementary genes and supplementary genes.

D. Assessment Plan:

A. SYLLABUS Science of Genetics – Overview of modern history of Genetics from1900-Present. General areas of genetics: Classical, Molecular & Evolutionary. Mendelian Genetics and its Extension: Principles of Inheritance, Chromosome theory, Incomplete and co-dominance, Multiple alleles, pleiotropy, genomic imprinting, penetrance and expressivity, phenocopy, Epistasis. Non-Mendelian inheritance: cytoplasmic inheritance. Linkage, Crossing Over and Chromosomal Mapping Linkage maps, tetrad analysis, mapping with molecular markers, mapping by using somatic cell hybrids, development of mapping population in plants. Sex linked, sex limited and sex influenced characters. Interaction of genes: Intragenic and intergenic interactions, lethal genes, complementary genes, supplementary genes, inhibitory genes, duplicate genes, epistatic genes. Mutations: chromosomal mutations: deletion, duplication, inversion, translocation, aneuploidy and polyploidy, Molecular cytogenetics: Nuclear DNA content, C-value paradox, CoT curve and its significance. B. TEXT BOOKS 1. Singh. B.D. Fundamnetals of Genetics. Kalyani Press, New Delhi, 2009. 2. Pandey. B.N. Cytology, Genetics and molecular genetics. Tata McGraw Hill, New Delhi, 2012. C. REFERENCE BOOKS 1 Strickberger. M.W. Genetics, Prantice Hall, 4th ed., New York, 2006. 2. Gardener E. J., Simmons M. J. and Snustand, D. P. Principles of Genetics, Wiley John & Sons Publications, New Delhi, 2005. D. Lecture Plan:

LEC TOPICS NO 1. Science of Genetics – introduction 2. Science of Genetics – modern history of Genetics from1900-Present 3. General areas of genetics: classical, molecular, ecolutionary 4. Tutorial 5. Mendelian Genetics: introduction 6. Mendelian Genetics: Mendel’s experiments & law of dominance 7. Mendelian Genetics: law of segregation 8. Tutorial 9. Mendelian Genetics: law of independent assortment 10. Chromosome theory 11. Co-dominance & Incomplete dominance 12. Tutorial 13. Multiple alleles 14. Pleiotropy 15. Genomic imprinting 16. Tutorial 17. Penetrance and expressivity, Phenocopy 18. Epistasis: principles and concepts 19. Epistasis: principles and concepts 20. Tutorial 21. Non-Mendelian inheritance: introduction & cytoplasmic inheritance 22. Linkage & Crossing over 23. Chromosomal mapping, linkage maps 24. Tutorial 25. Tetrad analysis 26. Mapping with molecular markers 27. Mapping by using somatic cell hybrids 28. Tutorial 29. Development of mapping population in plants 30. Sex linked characters 31. Sex limited characters 32. Tutorial 33. Sex influenced characters 34. Interaction of genes: intragenic interactions 35. Interaction of genes: intergenic interactions 36. Tutorial 37. Lethal genes & inhibitory genes 38. Complementary genes & supplementary genes 39. Duplicate genes and epistatic genes 40. Tutorial 41. Mutations: introduction & chromosomal mutations 42. Mutations: chromosomal mutations: deletion, duplication, inversion, translocation 43. Mutations: aneuploidy and polyploidy 44. Tutorial 45. Molecular cytogenetics: nuclear DNA content 46. Molecular cytogenetics: C-value paradox 47. Molecular cytogenetics: CoT curve and its significance 48. Tutorial

E. Course Articulation Matrix: (Mapping of COs with POs) CORRELATION WITH PROGRAM OUTCOMES CORRELATION WITH PROGRAM SPECIFIC CO STATEMENT OUTCOMES PO PO PO PO PO PO PO 7 PSO 1 PSO 2 PSO 3 1 2 3 4 5 6 [BT 1306.1]. Recall the background history and major contributions in the field of 1 1 1 genetics [BT 1306.2]. Understand the overview of chromosomes, genes, alleles, genotype, 2 1 2 2 phenotype, homologous chromosomes, traits etc. [BT 1306.3]. Understand Mendelian genetics comprising Mendel’s principles of 1 1 2 3 2 inheritance such as dominance, segregation and independent assortment. These principles explain how different alleles of a gene contribute differently to a particular trait under study, how alleles segregate and assort during meiosis. [BT 1306.4]. Demonstrate different genetic phenomenon that relies on non-Mendelian 1 1 1 1 inheritance such as co-dominance, incomplete dominance. [BT 1306.5]. Evaluate the effect of environmental factors on trait expression and how it 2 2 2 1 1 contribute to expressivity and penetrance of a trait [BT 1306.6]. Analyze different types of genetic mutations and their causal factors 1 2 1 1 [BT 1306.7]. Investigate different intra- and inter-genic interactions such as epistasis, 1 1 2 3 complementary genes and supplementary genes 1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out Principles of Environmental Biotechnology | BT1307 | 4 Credits | 3 1 0 4

Session: Aug 17 – Dec 17 | Faculty: Dr. Srivastava Sandeep | Class: Core

A. Introduction: This course is offered by Dept. of Biosciences as a core course in B.Sc. (Hons) Biotechnology Programme targeting students who wish to pursue their career in the research field of Environmental Biotechnology or higher studies in the field of Environmental Biotechnology. Key themes within this course include Biogeochemistry and Biodegradation, and Waste Management and Processing and Bioenergy. B. Course Outcomes: At the end of the course, students will be able to:

[BT 1307.1]. Define the importance of microbial diversity in environmental systems, processes and biotechnology [BT 1307.2]. Understand and explain the importance of molecular approaches in environmental microbiology and biotechnology. [BT 1307.3]. Demonstrate existing and emerging technologies that are important in the area of environmental biotechnology [BT 1307.4]. Compare the principles and techniques underpinning the application of biosciences to the environment [BT 1307.5]. Appraise case-studies representative of key areas of environmental Biotechnology [BT 1307.6]. Design a range of practical approaches relevant to environmental microbiology and biotechnology and be able to record, report and discuss data

[PSO.1.] To demonstrate competency in factual content and interpretation of the major biological concept areas of cell and molecular biology, genetics, organismal biology, and evolution and ecology. [PSO.2.] To demonstrate the ability to identify significant biological research questions, develop research protocols, and properly analyze research questions through the use of the scientific method. [PSO.3.] Enhance analytical and quantitative skills and Demonstrate an understanding of basic computational techniques in the field of Biotechnology

D. Assessment Plan:

E. SYLLABUS

Concept of environmental pollution: Origin of pollution; Classification and nature of Environmental Pollutants; Major sources. Impacts of Environmental Pollution: local, regional and global impact of environmental pollution, role of biotechnology in pollution detection and control. Biosensors for the detection of pollutants. Immobilized cells/enzymes for the treatment of pollutants. Hazardous materials and their treatment: treatment of hazardous wastes; hazards caused by biomedical wastes; treatment strategies for biomedical wastes. Bioremediation: In situ and Ex situ bioremediation; constrains and priorities of bioremediation; use of microbes, plants, bio-surfactant and bioemulsifiers in biodegradation and biotransformation. Bio-sorption: biotechnology and heavy metal pollution. Hydrocarbon degradation. Environmental impacts on agriculture: Biodegradation of agricultural chemicals; Biofertilizers and biopesticide. Bioassessment of Environmental Quality. F. TEXT BOOKS 1. Evans, E. and Furlong, JC.. Environmental Biotechnology: Theory and Application, John Wiley Sons, New Delhi, 2003. 2. Bhattacharya, B.C. Environmental Biotechnology, Oxford University Press, New Delhi, 2007.

G. REFERENCE BOOKS 1. Jordening, H.J. and Winter, J.. Environmental Biotechnology, Wiley-VCH Verlag, New York, 2005. 2. Rittmann, B.E., and McCarty, M.. Environmental Biotechnology, McGraw-Hill, New Delhi, 2012.

H. Lecture Plan:

LEC TOPICS NO 1. Concept of environmental pollution: Origin of pollution; Classification and nature of Environmental Pollutants 2. Major sources and impact of Environmental Pollution: local, regional and global 3. Tutorial 4. Role of biotechnology in pollution detection and control. 5. Biosensors for the detection of pollutants. 6. Tutorial 7. Immobilized cells/enzymes for the treatment of pollutants. 8. Hazardous materials and their treatment: treatment of hazardous wastes 9. Tutorial 10. Hazards caused by biomedical wastes 11. Treatment strategies for biomedical wastes. 12. Tutorial 13. Bioremediation: In situ and Ex situ bioremediation 14. Bioremediation: In situ and Ex situ bioremediation 15. Tutorial 16. Bioremediation: Constrains and priorities 17. Bioremediation: Constrains and priorities 18. Tutorial 19. Use of microbes, plants, bio-surfactant and bioemulsifiers in biodegradation and biotransformation. 20. Use of microbes, plants, bio-surfactant and bioemulsifiers in biodegradation and biotransformation. 21. Tutorial 22. Bio-sorption: biotechnology and heavy metal pollution. 23. Bio-sorption: biotechnology and heavy metal pollution. 24. Tutorial 25. Hydrocarbon degradation. 26. Hydrocarbon degradation 27. Tutorial 28. Environmental impacts on agriculture 29. Biodegradation of agricultural chemicals 30. Tutorial 31. Biofertilizers 32. Biopesticide. 33. Tutorial 34. Bioassessment of Environmental Quality. 35. Bioassessment of Environmental Quality. 36. Tutorial 37. Environmental microbiology, diversity and systematic 38. Environmental toxicology 39. Tutorial 40. Radiation, Thermal pollution and Electronic waste 41. Biotechnology of marine environment 42. Tutorial 43. Biotechnology for industrial and municipal wastes 44. Biotechnology for industrial and municipal wastes 45. Tutorial 46. Biological Degradation Of Hazardous Wastes 47. Current global environmental issues 48. Tutorial

I. Course Articulation Matrix: (Mapping of COs with POs) CORRELATION WITH PROGRAM OUTCOMES CORRELATION WITH PROGRAM SPECIFIC CO STATEMENT OUTCOMES PO PO PO PO PO PO PO 7 PSO 1 PSO 2 PSO 3 1 2 3 4 5 6 [BT1307.1] Define the importance of microbial diversity in environmental systems, 1 3 2 processes and biotechnology [BT1307.2] Understand and explain the importance of molecular approaches in 1 environmental microbiology and biotechnology. [BT1307.3] Demonstrate existing and emerging technologies that are important in the 2 area of environmental biotechnology [BT1307.4] Compare the principles and techniques underpinning the application of 1 3 1 biosciences to the environment [BT1307.5] Appraise case-studies representative of key areas of environmental 1 2 Biotechnology [BT1307.6] Design a range of practical approaches relevant to environmental 1 1 2 microbiology and biotechnology and be able to record, report and discuss data 1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out Plant Tissue Culture Techniques| BT 1308 | 4 Credits | 3 1 0 4

Session: Aug 17 – Nov 17 | Faculty: Dr. Jain Rohit | Class: Core course

A. Introduction: This course is offered by Dept. of Biosciences as a core course in B.Sc. (Hons.) Biotechnology Programme targeting students who wish to pursue their career in the field of plant tissue culture and plant biotechnology. The focus of this course is to introduce the students to different methodologies of cell and tissue culture, which can be used for wide range of applications including conservation of endangered plant species, elite germplasms, mass multiplication of economically important plants and production of medicinally and nutritionally important compounds. The course also imparts the practical knowledge of various techniques associated with plant tissue culture, which is useful to gain positions at various plant tissue culture industries and national research centres. B. Course Outcomes: At the end of the course, students will be able to:

[BT 1308.1]. Define the nature of plant growth processes in the tissue culture environment. [BT 1308.2]. Identify the role of different growth regulators and media constituents in plant growth and development and preparation of different growth media for plant growth. [BT 1308.3]. Apply the technique of micropropagation such as somatic embryogenesis, organogenesis and protoplast culture for ex situ conservation and mass multiplication of endangered and economically important plants [BT 1308.4]. Analyze and relate morphological, physiological and somaclonal variations for crop improvement [BT 1308.5]. Evaluate the clonal fidelity and polymorphism of the tissue cultured plants using molecular and statistical tools [BT 1308.6]. Design and develop the protocols for enhanced production of bioactive compounds in cell suspension culture. [BT 1308.7]. Formulate protocol for development of genetically engineered crops for novel traits.

C. PROGRAM OUTCOMES AND PROGRAM SPECIFIC OUTCOMES

[PO.1]. Critical Thinking: Take informed actions after identifying the assumptions that frame our thinking and actions, checking out the degree to which these assumptions are accurate and valid, and looking at our ideas and decisions (intellectual, organizational and personal) from different perspectives. [PO.2]. Effective Communication: Speak, read, write and listen clearly in person and through electronic media in English and in one Indian language, and make meaning of the world by connecting people, ideas, books, media and technology. [PO.3]. Social Interaction: Elicit views of others, mediate disagreements and help reach conclusions in group settings. [PO.4]. Effective Citizenship: Demonstrate empathetic social concern and equity centred national development, and the ability to act with an informed awareness of issues and participate in civic life through volunteering. [PO.5]. Ethics: Recognize different value systems including your own, understand the moral dimensions of your decisions, and accept responsibility for them. [PO.6]. Environment and Sustainability: Understand the issues of environmental contexts and sustainable development. [PO.7]. Self-directed and Life-long Learning: Acquire the ability to engage in independent and life-long learning in the broadest context socio-technological changes.

D. Assessment Plan:

E. SYLLABUS Introduction and history of plant tissue culture. Introduction to techniques: laboratory facilities, tools and techniques; laboratory planning and design. Concept of asepsis and methods of sterilization: physical and chemical methods of sterilization. Nutrient Media: components of media, media preparation and its selection, growth hormones, vitamins, adjuvants. Different types of media: Murashige & Skoog, B5, Nitsch and Nitsch, Woody Plant Medium (WPM) Tissue culture methodologies - cellular totipotency, explant, callus culture, somaclonal variation, cell suspension culture, single cell culture, organ micro-culture, plant micropropagation, somatic embryogenesis, synthetic seed technology, protoplast culture. Secondary metabolite production in tissue culture: culture initiation, biotransformation, elicitation, hairy root culture, immobilization, permeabilization, introduction to bioreactor. Green house operation and management: hardening and acclimatization of tissue cultured plants. .

F. TEXT BOOKS 1. Razdan, M.K. An introduction of Plant Tissue Culture- Oxford & IBH Publishing Co. Pvt. Ltd. New Delhi. 2005. 2. Bhojwani, S.S. and Razdan, M.K. Plant Tissue Culture theory and practice a Revised edition, Elsevier Science Publishers, New York, USA, 2011. 3. Purohit. S.D. Introduction to Plant Cell, Tissue and Organ Culture. PHI Learning Pvt. Ltd. New Delhi, 2013 G. REFERENCE BOOKS 1 Gemborg O.L. and Phillips G.C. Plant Cell Tissue and Organ Culture. Narosa Publishing House, New Delhi. 1998. 2. Narayanaswamy S. Plant Cell and Tissue Culture. Tata Mc Graw Hill Publication, New Delhi. 9th reprint. 2008 H. Lecture Plan:

LEC NO TOPICS 1. Introduction and History of Plant Tissue Culture

2. Components of nutrient media: Macronutrients, micronutrients 3. Components of nutrient media: vitamins, adjuvants 4. Tutorial 5. Plant Growth Hormones (Auxins, Cytokinins), Sources and mode of action of different plant growth hormones 6. Types of nutrient media, Preparation and selection of nutrient media 7. Concept of asepsis, Methods of sterilisation: physical, chemical and mechanical 8. Tutorial 9. Basic laboratory aids, tools and techniques used in plant tissue culture 10. Concept of potency (totipotency) in plant tissues 11. Concept of dedifferentiation and redifferentiation 12. Tutorial 13. Modes of plant regeneration: direct and indirect regeneration 14. Modes of plant regeneration: organogenesis and de novo regeneration 15. Steps involved in Micropropagation 16. Tutorial 17. Applications of Micropropagation 18. Limitations and their troubleshooting in tissue culture: leaching of phenolics, hyperhydricity, etc 19. Types of culture: seed, axillary buds, shoot tips, etc. 20. Tutorial 21. Hardening and Acclimatization of tissue culture plants 22. History of Haploid culture, Methods for generation of haploid plants 23. Applications of haploid plants 24. Tutorial 25. Triploid culture, Applications of triploid plants 26. Somatic embryogenesis: history, methods for somatic embryogenesis 27. Applications of somatic embryos 28. Tutorial 29. Somatic hybridisation: history, techniques used for generation of somatic hybrids 30. Applications of somatic hybrids 31. Somaclonal variation: concept and techniques 32. Tutorial 33. Applications of somaclonal variation 34. Protoplast culture: principles and methods 35. Applications of protoplast culture 36. Tutorial 37. Synthetic seeds: principles, methods and applications 38. Hardening & Acclimatization: principles and methods 39. Types of metabolites: primary and secondary 40. Tutorial 41. Secondary metabolite production: principle and importance 42. Steps involved in secondary metabolite production: Culture initiation, biotransformation 43. Steps involved in secondary metabolite production: Elicitation, Downstream processing 44. Tutorial 45. Immobilization of plant cells for metabolite production, applications at industrial scale 46. Cell suspension culture: methods and applications 47. Hairy root culture: methods and applications 48. Tutorial

I. Course Articulation Matrix: (Mapping of COs with POs) CORRELATION WITH PROGRAM CORRELATION WITH OUTCOMES PROGRAM SPECIFIC CO STATEMENT OUTCOMES PO PO PO PO PO PO PO PSO 1 PSO 2 PSO 3 1 2 3 4 5 6 7 [BY 1308.1]. Define the nature of plant growth processes in the tissue culture 1 1 environment. [BY 1308.2]. Identify the role of different growth regulators and media constituents in plant growth and development and preparation of different growth media for plant growth. [BY 1308.3]. Apply the technique of micropropagation such as somatic embryogenesis, 1 2 organogenesis and protoplast culture for ex situ conservation and mass multiplication of endangered and economically important plants [BY 1308.4]. Analyze and relate morphological, physiological and somaclonal variations 2 for crop improvement [BY 1308.5]. Evaluate the clonal fidelity and polymorphism of the tissue cultured plants 1 3 using molecular and statistical tools [BY 1308.6]. Design and develop the protocols for enhanced production of bioactive 1 3 compounds in cell suspension culture. [BY 1308.7]. Formulate protocol for development of genetically engineered crops for 1 1 2 3 novel traits. 1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out Introduction to Bioinformatics | BT1309 | 3 Credits | 2 1 0 3

Session: Aug 17 – Dec 17 | Faculty: Dr. Srivastava Sandeep | Class: Core

A. Introduction: This course is offered by Dept. of Biosciences as a core course in B.Sc. (Hons) Biotechnology Programme targeting students who wish to pursue their career in the field of Bioinformatics or higher studies in the field of Bioinformatics. Key themes within this course include biological databases, Bioinformatics applications, Omics technology, DNA, protein sequence information, Sequence alignments and evolutionary conservation, DNA sequencing and application in forensics, B. Course Outcomes: At the end of the course, students will be able to:

[BT 1309.1]. Memorize practical and hands-on experience with common bioinformatics tools and databases. [BT 1309.2]. Understand basic theory and application of programs used for database searching, protein and DNA sequence analysis, prediction of protein function, and building phylogenetic trees. [BT 1309.3]. Execute basic competences in the use of bioinformatics tools. [BT 1309.4]. Compare different bioinformatics tools vis a vis knowledge of molecular biology. [BT 1309.5]. Evaluate information networks and bioinformatics tools on the internet [BT 1309.6]. Design case-studies representative of key areas of Bioinformatics

[PSO.1.] To demonstrate competency in factual content and interpretation of the major biological concept areas of cell and molecular biology, genetics, organismal biology, and evolution and ecology. [PSO.2.] To demonstrate the ability to identify significant biological research questions, develop research protocols, and properly analyze research questions through the use of the scientific method. [PSO.3.] Enhance analytical and quantitative skills and Demonstrate an understanding of basic computational techniques in the field of Biotechnology

D. Assessment Plan:

E. SYLLABUS

Histroy, introduction and scope of Bioinformatics, internet and World Wide Web, Databanks: nucleotide databanks (NCBI, EMBL, DDBJ), protein databanks (sequence databanks: PIR, SWISSPROT, TrEMBL; structural databases: PDB, SCOP, CATH). Sequence relationship: BLAST, FASTA. Sequence comparison and alignment: Introduction, principal methods of pairwise sequence alignment and multiple sequence alignment - CLUSTALW. Introduction to Genomics-information flow in biology, sequence data, sequencing DNA, RNA and protein, genome information resources. Introduction to proteomics. Phylogenetic Analysis: Trees- splits and metrices on trees, tree interpretation. Role of bioinformatics in drug discovery and developemnt, target discovery, lead discovery, microarray, docking and prediction of drug quality. Protein structure prediction. F. TEXT BOOKS 1. Attwood, T.K., and Smith, P.. Introduction to Bioinformatics, Pearson Education, New Delhi, 2004. 2. Rastogi, S.C. and Rostogi, P. Bioinformatics: Methods and Applications, Printice Hall India Pvt. Ltd. New Delhi, 2008.

G. REFERENCE BOOKS 1. Pennigton, S. and Dunn,M.J. Proteomics: From protein sequences to function, Viva Books Publishers, New Delhi, 2002. 2. Mount,D.H.. Bioinformatics, CBS Publishers, New Delhi, 2005.

H. Lecture Plan:

LEC TOPICS NO 1. Histroy, introduction and scope of Bioinformatics, internet and World Wide Web, 2. Databanks: nucleotide databanks (NCBI, EMBL, DDBJ 3. Tutorial 4. Protein databanks (sequence databanks: PIR, SWISSPROT, TrEMBL) 5. Structural databases: PDB, SCOP, CATH). 6. Tutorial 7. Sequence relationship: BLAST, FASTA. 8. Sequence relationship: Dynamic Programming 9. Tutorial 10. Sequence comparison and alignment: Introduction, principal methods of pairwise sequence alignment and multiple sequence alignment - CLUSTALW. 11. Sequence comparison and alignment: Introduction, principal methods of pairwise sequence alignment and multiple sequence alignment - CLUSTALW. 12. Tutorial 13. Introduction to Genomics-information flow in biology 14. Introduction to Genomics-information flow in biology 15. Tutorial 16. biology Sequence data, sequencing DNA 17. RNA sequencing 18. Tutorial 19. Omics Technology

20. Genome information resources. 21. Tutorial 22. Introduction to proteomics. 23. Phylogenetic Analysis: Trees-splits and metrices on trees, tree interpretation. 24. Tutorial 25. Role of bioinformatics in drug discovery 26. Role of bioinformatics in drug development. 27. Tutorial 28. Role of bioinformatics in target discovery, 29. Role of bioinformatics in lead discovery, microarray, docking and prediction of drug quality. Protein structure prediction 30. Tutorial 31. Microarray data analysis 32. Molecular Docking and prediction of drug quality. Protein structure prediction 33. Tutorial 34. Molecular Docking and prediction of drug quality. 35. Protein structure prediction 36. Tutorial

I. Course Articulation Matrix: (Mapping of COs with POs) CORRELATION WITH PROGRAM OUTCOMES CORRELATION WITH PROGRAM SPECIFIC CO STATEMENT OUTCOMES PO PO PO PO PO PO PO 7 PSO 1 PSO 2 PSO 3 1 2 3 4 5 6 [BT1309.1] Memorize practical and hands-on experience with common bioinformatics 1 3 2 tools and databases. [BT1309.2] Understand basic theory and application of programs used for database 1 3 searching, protein and DNA sequence analysis, prediction of protein function, and building phylogenetic trees. [BT1309.3] Execute basic competences in the use of bioinformatics tools. 1 1 2 [BT1309.4] Compare different bioinformatics tools vis a vis knowledge of molecular 1 3 1 biology. [BT1309.5] Evaluate information networks and bioinformatics tools on the internet 1 2 [BT1309.6] Design case-studies representative of key areas of Bioinformatics 1 2 1 1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out

[BY 1301.1] Define the basic of central dogma [BY 1301.2] Understand various biological processes through the investigation of the underlying molecular mechanisms [BY 1301.3] Understand the chemical and molecular processes that occur in and between cells. [BY 1301.4] Apply various techniques related to DNA as genetic material [BY 1301.5] Examine the most significant molecular and cell-based methods used today to expand our understanding of biology [BY 1301.6] Evaluate the mechanism behind copying of DNA with extra fidelity. [BY 1301.7] Evaluate the process behind formation of RNA and proteins [BY 1301.8] Investigate the molecular mechanisms behind different modes of gene regulation in bacteria

C. PROGRAM OUTCOMES AND PROGRAM SPECIFIC OUTCOMES [PO.1]. Critical Thinking: Take informed actions after identifying the assumptions that frame our thinking and actions, checking out the degree to which these assumptions are accurate and valid, and looking at our ideas and decisions (intellectual, organizational and personal) from different perspectives. [PO.2]. Effective Communication: Speak, read, write and listen clearly in person and through electronic media in English and in one Indian language, and make meaning of the world by connecting people, ideas, books, media and technology. [PO.3]. Social Interaction: Elicit views of others, mediate disagreements and help reach conclusions in group settings. [PO.4]. Effective Citizenship: Demonstrate empathetic social concern and equity centred national development, and the ability to act with an informed awareness of issues and participate in civic life through volunteering. [PO.5]. Ethics: Recognize different value systems including your own, understand the moral dimensions of your decisions, and accept responsibility for them. [PO.6]. Environment and Sustainability: Understand the issues of environmental contexts and sustainable development. [PO.7]. Self-directed and Life-long Learning: Acquire the ability to engage in independent and life- long learning in the broadest context socio-technological changes. [PSO.1.] To demonstrate competency in factual content and interpretation of the major biological concept areas of cell and molecular biology, genetics, organismal biology, and evolution and ecology. [PSO.2.] To demonstrate the ability to identify significant biological research questions, develop research protocols, and properly analyze research questions through the use of the scientific method. [PSO.3.] Enhance analytical and quantitative skills and demonstrate an understanding of basic computational and statistical techniques in the field of Biotechnology

D. Assessment Plan:

E. SYLLABUS Nucleic acids transfer genetic information: DNA as the carrier of genetic information, key experiments establishing-the Central Dogma, DNA Double helix, Genetic code. The Structures of DNA and RNA: DNA Structure, Types of DNA, denaturation and renaturation. DNA topology. The Replication of DNA in Prokaryotes and Eukaryotes: general principles- bidirectional replication, Semiconservative, Semi discontinuous. Enzyme involved in DNA replication – DNA polymerases, DNA ligase, Primase, Telomerase and other accessory proteins. Mechanism of Transcription and translation in Prokaryotes and Eukaryotes. Regulation of gene expression, Lac operon model. F. .TEXT BOOKS 1. Singh, B.D. Biotechnology. Kalyani Publishers, New Delhi, India. 2010. 2. Gupta, P.K. Text Book of Cell and Molecular Biology, Rastogi Publications, Merrut, 2012. G. REFERENCE BOOKS 1 Alberts, B., Bray, D., Lewis, J., Raff, M., Roberts K. and Watson, J.D. Molecular Biology of the Cell, Garland Publishing Inc., New York, 2008. 2. Karp, G., Cell and Molecular Biology: Concepts and Experiments, John Wiley & Sons, New Delhi, 2008. 3. Lodish, H., Berk, A., Zipursky, S.L., Matsudiara, P., Baltimore D and Darnell J. Molecular Cell Biology, WH Freeman & Co. New York, 2013 H. Lecture Plan:

LEC TOPICS NO 1. Discussion of lecture plan and syllabi 2. Introduction to molecular biology 3. Genetics and Biology, molecular structure of nucleic acids 4. Tutorial 5. Packaging of DNA into chromosomes 6. DNA as the genetic material 7. Classical experiments of Hershey Chase, Avery McLeod etc

8. Tutorial

9. Central dogma and its concept 10. The Structures of DNA and RNA

11. The Structures of DNA and RNA

12. Replication: introduction 13. Replication: Principle 14. Tutorial 15. Replication: Enzymes involved 16. Replication: uptill termination

17. Tutorial 18. Transcription: introduction 19. Transcription: Principle

20. Tutorial 21. Transcription: Enzymes involved 22. Transcription: uptill termination 23. Tutorial 24. Translation: introduction 25. Translation: Principle 26. Tutorial

27. Translation: Enzymes involved

28. Translation: uptill termination 29. Tutorial

30. Structure of gene

31. concept of promoter, regulator, enhancer, operator & structural genes 32. Tutorial 33. inducible and repressible gene expressions 34. Tutorial 35. operon concept 36. Lac operon 37. Tutorial 38. Lac operon: detail 39. Tutorial

I. Course Articulation Matrix: (Mapping of COs with POs) CORRELATION WITH PROGRAM OUTCOMES CORRELATION WITH CO STATEMENT PROGRAM SPECIFIC OUTCOMES PO PO PO PO PO PO PO 7 PSO 1 PSO 2 PSO 3 1 2 3 4 5 6 [BY 1301.1] Define the basic of central dogma 1 2 [BY 1301.2] Understand various biological processes through the 3 investigation of the underlying molecular mechanisms [BY 1301.3] Understand the chemical and molecular processes that 2 occur in and between cells [BY 1301.4] Apply various techniques related to DNA as genetic 1 material [BY 1301.5] Examine the most significant molecular and cell-based 1 1 methods used today to expand our understanding of biology [BY 1301.6] Evaluate the mechanism behind copying of DNA with extra 1 3 fidelity. [BY 1301.7] Evaluate the process behind formation of RNA and proteins 1 [BY 1301.8] Investigate the molecular mechanisms behind different 1 2 modes of gene regulation in bacteria 1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out Fundamentals of Immunology | BT 1406 | 4 Credits | 3 1 0 4

Session: Jan 17 – May 17 | Faculty: Dr. Dakal TC | Class: Core Course

A. Introduction: This course is offered by Dept. of Biosciences as a core course in B.Sc. (Hons) Biotechnology targeting students who wish to pursue their career in the research field of cancer immunology, haematology and cell culture. The fundamentals of immunology course at undergraduate level is designed with the goal for students to acquire the necessary practical skills for the blood cell isolation, blood grouping, antigen-antibody interaction, and application of immunological techniques in other fields of biosciences and biotechnology. Upon successful completion of this course the student will be able to recognize the foundations of biomedical sciences. This course will aspire students to take further training at Master degree and Ph.D. level after their graduation. B. Course Outcomes: At the end of the course, students will be able to: [BT 1406.1]. Recall the concept of immunology, immunity, immune-response and immunogenecity [BT 1406.2]. Discuss about the overview and types of immunity: humoral/cell mediated and active/passive. Components and salient features of different types of immunity [BT 1406.3]. Describe immune cells and how immune cells get activate and proliferation in response to stimulus or antigen. [BT 1406.4]. Define, characteristics, types and function of antigen and antibody molecules. The different mechanisms by which antigen (both endo and exogenous) are processed and presented. [BT 1406.5]. Differntiate antigen-antibody interaction mechanisms- precipitation, agglutination, ELISA etc. [BT 1406.6]. Develop concept of MHC complex, complement system, cytokines. [BT 1406.7]. Formulate hypothesis on autoimmune diseases, development of immune-therapies and vaccines. C. PROGRAM OUTCOMES AND PROGRAM SPECIFIC OUTCOMES [PO.1]. Critical Thinking: Take informed actions after identifying the assumptions that frame our thinking and actions, checking out the degree to which these assumptions are accurate and valid, and looking at our ideas and decisions (intellectual, organizational and personal) from different perspectives. [PO.2]. Effective Communication: Speak, read, write and listen clearly in person and through electronic media in English and in one Indian language, and make meaning of the world by connecting people, ideas, books, media and technology. [PO.3]. Social Interaction: Elicit views of others, mediate disagreements and help reach conclusions in group settings. [PO.4]. Effective Citizenship: Demonstrate empathetic social concern and equity centred national development, and the ability to act with an informed awareness of issues and participate in civic life through volunteering. [PO.5]. Ethics: Recognize different value systems including your own, understand the moral dimensions of your decisions, and accept responsibility for them. [PO.6]. Environment and Sustainability: Understand the issues of environmental contexts and sustainable development. [PO.7]. Self-directed and Life-long Learning: Acquire the ability to engage in independent and life-long learning in the broadest context socio-technological changes.

D. Assessment Plan:

Total 100 NOTE: A minimum of 75% Attendance is required to be maintained by a student to be qualified for taking up the End Semester examination. The allowance of 25% includes all types of leaves including medical leaves. E. SYLLABUS Immunology: history, types of immunology (Innate and acquired), active and passive, humoral and cell mediated immunology. Organs: thymus, spleen, lymph node. Cells of Immunology: B & T cells, generation of antibody diversity, monoclonal antibodies, MHC molecules, antigen processing and presentation, activation and differentiation of B and T cells, B and T cell receptors, primary and secondary immune modulation, the complement system, Toll-like receptors, cell-mediated effector functions, antigen and immunogens: Characteristic of antigen, adjuvants, haptens. Antibody: types and structure, antigen and antibody interactions. Interferon, immune response during bacterial (tuberculosis), parasitic (malaria) and viral (HIV) infections, congenital and acquired immunodeficiencies, prions and diseases. Applications of Immunology: ELISA, RIA, Antibody generation, western blot, immunoprecipitation, flowcytometry and immunofluorescence microscopy. Blood groups: blood cell components, ABO blood groups, Rh typing, types of vaccines-Inactivate attenuated and recombinant vaccines-Peptide and DNA Vaccines, Hypersensitivity and allergic reactions, autoimmunity. F. TEXT BOOKS 1. Rajasekara P. M. and Kumar S. B. Immunology and Immunotechnology, Panima Publishing Corporation, New Delhi, 2007. 3. Nigam and Ayyangari. A. Lab Manual in Biochemistry, Immunology and Biotechnology, McGraw-Hill Education, India, 2008. G. REFERENCE BOOKS 1 Freshney. R. Culture of Animal Cells, Wiley Publishing Inc., USA, 2010. 2. Kuby. J. Immunology, Freeman and Company, New York, 2005. Lecture Plan:

LEC TOPICS NO 1 Immunology – introduction 2 Immunology –historical overview 3 Basic concept about immunity, immune response and immunogenecity 4 Tutorial 5 Different types of immunity 6 Humoral and cell mediated immunity 7 Active and passive immunity 8 Tutorial 9 Immune cells- how cells arise from progenitor cells 10 Three types of immune cells: B-Cells, T-Cells and NK Cells 11 Basic overview, cell surface marker, activation/proliferation, and function of immune cells 12 Tutorial 13 Organs of immune system 14 Antigens: types, characteristics and functions 15 Antibodies: types, characteristics and functions 16 Tutorial 17 Antigen presenting cells 18 Antigen processing and presentation 19 Mechanisms of action of B-cells, T-cells and macrophages, dendritic cells activation 20 Tutorial 21 Antigen antibody interaction 22 Precipitation reactions 23 Agglutination reactions 24 Tutorial 25 RIA/ELISA 26 Immunoblotting 27 Immunofluorescence 28 Tutorial 29 Major histocompatibility complex 30 Complement system 31 Complement system 32 Tutorial 33 Cytokines 34 Flow cytometry 35 Immunoprecipitation 36 Tutorial 37 Autoimmune disorders 38 Systemic disorders 39 Localized disorders 40 Tutorial 41 Vaccine: basic overview 42 Types of vaccine 43 Types of vaccines 44 Tutorial 45 Hypersensitivity 46 Types of hypersensitivity reactions 47 Blood grouping & Blood Cells; Rh Factors 48 Tutorial

H. Course Articulation Matrix: (Mapping of COs with POs) CORRELATION WITH PROGRAM OUTCOMES CORRELATION WITH PROGRAM SPECIFIC CO STATEMENT OUTCOMES PO PO PO PO PO PO PO 7 PSO 1 PSO 2 PSO 3 1 2 3 4 5 6 [BT 1406.1]. Recall the concept of immunology, immunity, immune-response and 2 1 1 1 3 immunogenicity. [BT 1406.2]. Discuss about the overview and types of immunity: humoral/cell mediated 1 1 and active/passive. Components and salient features of different types of immunity [BT 1406.3]. Describe immune cells and how immune cells get activate and proliferation 1 2 in response to stimulus or antigen. [BT 1406.4]. Define, characteristics, types and function of antigen and antibody 2 molecules. The different mechanisms by which antigen (both endo and exogenous) are processed and presented [BT 1406.5]. Different antigen-antibody interaction mechanisms- precipitation, 2 2 agglutination, ELISA etc. [BT 1406.6]. Develop the concept of MHC complex, complement system, cytokines. 2 1 2 [BT 1406.7]. Formulate hypothesis on autoimmune diseases, development of immune- 2 1 2 therapies and vaccines.

1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out Agriculture Biotechnology| BT 1407 | 4 Credits | 3 1 0 4

Session: Jan 17 – May 17 | Faculty: Dr. Jain Rohit | Class: Core course

A. Introduction: This course is offered by Dept. of Biosciences as a core course in B.Sc. (Hons) Biotechnology Programme. The course deals with the basic principles and selected applications of biotechnology for agricultural crops, emphasizing the need for a different type of agriculture, in order to support the increasing needs for food (quantity and quality) facing climatic changes as well as increased abiotic and biotic stress conditions. The basic aspects of the major biotechnological tools and solutions will be evaluated. Also, the students will understand the major scientific, ecological and sociological aspects of biotechnology in agriculture and food production. The technique of genetic engineering to feed the mankind in the 21st century is the main highlight of the course. Students are required to have a prior knowledge of plant development process and ethical issues. B. Course Outcomes: At the end of the course, students will be able to:

[BT 1407.1]. Define the current status of agriculture and food demand in India [BT 1407.2]. Understand the scientific, ecological and sociological limitations in agriculture and food production [BT 1407.3]. Select and use different biotechnological tools for solving agriculture and food production problems [BT 1407.4]. Examine and weigh the possible risks and future needs of agriculture biotechnology for sustainable crop improvement [BT 1407.5]. Evaluate the ecological, sociological, economical and ethical issues associated with transgenic plants and their products [BT 1407.6]. Investigate and develop different strategies for production of transgenic varieties of various important cash and food crops of India

D. Assessment Plan: Criteria Description Maximum Marks Mid Term Exam 1 – IA 1 20 Internal Assessment Mid Term Exam 2 - IA 2 20 (IA) CWS Assessment IA 3 10 10 marks of IA 3 are awarded based on the various assignments, class tests, seminar presentation etc. End Term Exam End Term Exam – EX 1 50 (EX) Total 100 NOTE: A minimum of 75% Attendance is required to be maintained by a student to be qualified for taking up the End Semester examination. The allowance of 25% includes all types of leaves including medical leaves.

E. SYLLABUS Plant Tissue Culture applications – micropropagation, from Callus to plant, somatic embryogenesis, somaclonal variation, valuable germplasm, chemicals from plants, genetically engineered plants. Applications of Plant Genetic Engineering – crop improvement, herbicide resistance, insect resistance, virus resistance, plants as bioreactors. Vectors for plant transformation: basic features of vectors, promoters, terminators and sequencing influencing gene expression, selectable markers and reporter genes, cointegrative and binary vectors for plant transformation. Techniques for plant transformation: Agrobacterium mediated gene transfer, process of T-DNA transfer, direct gene transfer methods, applications of DNA based molecular markers (RFLP, AFLP, RAPD, ISSR, SSR) in plant biotechnology. Genetic manipulation of plants for herbicide tolerance, insect resistance, stress resistance, disease resistance, improvement of crop yield and quality, Genetically modified crops, making of BT-cotton, Falvr Savr tomato and Golden Rice, Public acceptance of genetically modified crops, current status of transgenic crops, regulation of GM crops and products, biosafety guidelines, environmental release of GMOs, risk analysis and risk assessment.

F. TEXT BOOKS 1. Bhojwani S.S. and Razdan M. K.. Plant Tissue Culture: Theory and Practice, Elsevier Science Publishers, New York, USA, 2011. 2. Narayanswamy S.. Plant Cell and Tissue Culture, Tata McGraw Hill, New Delhi, 2011.

G. REFERENCE BOOKS 1 Ignacimuthu S.. Plant Biotechnology, Oxford & IBH Publishing Co. Pvt. Ltd., New Delhi, 2001. 2. Collins H.A. and Edwards S.. Plant Cell Culture, Bios Scientific Publishers, Oxford, U.K., 1998. H. Lecture Plan:

LEC NO TOPICS 1. Introduction to Agriculture biotechnology: Scope and Prospects 2. Prominent agriculture research centres in India, Ongoing and completed major research projects 3. Components: plant tissue culture, genetic engineering, etc. 4. Tutorial 5. Plant tissue culture: nutrient media and its components 6. Plant Growth Regulators 7. Concept of totipotency and cytodifferentiation 8. Tutorial 9. Modes of plant regeneration: direct and indirect regeneration 10. Modes of plant regeneration: organogenesis and de novo regeneration 11. Micropropagation: principle, methodology and applications 12. Tutorial 13. Somatic embryogenesis: history, methods for somatic embryogenesis 14. Applications of somatic embryos 15. Somaclonal variation: concept and techniques 16. Tutorial 17. Applications of somaclonal variation 18. Germplasm conservation: importance and methodologies 19. Genetic engineering: introduction and history 20. Tutorial 21. Restriction enzymes: basic features, types and mode of action 22. Vectors for plant transformation: basic features of vectors 23. Types of vectors: Plasmid, phagemid, cosmid, etc 24. Tutorial 25. Types of vectors: YAC, BAC, etc 26. Gene transfer methods: direct and indirect 27. AMGT: principle, method 28. Tutorial 29. Applications of AMGT, merits and demerits 30. Direct methods of gene transfer: methods, merits and demerits 31. Gene expression: promoters, terminators, marker sequences 32. Tutorial 33. Selectable marker and Reporter genes 34. Molecular markers: introduction and history 35. PCR based molecular markers: types, merits and demerits 36. Tutorial 37. PCR based molecular markers: comparative study and applications 38. Non-PCR based molecular markers: types, merits and demrits 39. Non-PCR based molecular markers: comparative study and applications 40. Tutorial 41. Applications of Genetic engineering in plant sciences: development of herbicide resistant, disease resistant, stress tolerant plants, etc. 42. Crop improvement programs undertaken with the aid of genetic engineering 43. Genetically modified crops: examples and their characteristics 44. Tutorial 45. Current status of GM crops & products in India, ethical issues associated with commercialisation of GM 46. Environmental risk analysis and assessment of GM crops and products 47. Biosafety guidelines and regulations of GM crops

48. Tutorial

I. Course Articulation Matrix: (Mapping of COs with POs) CORRELATION WITH PROGRAM OUTCOMES CORRELATION WITH PROGRAM SPECIFIC CO STATEMENT OUTCOMES PO PO PO PO PO PO PO 7 PSO 1 PSO 2 PSO 3 1 2 3 4 5 6 [BT 1407.1]. Define the current status of agriculture and food demand in India 1 1 [BT 1407.2]. Understand the scientific, ecological and sociological limitations in agriculture and food production [BT 1407.3]. Select and use different biotechnological tools for solving agriculture and 1 1 2 1 food production problems [BT 1407.4]. Examine and weigh the possible risks and future needs of agriculture 1 3 biotechnologies [BT 1407.5]. Evaluate the ecological, sociological, economical and ethical issues associated 1 2 1 with transgenic plants and their products [BT 1407.6]. Investigate and develop different strategies for production of transgenic 1 1 1 1 varieties of various important cash and food crops of India 1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out

A. Introduction: This course is offered by Dept. of Biosciences as a core course in B.Sc. (Hons.) Biotechnology Programme targeting students who wish to pursue their career in the research field of genome understanding or higher studies in the field of RDT and gene editing. The course offers in depth knowledge of basics techniques, tools and enzymes used in gene transfer, vehicles used in gene editing and DNA different transfer techniques. Students are expected to have background knowledge of the different types of enzymes used in gene editing. B. Course Outcomes: At the end of the course, students will be able to

[BT 1408.1] Define the concepts and techniques necessary to work effectively in a Recombinant DNA Technology [BT 1408.2] Understand the potential benefits and uncertainties associated with gene transfer [BT 1408.3] Understand more about the science that underlies the development of genetically modified organisms and in particular how gene transfer is brought [BT 1408.4] Demonstrate the tools and techniques employed in genetic engineering [BT 1408.5] Delineate the steps used in gene manipulation, gene expression techniques, and recombinant protein development, and relate these processes to current commercial and research applications. [BT 1408.6] To examine basic techniques used in molecular biotechnology. [BT 1408.7] Understand the gene delivery mechanisms [BT 1408.8] Understand the mechanisms behind gene silencing technology and In vitro mutagenesis and deletion techniques

D. Assessment Plan:

E. STLLABUS Basics of Genetic Engineering Technology: Milestones in genetic engineering and biotechnology. Tools of recombinant DNA technology. Restriction modification systems: Types I, II and III. Mode of action, nomenclature. Application of Type II restriction enzymes in genetic engineering. DNA modifying enzymes and their applications. Cloning Vectors: definition and properties: Plasmid, cosmids, phage vectors, BAC, YAC and shuttle vectors. Linkers and adaptors. Transformation of DNA by chemical and physical methods. Methods of gene delivery in plants and animals: Microinjection, biolistic method (gene gun), liposome and viral-mediated delivery. Introduction to GM crops. Amplification of nucleic acids: Polymerase chain reaction- enzymes used, primer design. In vitro mutagenesis and deletion techniques, gene knock out in bacterial and eukaryotic organisms RNAi technology. F. .TEXT BOOKS 1. Gupta, P.K. A Text Book of Cell and Molecular Biology, Rastogi Publications, Merrut, 2012. 2. Singh, B.D. Molecular Biology and Genetic Engineering. Kalyani Publishers, New Delhi, India. 2005. 3. Chaitanya, K.V. Cell and Molecular Biology: A Lab Manual, PHI Publisher, India, 2013.

G. REFERENCE BOOKS 1 Old, R.W. and Primrose, S.B. Principles of gene manipulation: an introduction to genetic engineering, Blackwell Science Publications, New Delhi, 2003. 2. Lewin, B. Genes XII, Oxford University Press, Oxford, New York. 2013 3. Clark. M.S. Plant Molecular Biology - A Laboratory Manual, Springer, USA, 2014.

H. Lecture Plan: LEC TOPICS NO 1. Discussion of syllabi and lecture plan 2. History of Genetic Engineering 3. Basics of Genetic Engineering Technology 4. Tutorial 5. Tools of recombinant DNA technology 6. Restriction modification systems: Types I, II and III 7. Mode of action, nomenclature. Application of Type II restriction enzymes in genetic engineering 8. Tutorial

9. Mode of action, nomenclature. Application of Type II restriction enzymes in genetic engineering 10. DNA modifying enzymes and their applications

11. Tutorial

12. Cloning Vectors: definition and properties 13. Cloning Vectors: definition and properties 14. Plasmid 15. Tutorial 16. Cosmids, phage vectors

17. BAC, YAC and shuttle vectors 18. Tutorial 19. BAC, YAC and shuttle vectors

20. Linkers and adaptors 21. Tutorial 22. Transformation of DNA by chemical and physical methods 23. Transformation of DNA by chemical and physical methods 24. Methods of gene delivery in plants and animals 25. Tutorial 26. Microinjection, biolistic method (gene gun)

27. liposome and viral-mediated delivery

28. Tutorial 29. liposome and viral-mediated delivery

30. Introduction to GM crops

31. Introduction to GM crops 32. Tutorial 33. Amplification of nucleic acids: Polymerase chain reaction 34. Amplification of nucleic acids: Polymerase chain reaction 35. Tutorial 36. primer design 37. RNAi technology 38. RNAi technology 39. Tutorial 40. Applications of RDT 41. In vitro mutagenesis and deletion techniques 42. Tutorial

I. Course Articulation Matrix: (Mapping of COs with POs) CORRELATION WITH PROGRAM OUTCOMES CORRELATION WITH CO STATEMENT PROGRAM SPECIFIC OUTCOMES PO PO PO PO PO PO PO 7 PSO 1 PSO 2 PSO 3 1 2 3 4 5 6 [BT 1408.1] Define the concepts and techniques necessary to work effectively in a 2 Recombinant DNA Technology [BT 1408.2] Understand the potential benefits and uncertainties associated with gene transfer [BT 1408.3] Understand more about the science that underlies the development of 1 genetically modified organisms and in particular how gene transfer is brought [BT 1408.4] Demonstrate the tools and techniques employed in genetic engineering 1 [BT 1408.5] Delineate the steps used in gene manipulation, gene expression 2 techniques, and recombinant protein development, and relate these processes to current commercial and research applications. [BT 1408.6] To examine basic techniques used in molecular biotechnology. 1

[BT 1408.7] Understand the gene delivery mechanisms 1 [BT 1408.8] Understand the mechanisms behind gene silencing technology and In vitro 1 mutagenesis and deletion techniques 1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out

A. Introduction: This course is offered by Dept. of Biosciences as a core course in B.Sc. (pass) Biotechnology, Botany/Bioscience & Chemistry/Psychology and, as a subsidiary course in B.Sc. (Hons) Biotechnology Programme targeting students who wish to pursue their career in the research of Spermatophyta or Angiosperms. The course offers in depth knowledge of distribution, morphology and anatomy of different angiosperms. Students will be able to identify the different forms of plants which are growing in the nearby area. Also, the students will learn about the importance of different tissues of plants and their applications in preparation of food, beverages, fibres, wood, resins etc. Students are expected to have background knowledge of the different types of staining techniques and identification of modifications of plant tissues. B. Course Outcomes: At the end of the course, students will be able to

[BY 1401.1]. Classify the Angiospermic plants of surroundings in Annual, Biennial and Perennial forms [BY 1401.2]. Identify the modification of different parts of angiosperms, which are used in preparation of daily food, oil, fibre, beveragers etc. [BY 1401.3]. Compare different theories of the development of Angiospermic flower and its modifications [BY 1401.4]. Differentiate between the different vascular tissues such as xylem and phloem and discuss their importance to humans as fibres, wood, latex etc. [BY 1401.5]. Investigate the process of floral development from vegetative shoot and difference between monocotyledonous and dicotyledonous plants [BY 1401.6]. Classify different types of woods and investigate its chemical composition for better quality

D. Assessment Plan:

Total 100

NOTE: A minimum of 75% Attendance is required to be maintained by a student to be qualified for taking up the End Semester examination. The allowance of 25% includes all types of leaves including medical leaves.

E. SYLLABUS Morphology: Diversity of plant forms in annuals, biennials and perennials. Evolution of tree habit in monocotyledons and dicotyledons. Characteristics of monocotyledons and dicotyledons. Study of root, stem and leaf (structure and function). Primary and secondary growth, anomalous secondary growth in monocots and dicots. Anatomy: Tissue: simple and complex permanent tissues; types of meristem. Theories of origin of basic body parts of plants: histogen theory, tunica-corpus theory. Cambium, periderm, secretory, laticifer ducts and lenticels. Origin and development of leaf, stem, root system: root hair, branching and its patterns. Comparative anatomy of root, stem and leaf.

F. TEXT BOOKS 1. Singh, V., Pandey, P.C. and Jain, D.K. A Text Book of Angiosperms, Rastogi Publications, Merrut, 2008. 2. Pandey, B.P., Plant Anatomy, S. Chand & Co., New Delhi, 2012, 3. Eames, J. An Introduction to Plant Anatomy, Tata McGraw Hill Publishing Co. Ltd., New Delhi, 1997.

G. REFERENCE BOOKS 1. Grewal, R.C. Plant Anatomy. Campus Books International, New Delhi, 2009. 2. Coulter J. M., Chamberlain C. J. Morphology of angiosperms.. N. Y.: D. Appleton and Company (Digital) New York, 1909. Lecture Plan:

Lecture Topic 1. Introduction to Angiosperms, Scientific names of important crops, fruits, vegetables and medicinal plant 2. Diversity of plant forms in annuals, biennials and perennials and their examples 3. Tutorial 4. Evolution of tree habit in monocotyledons and dicotyledons 5. Morphology of root, types of roots and examples 6. Tutorial 7. Root: Modifications for different functions 8. Roots developed for specific environments, Primary and Secondary functions of roots 9. Tutorial 10. Stem morphology, types of stems and branching, functions of stem 11. Modifications of stems 12. Tutorial 13. Morphology of Leaf: Phyllotaxy, Venetion and types of stipule 14. Modifications of leaf for specific functions 15. Tutorial 16. Morphology of Flower, types of aestivation, parts of flower 17. Plant tissues: definition, types of tissues, classification 18. Tutorial 19. Apical meristem: theories of shoot apical meristem 20. Theories of Root apical meristem 21. Tutorial 22. Simple tissue characteristic features, modifications and function 23. Parenchyma, Collenchyma & Sclerenchyma 24. Tutorial 25. Fibres: Xylary fibres, extraxyllary fibres, slcerides 26. Complex tissues: Xylem and phloem, characteristic features, different parts and major functions 27. Tutorial 28. Cambium, periderm, secretory glands, laticifer ducts and lenticels 29. Secondary growth in dicots: activity of vascular and cork cambium 30. Tutorial 31. Anomalous secondary growth in monocots and dicots 32. Specific structures: Root hairs, stomata, bulliform cells 33. Tutorial 34. Primary tissues of root, stem and leaves 35. Comparative anatomy: Dicot and monocot root, stem and leaf 36. Tutorial

H. Course Articulation Matrix: (Mapping of COs with POs)

CORRELATION WITH PROGRAM CORRELATION WITH CO STATEMENT OUTCOMES PROGRAM SPECIFIC OUTCOMES PO PO PO PO PO PO PO 7 PSO 1 PSO 2 PSO 3 1 2 3 4 5 6 [BY 1401.1]. Classify the Angiospermic plants of surroundings in 3 1 Annual, Biennial and Perennial forms [BY 1401.2]. Identify the modification of different parts of 1 2 angiosperms, which are used in preparation of daily food, oil, fibre, beveragers etc. [BY 1401.3]. Compare different theories of the development of Angiospermic flower and its modifications [BY 1401.4]. Differentiate between the different vascular tissues 1 such as xylem and phloem and discuss their importance to humans as fibres, wood, latex etc. [BY 1401.5]. Investigate the process of floral development from 1 2 vegetative shoot and difference between monocotyledonous and dicotyledonous plants [BY 1401.6]. Classify different types of woods and investigate its 1 chemical composition for better quality 1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out

A. Introduction: This course is offered by Dept. of Biosciences as a core course in B.Sc. (pass) Biotechnology and, as a subsidiary course in B.Sc. (Hons) Biotechnology Programme targeting students who wish to pursue their career in the research field of instrumentation techniques or higher studies in the field of experimentation related to use and applications of various instruments. The course offers in depth knowledge of instruments like pH meter, electrophoresis unit, chromatography, centrifugation etc. Students are expected to have background knowledge of the different types of instruments. B. Course Outcomes: At the end of the course, students will be able to: [BY1402.1] State the principle of various analytical instruments used in life sciences for analysis of different biological samples [BY1402.2] Explain the working of different types of biological instruments [BY1402.3] Apply different biological techniques for analysing different types of biological samples [BY1402.4] Distinguish between different types of spectrophotometric and electrophoretic techniques [BY1402.5] Select appropriate technique for analysing different types of samples such as biomolecules, plant and animal tissues, etc [BY1402.6] Investigate the nature and activity of different biomolecules using spectrophotometric, electrophoretic and microscopic techniques

D. Assessment Plan:

E. SYLLABUS Microscopy: light microscope- resolution and visibility, types, applications of microscopes. pH meter: calibration and standardization of pH meter, calibration of colorimeter, calibration curve, principle, description and application of colorimeter. Electrophoresis: principle, types, horizontal, vertical and two dimensional gel electrophoresis. Spectroscopy: principle and law of absorption- Beer -Lambert’s law, UV- visible spectroscopy. Chromatography: principle, types - paper, thin layer, adsorption, ion-exchange, affinity, gel filtration, gas and HPLC, ion exchange chromatography. Centrifugation: principle of sedimentation, types and uses, different types of rotors and autoradiography. F. .TEXT BOOKS 1. Ghatak, K. Techniques and Methods in Biology, PHI Learning Pvt. Ltd., New Delhi, 2011. 2. Rana, S.V.S. Biotechniques: Theory and Practice, Rastogi Publications, Meerut, 2007 G. REFERENCE BOOKS 1 Willard H.and Merrit, H. Instrumental Methods of Analysis, Prentice Hall India Publications, New Delhi, 2008. 2. Skoog, D. Instrumental Methods of Analysis, International Thomson Computer Press, UK, 2007.

H. Lecture Plan: LEC TOPICS NO 1. Discussion of syllabi and lecture plan 2. History of Electrophoresis 3. Electrophoresis: principle of horizontal gel electrophoresis 4. Tutorial 5. Buffers and their role in agarose gel electrophoresis 6. Methodology and applications of agarose gel electrophoresis 7. Electrophoresis: principle of vertical gel electrophoresis

8. Tutorial

9. Buffers and their role in Vertical gel electrophoresis 10. Methodology and applications of vertical gel electrophoresis

11. Tutorial

12. Two dimensional gel electrophoresis 13. Microscopy: light microscope: Principle 14. resolution and visibility of light microscope 15. Tutorial 16. Types of microscopes

17. Applications of microscopes 18. Tutorial 19. pH meter: Principle and calibration of pH meter

20. Standardization and applications of pH meter 21. Tutorial 22. Calibration of colorimeter, calibration curve, principle, description and applications 23. Spectroscopy: principle and law of absorption- Beer -Lambert’s law 24. UV-visible spectroscopy and its applications 25. Tutorial 26. Chromatography: principle

27. Paper and thin layer chromatography

28. Tutorial 29. Adsorption chromatography and its applications

30. ion-exchange, affinity chromatography and its applications

31. gel filtration and gas chromatography and its applications 32. Tutorial 33. ion exchange chromatography and its applications 34. HPLC and its applications 35. Tutorial 36. Centrifugation: principle 37. Types of Centrifuge 38. Different types of rotors and applications of centrifuge 39. Tutorial 40. Autoradiography and principle 41. Autoradiography and its applications 42. Tutorial

I. Course Articulation Matrix: (Mapping of COs with POs) CORRELATION WITH PROGRAM OUTCOMES CORRELATION WITH CO STATEMENT PROGRAM SPECIFIC OUTCOMES PO PO PO PO PO PO PO 7 PSO 1 PSO 2 PSO 3 1 2 3 4 5 6 [BY 1402.1] State the principle of various analytical 1 instruments used in life sciences for analysis of different biological samples [BY 1402.2] Explain the working of different types of 1 biological instruments [BY 1402.3] Apply different biological techniques for 1 1 analysing different types of biological samples [BY 1402.4] Distinguish between different types of 1 spectrophotometric and electrophoretic techniques [BY 1402.5] Select appropriate technique for analysing 1 1 different types of samples such as biomolecules, plant and animal tissues, etc [BY 1402.6] Investigate the nature and activity of 1 2 different biomolecules using spectrophotometric, electrophoretic and microscopic techniques 1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out Animal Cell Culture Techniques | BT 1507 | 4 Credits | 3 1 0 4

Session: Aug 17 – Nov 17 | Faculty: Dr. Dakal TC | Class: Core Course

[PSO.1]. To demonstrate competency in factual content and interpretation of the major biological concept areas of cell and molecular biology, genetics, organismal biology, and evolution and ecology. [PSO.2]. To demonstrate the ability to identify significant biological research questions, develop research protocols, and properly analyze research questions through the use of the scientific method. [PSO.3]. Enhance analytical and quantitative skills and demonstrate an understanding of basic computational and statistical techniques in the field of Biotechnology

D. Assessment Plan:

E. SYLLABUS Structure and organization of animal cell: equipment and materials for animal cell culture technology, types of animal cell culture: Organ and histotypic cultures, introduction to the balance salt solutions and simple growth medium, brief discussion on culture medium: role of carbon dioxide, serum and other supplements. Serum and protein free defined media and their applications. Measurement of viability and cytotoxicity, biology and characterization of cultured cells and measuring parameters of growth. Antibody production and hybridoma technology: Applications of monoclonal antibodies. Basic techniques of in vitro mammalian cell culture: disaggregation of tissue and primary culture; maintenance of cell lines and cell cultures; cell separation, Somatic cell cloning, micromanipulation and types of cloning. Stem cell: origin, functions and types. Cell culture based vaccines, gene therapy, case studies of Swine flu, Congo fever and Parkinson’s disease F. TEXT BOOKS 1. Ramadass P. and Meera R. S. Text Book of Animal Biotechnology, Akshara Printers, New Delhi, 1997. 2. Mathur S. Animal Cell and Tissue Culture, Agrobios, India, New Delhi, 2009. 3. Singh B. D.. Biotechnology, Kalyani Press, New Delhi, 2012.. G. REFERENCE BOOKS 1 Freshney R. Culture of Animal Cells, Wiley Publishing Inc., USA, 2010. 2. Butler M.. Animal Cell Culture and Technology, Bios Scientific Publishers Ltd. U.K., 2008. H. Lecture Plan:

LEC NO TOPICS 1 Animal Cell Culture – introduction 2 ACC –history from1950s until today 3 Important initial major contributions in ACC 4 Tutorial 5 Structure of animal cells 6 Difference between animal cells and plant cells as well as prokaryotic cells 7 ACC lab design 8 Tutorial 9 Instruments in ACC labs 10 Glass wares and plastic wares used in ACC labs 11 Problems associated with mycoplasma and other contaminations in ACC 12 Tutorial 13 Cell culture media- Minimal essential media, chemically defined, serum free media 14 Composition of cell culture media 15 Different culturing conditions and their effect on cell growth and proliferation 16 Tutorial 17 Cell culture- organ culture 18 Cell culture- histotypic culture 19 Isolation of cells from mouse and chick embryo 20 Tutorial 21 Cell disaggregation: physical, chemical and enzymatic 22 Cold and warm trypsinization 23 Subculturing 24 Tutorial 25 Cell culture- adherent culture/monolayer culture 26 Cell culture- suspension culture 27 Systems for adherent and suspension culture 28 Tutorial 29 Serum free media and its application 30 Protein free media and its application 31 Adaptation of cells to serum free conditions 32 Tutorial 33 Characterization of cell lines- introduction 34 Chromosomal banding 35 DNA hybridization 36 Tutorial 37 Flowcytometry/FACS analysis 38 Isoenzyme analysis 39 Immunological techniques 40 Tutorial 41 Cryopreservation of cells 42 Proliferation and survival assay 43 Transfection of animal cells 44 Tutorial 45 Antibody culture- mAb production (hydridoma technology) 46 Somatic cell cloning & Stem cells: origin and function 47 Vaccines, gene therapy for infectious diseases 48 Tutorial

I. Course Articulation Matrix: (Mapping of COs with POs) CORRELATION WITH PROGRAM OUTCOMES CORRELATION WITH PROGRAM SPECIFIC CO STATEMENT OUTCOMES PO PO PO PO PO PO PO 7 PSO 1 PSO 2 PSO 3 1 2 3 4 5 6 [BT 1507.1]. Recall background history and major contributions in the field of animal 1 2 1 1 cell culture and related techniques. [BT 1507.2]. List important developments in the field of formulation of culture media 1 1 1 1 1 such as minimal essential media, chemically defined media, serum-free media etc. [BT 1507.3]. Define utility of basic laboratory instruments routinely used in culture of 1 1 1 1 1 2 animal/mammalian cells such as Biosafety cabinet class II, CO2 incubator, inverted microscope, liquid N2 etc [BT 1507.4]. Describe all protocols and procedures related with isolation of 1 2 3 1 tissues/cells from an organ or embryo, cell disaggregation and subculturing. [BT 1507.5]. Differentiate methods of characterization of an animal cell line using 2 1 1 2 1 3 2 Chromosome banding, DNA hybridization, isoenzyme analysis, flowcytometry etc. [BT 1507.6]. Analyse different techniques basically used routinely in an animal cell 1 1 1 1 1 culture lab such as proliferation assay, survival assay, transfection, immunoblotting, Co-IP, immunofluorescene etc. [BT 1507.7]. Investigate about applications of stem cells in cell culture based 2 1 1 1 2 2 biotherapeutics. 1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out

A. Introduction: This course is offered by Dept. of Biosciences as a core course in B.Sc. (Hons.) Biotechnology Programme targeting students who wish to pursue their career in the research Biotechnology or higher studies in the field of Recombinant DNA technology and Gene Manipulation. The course offers rules and regulations of Biotechnology, various social and legal issues in Biotechnology, ethical issues, controversy in biotechnological products and various Intellectual property rights etc. Students are expected to have background knowledge of the various techniques used in biotechnology to produce goods and services. B. Course Outcomes: At the end of the course, students will be able to:

[BT 1509.1] Define scientific, ethical, social and legal issues arising from the development of biotechnology [BT 1509.2] Classify relevant skills of reasoning to arrive at appropriate conclusions concerning the development of biotechnology [BT 1509.3] Implement Intellectual Property Rights to take measure for the protection of their ideas/ innovation [BT 1509.4] Distinguish business strategies by taking account of IPRs [BT 1509.5] Critically evaluate the values of genetically modified organisms and its effect on human health and on environment [BT 1509.6] Investigate public Perceptions during the regulatory affairs

D. Assessment Plan:

E. SYLLABUS

Process validation, regulation of biotechnology. History of patent law, Copyright, Trademark, Fair use, Open access publishing, Gene patents and Ethical issues, Plant breeder’s rights, Indigenous intellectual property, Criticism of intellectual property, Plagiarism. Intellectual property rights and patenting of products and processes. Ethical issues, society and public perception towards biotechnology. Release of genetically modified organisms. International and Indian Scenario. Designing of manufacturing area, GMP, FAO requirements. Biosafety: Good lab practices, Biosafety for human health and environment, Gene pollution, Biological invasion, Risk Assessment of GMOs, Biological warfare, CDC Biosafety levels.

F. Text Books:

1. Fleming, D.O. and Hunt, D.L. Biological Safety: Principles and Practices, American Society for Microbiology, USA, 2006.

2. Shannon, T.A. An Introduction to Bioethics, Paulist Press, USA, 2009. G. Reference Books:

1. Rockman, H.B. Intellectual Property Law for Engineers and Scientists. Wiley-IEEE Press, USA, 2004.

2. Vaughn, L. Bioethics: Principles, Issues, and Cases, Oxford University Press, UK, 2009.

3. WHO. Laboratory Biosafety Manual, World Health Organization, 2005. H. Lecture Plan: LEC TOPICS NO 1. Discussion of syllabi and lecture plan 2. Ethical issues in Biotechnology 3. Public perception towards biotechnology 4. Tutorial 5. Process validation 6. Regulation of biotechnology 7. Regulatory bodies of Biotechnology 8. Tutorial 9. History of patent law, Patent 10. Amendments in Patents 11. Tutorial 12. Copyright 13. Trademark 14. Tutorial 15. Open access publishing, Fair use 16. Gene patents 17. Tutorial 18. Intellectual property rights 19. Indigenous intellectual property 20. Plant breeder’s rights, Criticism of intellectual property 21. Tutorial 22. Plagiarism 23. Release of genetically modified organisms 24. Tutorial 25. International and Indian Scenario in respect of Biotechnological products 26. Designing of manufacturing area 27. Tutorial 28. GMP, FAO requirements 29. Biosafety: Good lab practices 30. Tutorial 31. Biosafety for human health and environment 32. Biosafety for environment 33. Gene pollution 34. Tutorial 35. Biological invasion 36. Risk Assessment of GMOs 37. Tutorial 38. Biological warfare 39. CDC Biosafety levels 40. Tutorial

I. Course Articulation Matrix: (Mapping of COs with POs)

CORRELATION WITH PROGRAM OUTCOMES CORRELATION WITH CO STATEMENT PROGRAM SPECIFIC OUTCOMES PO 1 PO 2 PO 3 PO PO PO PO7 PSO 1 PSO 2 PSO 3 4 5 6 [BT 1509.1] Define scientific, ethical, social and legal issues arising from the development of 1 2 biotechnology

[BT 1509.2] Classify relevant skills of reasoning to arrive at appropriate conclusions 1 1 concerning the development of biotechnology [BT 1509.3] Implement Intellectual Property Rights to take measure for the protection of 1 1 1 their ideas/ innovation [BT 1509.4] Distinguish business strategies by taking account of IPRs [BT 1509.5] To critically evaluate the values of genetically modified organisms and its effect 1 1 1 2 1 on human health and on environment [BT 1509.6] Investigate public Perceptions during the regulatory affairs 1 2 1 1 1 1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out Plant Physiology| BY 1501 | 3 Credits | 2 1 0 3

Session: Aug 17 – Dec. 17 | Faculty: Dr. Sharma Madan Mohan | Class: Core Course

[BY 1501.1]. Define physiological mechanisms involved in the uptake and transport of water and the translocation of food by plants. [BY 1501.2]. Identify mechanisms for procurement of mineral ions by plants and mineral nutrition and the role these minerals play in organic molecule synthesis and use. [BY 1501.3]. Demonstrate interrelationships among plants and micro-organisms, symbiosis in nitrogen and phosphorous acquisition by plants [BY 1501.4]. Relate different factors involved in water absorption (like DPD, OP, TP etc.) and the role of environmental and plant factors in photosynthesis and influence upon carbon metabolism in plants (e.g. with respect to alternative fixation pathways photoinhibition, and photorespiration) [BY 1501.5]. Evaluate major effects on physiological and biochemical mechanisms of growth regulators (hormones) in plants. [BY 1501.6]. Construct growth curve for investigating the growth pattern.

C. PROGRAM OUTCOMES AND PROGRAM SPECIFIC OUTCOMES

D. Assessment Plan:

E. SYLLABUS

Plant cell-water relations, water and mineral absorption, transpiration, guttation, mineral nutrition- essential micro and macro nutrients, deficiency of minerals; nitrogen metabolism. Photosynthesis: chloroplast structure, photosynthetic pigments, photosystems, photophosphorylation, Calvin cycle, C4 pathway, CAM, photorespiration. Respiration: RQ, ATP- the biological energy currency, glycolysis, Kreb’s cycle, Electron transport mechanism, oxidative phosphorylation, pentose phosphate pathway. Growth and development: Plant growth regulators- Auxins, Gibberellins, Cytokinins, Abscisic acid- general symptoms and their applications. Ethylene: biosynthesis, chemistry, its applications. Physiology of flowering: photoperiodism and vernalization, growth movements. Abscission and senescence.

F. TEXT BOOKS 1. Verma, S.K. Plant Physiology and Biochemistry, S. Chand & Sons, New Delhi, 2012. 2. Devlin, R.M. Plant Physiology, East-West Press Pvt. Ltd. New Delhi, 1997.

G. REFERENCE BOOKS 1. Hopkins, W.G. Introduction to Plant Physiology, John Wiley & Sons Inc. New York, USA, 1995. 2. Taiz, L. and Zieger, E. Plant Physiology, Sinauer Associates, Inc., Publishers, Massachusetts, USA, 2010. H. Lecture Plan:

Lecture Topic 1. Plant cell water relations (TP,OP,WP,SP), physical properties of water 2. Water absorption 3. Tutorial 4. Mineral absorption 5. Transportation of water and mineral 6. Tutorial 7. Transpiration, Structure of stomata and mechanism, factors affecting Transpiration 8. Guttation, comparison with transpiration 9. Tutorial 10. Mineral nutrition- essential micro and macro nutrients 11. Deficiency of minerals and their effects in plants 13. Tutorial 14. Nitrogen metabolism 15. Photosynthesis: Photosynthetic pigment, Cholroplast structure 16. Tutorial 16. Photosystems and their structure, Mechanism of Photosynthesis, 17. Photophosphorylation- Cyclic and non-cyclic photophosphorylation 18. Tutorial 19. Calvin Cycle (C4 cycle) 20. Regulation of Calvin cycle, Photorespiration 21. Tutorial 22. CAM Cycle, Factors affecting rate of Photosynthesis. 23. Respiration, RQ, ATP structure and their functions 24. Tutorial 25. Glycolysis and its regulation, Structure and mechanism of Pyruvate dehydrogenase complex. 26. Krebs (TCA) cycle and its regulation 27. Tutorial 28. Pentose Phosphate pathway and its regulation. 29. Electron transport mechanism and inhibitors, Oxidative Phosphorylation 30. Plant Hormones: Auxin, general description and applications 31. Tutorial 32. Gibberellin, general description and applications 33. Cytokinin and Abscisic acid, general description, synthesis, regulation and application 34. Tutorial 35. Ethylene, general description and applications 36. Abscission and Senescence: their mechanism and involved factors 37 Tutorial 38 Physiology of flowering, Proteins involved in flowering and their function and signaling. 39 Photoperiodism: circadian rhythm. Proteins involved in photoperiodism. 40 Vernalization and growth movements:Tactic and Nastic movements 41 Tutorial

I. Course Articulation Matrix: (Mapping of COs with POs) CORRELATION WITH PROGRAM OUTCOMES CORRELATION WITH PROGRAM SPECIFIC CO STATEMENT OUTCOMES PO PO 2 PO PO 4 PO 5 PO 6 PO 7 PSO 1 PSO 2 PSO 3 1 3 [BY 1501.1]. Define physiological mechanisms involved in the 1 uptake and transport of water and the translocation of food by plants [BY 1501.2]. Identify mechanisms for procurement of mineral 1 ions by plants and mineral nutrition and the role these minerals play in organic molecule synthesis and use.

[BY 1501.3]. Demonstrate interrelationships among plants and 1 2 micro-organisms, symbiosis in nitrogen and phosphorous acquisition by plants

[BY 1501.4]. Relate different factors involved in water 1 absorption (like DPD, OP, TP etc.) and the role of environmental and plant factors in photosynthesis and influence upon carbon metabolism in plants (e.g. with respect to alternative fixation pathways photoinhibition, and photorespiration)

[BY 1501.5]. Evaluate major effects on physiological and 1 1 1 biochemical mechanisms of growth regulators (hormones) in plants

[BY 1501.6]. Construct growth curve for investigating the 1 growth pattern 1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation

MANIPAL UNIVERSITY JAIPUR School of Basic Sciences Department of Biosciences Course Hand-out Plant Breeding| BY 1502 | 3 Credits | 2 1 0 3

Session: Aug 17 – Nov 17 | Faculty: Dr. Jain Rohit | Class: Core Course

[BY 1502.1]. Understand the scope of plant breeding and developmental concepts of gene pool and primary origin of the important crops. [BY 1502.2]. Discuss the importance of mass selection, hybridization and pure line selection for development of improved crop varieties. [BY 1502.3]. Demonstrate the process of hybrid vigour and inbreeding depression and its practical application in crop improvement programs. [BY 1502.4]. List the renowned plant breeders of India and their work in the field of plant breeding. [BY 1502.5]. Apply the process of genotyping and phenotyping using Hardy-Weinberg’s equilibrium in agri- crops [BY 1502.6]. Describe how mode of pollination, fertilization, and reproduction affects the ability to manipulate genetic variation. [BY 1502.7]. Investigate the pattern of heredity using the laws of population genetics in the field grown crops for better production.

C. PROGRAM OUTCOMES AND PROGRAM SPECIFIC OUTCOMES

D. Assessment Plan:

E. SYLLABUS

History, introduction and scope of plant breeding, methods of plant breeding: selection, pedigree analysis, acclimatization, hybridization, heterosis and inbreeding depression. Renowned Indian and international plant breeders. Contributions of National and International institutes of plant breeding and centers for plant breeding. Brief account of mass selection, pure line and clonal selection, mutation and polyploidy breeding. Molecular marker systems: identification, utilization and integration in plant breeding programs.

F. TEXT BOOKS 1. Singh, B.D. Plant Breeding, Kalyani Publishers, New Delhi, 2011. 2. Gupta, P.K.. Genetics and Plant Breeding, Rastogi Publications, Meerut, 2011.

G. REFERENCE BOOKS 1. Allard, R.A. Principles of Plant Breeding, John Wiley & Sons, New York, 1999. 2. Acquaah, G. Principles of Plant Genetics and Breeding, Wiley Blackwell, New York, 2012.

H. Lecture Plan:

Lecture Topic 1. History of Plant Breeding in India and major phases 2. Nature and Scope of plant breeding 3. Tutorial 4. Germ plasm and its conservation strategies 5. Plant introduction : Procurement of plant material from different locations 6. Tutorial 7. Concept of gene pool and its importance 8. Centres of origin and diversity of important crops 9. Tutorial 10. Basic statistical methods used in plant breeding – mean, mode, median, genotype and phenotype frequency, allelic frequency 11. Mechanism of Pyruvate dehydrogenase complex, krebs(TCA) cycle and its regulation 12. Tutorial 13. Methods used in plant breeding: Selection in cross and self pollinated crops 14. Hybridization and its applications in development of new varaities 15. Tutorial 16. Pure line selection on the basis of pure line theory 17. Hybrid vigor (heterosis) and inbreeding depression in self pollinated crops 18. Tutorial 19. Renowned Indian and international plant breeders. Contributions of National and International institutes of plant breeding 20. Clonal selection in plant breeding 21. Tutorial 22. Mutations and poly ploidy breeding method 23. Application of molecular markers in crop improvement 24. Tutorial 25. Molecular markers- RFLP, AFLP, RAPD, ISSR, SSR, SNPs 26. Marker assisted selection in crop development 27. Tutorial 28. Population genetics and its importance to plant breeding 29. Hardy-Weinberg’s law and equilibrium 30. Tutorial 31. Genetic drift and its effect on gene pool 32. Pedigree analysis for selection of improved varieties 33. Tutorial 34. Development of high yielding Wheat, Rice and Maise 35. Contribution of Norman Borloug and M.S. Swaminathan in the field of crop improvement 36. Tutorial

I. Course Articulation Matrix: (Mapping of COs with POs) CORRELATION WITH PROGRAM CORRELATION WITH OUTCOMES PROGRAM SPECIFIC CO STATEMENT OUTCOMES PO PO PO PO PO PO PO 7 PSO PSO 2 PSO 3 1 2 3 4 5 6 1 [BY 1502.1]. Understand the scope of plant breeding and developmental 2 concepts of gene pool and primary origin of the important crops. [BY 1502.2]. Discuss the importance of mass selection, hybridization and 1 pure line selection for development of improved crop varieties. [BY 1502.3]. Demonstrate the process of hybrid vigour and inbreeding depression and its practical application in crop improvement programs. [BY 1502.4]. List the renowned plant breeders of India and their work in 1 the field of plant breeding. [BY 1502.5]. Apply the process of genotyping and phenotyping using 2 Hardy-Weinberg’s equilibrium in agri-crops [BY 1502.6]. Describe how mode of pollination, fertilization, and 1 reproduction affects the ability to manipulate genetic variation. [BY 1502.7]. Investigate the pattern of heredity using the laws of 1 1 2 population genetics in the field grown crops for better production. 1- Low Correlation; 2- Moderate Correlation; 3- Substantial Correlation