M.Sc I Sem I

M.Sc. Microbiology Semester 1

Syllabus : M.Sc Microbiology Syllabus

Paper 1:

Microbial Metabolism (MM)

(Name of the Teacher: M. G. Ingale)

1. Mayur Ingale is inviting you to a scheduled Zoom meeting.

Topic: M.Sc Microbiology (Sem I) Lecture

Time: Feb 1, 2021 12:00 PM India

Join Zoom Meeting

https://us04web.zoom.us/j/79979727431?pwd=WHVrVitkU2JSMDNiTndraUZsZ2p1Zz09

Meeting ID: 799 7972 7431

Passcode: Ln22iv

Links for Ebook:

1. Brock biology of microbes

2. Biochemistry by Lippincot

3. Harpers biochemistry

4. Lehninger

5. Biochemitry by stryer

6. Fundamentals of Biochemistry by J.L. Jain

Links for Study material:

UNIT-I: - Bioenergetics and metabolism

1. Concept of entropy, enthalpy & redox potential

2. ATP as energy currency

3. Gylcolysis

4. TCA Cycle

5. Coupled reactions

6. Oxidative phosphorylation

7. Biological energy transducers

8. Biosynthesis of bacterial peptidoglycan

9. Membrane lipids, biosynthesis of membrane phospholipids

Links for Study material:

UNIT-II: - Proteins and Nucleic acids

1. Characteristics of alpha-helix and β-sheets

2. Concept of protein domain and motif

UNIT-III: - Photosynthesis

1. Oxygenic & anoxygenic photosynthesis

2. CO₂ fixation-C3, C4 and CAM pathways

3. Chemolithotrophy:- Hydrogen oxidation and autotrophy in hydrogen bacteria

4. Iron oxidation.

5. Bioluminiscence

UNIT-IV:-Nitrogen and Sulphur metabolism and methanogenesis.

1. Nitrogen Cycle

2. Nitrogen fixation: Symbiotic, nonsymbiotic

3. Annamox

4. Sulfate reduction

5. Acetogenesis

6. Methanogenesis

Links for Video lecture:

UNIT-III: - Photosynthesis

1. Oxygenic photosynthesis

2. Anoxygenic photosynthesis

3. CO2 fixation: C3 Pathway part 1

4. CO2 fixation: C3 Pathway part 2

5. CO2 fixation: C4 pathway

6. CO2 fixation: CAM pathway

7. Chemolithotrophy:- Hydrogen oxidation and autotrophy in hydrogen bacteria

8. Iron oxidation

9. Bioluminiscence

UNIT-IV:-Nitrogen and Sulphur metabolism and methanogenesis.

1. Methanogennesis

2. Methanogenessis part 2

3. Acetogenesis part 1

Paper : II

Enzymology and Techniques (ET)

Name of the Teacher : Dr. Bhavana V. Mohite

Zoom online lecture:

Join Zoom Meeting, Recurring Meeting

https://us04web.zoom.us/j/78964849901?pwd=L1ByaTdBeHp1a045dS9LeXN6ZFlJZz09

Meeting ID: 78964849901

Passcode: TJbPa2

Day 1: 4th February 2021, 4.00 pm : Introduction to Syllabus

Unit I: Catalytic Mechanisms

Day 2: 5th February 2021, 2.00 pm :

Day 3: 6th February 2021, 12.30 pm :

Day 4: 8th February 2021, 3.00 pm :

Day 5: 9th February 2021, 3.30 pm :

Day 6: 10th February 2021, 12.00 pm :

Day 7: 11th February 2021, 3.00 pm :

Day 8: 12th February 2021, 3.00 pm :

Day 9: 13th February 2021, 12.00 pm :

Day 10: 15th February 2021, 12.00 pm :

Unit Test I : 15th March 2021, 4.00 Pm

Assignment II :Classification and Types of Enzyme (Last Date of Submission 22nd March 20201)

Unit II: Catalytic Mechanisms

Day 11: 16th February 2021, 3.00 pm :

Day 12: 17th February 2021, 12.00 pm :

Day 13: 18th February 2021, 3.00 pm :

Day 14: 20th February 2021, 12.30 pm :

Day 15: 23th February 2021, 12.00 pm :

Day 16: 24th February 2021, 3.00 pm :

Day 17: 25h February 2021, 3.00 pm :

Day 17: 26h February 2021, 3.00 pm :

Day 18: 27h February 2021, 9.00 am :

Day 19: 2 March 2021, 12.00 pm :

Assignment I : Types of Enzyme catalysis Mechanism (Last Date of Submission 8th March 20201)

Unit Test II : 25th March 2021, 4.00 Pm

Unit IV: Techniques

Day 20: 4 March 2021, 1.10 pm :

Day 21: 6 March 2021, 12.30 pm :

Day 22: 8 March 2021, 11.30 am :

Day 23 10 March 2021, 10.30 am :

Day 24: 12 March 2021, 12.00 pm :

Day 25: 15 March 2021, 10.30 am :

Day 26: 16 March 2021, 3.30 pm :

Day 27: 17 March 2021, 02.00 pm :

Day 28: 18 March 2021, 12.00 pm :

Day 29: 19 March 2021, 02.30 pm :

Day 30: 20 March 2021, 12.00 pm :

Day 31: 22 March 2021, 3.00 pm : Ion Exchange Chromatography for protein purification

Day 32: 23 March 2021, 3.00 pm : Gel Electrophoresis for protein Purification

Day 33: 24 March 2021, 11.30 am Isoelectrofocussing for protein purification

Day 34: 26th March 2021, 12.00 pm Affinity Chromatography, HPLC and Mass spectromerty for protein purification

Day 35: 31st March 2021, 3.00 pm Enzyme Assays

Day 36: 1st April 2021, 3.00 pm Direct Enzyme Assays

Day 37: 7th April 2021, 1.00 pm Spectrophotometric and flurometric assays

Day 38: 8th April 2021, 11.00 am Calorimetric, Polarometric and discontinuous Assay

Day 39: 15th April 2021, 1.00 pm General Concepts of Biosensor

Day 40: 21st April 2021, 1.00 pm Glucose biosensor (Part 1)

Glucose biosensor (Part 2)

Day 41: 28th April 2021, 12.00 pm Applications of biosensor and challenges

Day 42: 29th April 2021, 3.00 pm Industrial applications of enzymes

Day 43: 5th May 2021, 11.00am Introduction, objectives of Protein engineering

Day 44: 6th May 2021, 12.00 pm Steps of Protein engineering

Assignment III: Unit 4 Techniques (Last date of submission 13th May 2021)

Unit Test III: 12th May 2021 12.00 pm

Day 45: 13th April 2021, 12.00 pm Protein engineering methods

Day 46: 19th April 2021, 12.00 pm Protein engineering methods (Part 2)

Day 47: 20th April 2021, 12.00 pm Discussion on Test

Unit Test IV: 27th May 2021, 3.00 pm

Unit III: Enzyme Kinetics and Regulation

Day 48: 2nd June 2021, 3.00 pm Michaelis Menten Equation

Day 49: 3rd June 2021, 400 pm Michaelis Menten equation and its transformation in LB plot

Day 50: 4th June 2021, Enzyme Inhibition kinetics and its Types

Day 51: 4th June 2021, Enzyme Inhibition kinetics and its Types 2

Day 52: 7th June 2021, Bi substrate kinetics

Day 53: 8th June 2021, Multisubstrate kinetics

Day 54: 10th June 2021 Allosteric regulation

Day 55: 9th June 2021, Feedback Inhibition and Allosteric regulation

Day 56: 11th June 2021 Allosteric kinetics Covalent Modification

Study Material

Unit I: Catalytic Mechanisms

Study Material on Enzyme Introduction, Catalytic Activity, active site models

Study Material on Classification of Enzymes

Online Study Material on Enzyme terminologies, nomenclature and classification

Study Material on memberane bound and marker enzymes

Study Material on Multienzyme

Study Material on Multienzyme Complex

Study Material on Marker Enzymes

Study Material on Enzyme Types and catalysis

Study Material on Unit 1

Video links

Unit II: Catalytic Mechanisms

Online Study Material on Types of Mechanism of Catalysis

Online study Material on Enzyme catalysis Mechanism

Study Material on Serine Protease

Online Study Material on Enzyme Mechanism Serine Protease

Online Study material on Serine ProteaseStudy Material on Serine Protease 1

Study Material on Lysozyme

Online Study Material on Mechanism of Lysozyme

Online Study Material on Lysozyme

Study Material on Lysozyme

Link for Presentations

Unit IV: Techniques

Study Material on Purification of Proteins

Study Material on General Strategy for Purification of Enzymes

Study Material on enzyme production and Purification m

Study Material on Purification of Enzymes

Study Material on Isolation, Purification and characterization of enzymes

Study Material on Enzyme assays

Study Material on Enzyme assays 1

Study Material on Enzyme assays 2

Study Material on Protein Ligand binding studies

Study Material on Oxygen binding by Myoglobin and Haemoglobin

Study Material on MWC and Sequential model

Study Material on ligand Binding

Online study material on Glucose biosensor

Online study material on Biosensors

Study Material on Biosensors 1

Study Material on Industrial applications of enzyme

Study Material on Industrial applications of enzyme 2

Online study Material on Protein Engineering

Online study material on Protein Engineering 2

Unit III: Enzyme Kinetics and Regulation

Study Material on MM equation derivation and plot, its Transformation to other plots

Study Material on Derivation of Michaelis Menten equation

Study Material on Enzyme Inhibition Types

Study Material on Enzyme Inhibition kinetics

Study Material on Bisubstrate kinetics

Study Material on Regulatory Enzyme

Study Material Allosteric regulation , feedback inhibition, Covalent Modification

Study Material on MWC and Sequential model

Study Material on Kinetics of Allosteric enzyme

e book

• Molecular Cell Biology. 4th edition by Lodish H, Berk A, Zipursky SL, et al.

• Enzymes: Biochemistry, Biotechnology, Clinical Chemistry By T Palmer and P L Bonner

• Understanding Enzymes by Trevor Palmer

• Enzymes A practical Introduction to structure, mechanism and data analysis by Robert Copeland 2nd edition

PRACTICAL-I

PG- MB (08) - S1-P1

LABORATORY EXERCISE 1

Demonstration Videos

• Determination of kinetic constant of amylase:-Amylase activity, Vmax, Km.

https://www.youtube.com/watch?v=8NzyAXnNFGo

• Effect of pH and temperature on amylase activity.

https://www.youtube.com/watch?v=JUQExVhugFI

https://www.youtube.com/watch?v=CWt7Lg-QhjM

• UV absorption of proteins, DNA and RNA.

https://www.thermofisher.com/in/en/home/industrial/spectroscopy-elemental-isotope-analysis/molecular-spectroscopy/ultraviolet-visible-visible-spectrophotometry-uv-vis-vis/uv-vis-vis-instruments/nanodrop-microvolume-spectrophotometers/nanodrop-one-distinguishes-dna-rna.html

https://www.youtube.com/watch?v=VGXVbpyWsmY

• Estimation of protein by Lowry’smethod.

https://www.youtube.com/watch?v=QN2AfWJjW0s

• Effect of inhibitors on amylase activity.

https://www.youtube.com/watch?v=U2It7pEZLo8

Study Material

• Study Material on Effect of pH and Temperature on Enzyme activity

• Estimation of enzyme activity of Urease

• Estimation of protein by Lowry's Method

• Estimation of sucrose other than glucose

• Isolation and Identification by Nitrogen fixing bacteria

PRACTICAL-II

PG- MB (08) - S1-P2

LABORATORY EXERCISE 2

Video Links:

• Separation of DNA by agarose gel electrophoresis

https://www.youtube.com/watch?v=vq759wKCCUQ

• Separation of amino acids by paper chromatography

https://www.youtube.com/watch?v=tDaKxskUwA0

https://www.youtube.com/watch?v=8wmQ_xWqZbo

• Separation of serum proteins by paper electrophoresis

https://www.youtube.com/watch?v=FKxQxt2vAK4

https://www.youtube.com/watch?v=jt1a8AUeJcg

• Thin layer chromatography.

https://www.youtube.com/watch?v=qdmKGskCyh8

https://www.youtube.com/watch?v=lj5OWzhZSac

• SDS-Page of proteins

https://www.youtube.com/watch?v=i_6y6Z5UvwE

https://www.youtube.com/watch?v=iqTHx9aUVcY

• Performance of Gel filtration chromatography

https://www.youtube.com/watch?v=qrUaZWUM9uw

• Demonstration of blotting technique

https://www.youtube.com/watch?v=VgAuZ6dBOfs

https://www.youtube.com/watch?v=3I9wzwj0b_A

• Ion exchange chromatography

https://www.youtube.com/watch?v=lp40a7mtc4E

https://www.youtube.com/watch?v=i4U4ndf2ayg

• · Separation of Sub cellular organelles and isolation of Marker enzymes.

https://www.jove.com/v/52076/isolation-functional-analysis-mitochondria-from-cultured-cells-mouse

Study Material:

1. Separation of DNA by agarose gel electrophoresis

2. Separation of amino acids by paper chromatography

3. Thin layer chromatography

4. SDS-Page of proteins.

5. Separation of Subcellular organelles and isolation of Marker enzymes.