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Plant Molecular Biology and Genetic Engineering |
Total Credit : 3
Total Number of Lectures : 36
Course In-charge: Dr. Subhra Chakraborty and Dr. Debasis Chattopadhyay |
| Course Material |
- Cell Cycle and Development
- Seed Development
- Photomorphogenesis
- Adult Plants: Root, Leaf and Flower
- Protein Targeting: Sorting, Trafficking and degradation
- Gene Cloning: Forward and Reverse Genetics
- Cell Signaling: G-protein, Ca++/CaM and MAPK
- Genes and Gene Regulation: General Genetics, Si RNA, Epigenetic phenomenon, and Chromatin Remodeling.
- Genetic engineering and Crop Improvement
- Plant Genetic Transformation
- Agrobacterium-mediated transformation
- Agronomic, Industrial and Quality Traits
- Bio-safety Regulations and IPR issues
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| Plant Physiology and Biochemistry |
Total Credit : 3
Total Number of Lectures : 36
Course In-charge: Dr. Niranjan Chakraborty and Dr. Alok Krishna Sinha |
| Course Material |
- Plant and Cell Architecture
- Introduction to plant cell and organelles
- Plant cytoskeleton : microtubules and microfilaments
- Extra cellular matrix
- Plant Growth, Differentiation, and Development
- Biosynthesis and metabolism of hormones and elicitors
- Hormones and development
- Molecular basis of hormone action
- Cell Differentiation
- Senescence and Cell Death
- Plant secondary Metabolites
- Biosynthesis of secondary metabolites: terpenoids, alkaloids, phenylpropanoids and flavonoids
- Metabolic engineering of secondary metabolites
- Sugar Signaling
- Stress physiology: Host-Pathogen Interactions
- Fungus, Bacteria, Virus and Nematode
- Stress physiology: Abiotic Stresses
- Water deficit or draught and salinity stress
- Osmotic adjustment and its role in tolerance to draught and salinity
- Light and temperature stresses
- Stress-induced gene expression
- Photosynthesis and Respiration
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| Plant Genomics |
Total Credit : 3
Total Number of Lectures : 36
Course In-charge: Dr. Sabhyata Bhatia and Dr. Praveen Verma |
| Course Material |
- Introduction : Genes and Genomes
- Genome Organization
- Nuclear, Mitochondrial and Chloroplast Genome
- Molecular markers: overview
- Definitions, properties, kinds molecular markers.
- RAPD and AFLP analysis : Principle, methodology and application in DNA typing, Pedigree assessment and cultivar identification, Phylogenetics.
- Construction of a linkage map using different molecular markers : Principles, mapping populations, recombination fractions, LOD score, establishment of linkage groups, QTL analysis
- Concept of marker-assisted selection in plant breeding, SCAR
- Microsatellites, overview, Hybridization-based microsatellite finger printing, Strategies for isolation of microsatellite sequences, STMS markers
- Comparisons of different marker systems
- Other markers: SAMPL, RAMP, CAPS, SNPs etc.
- Genome analysis: Cloning systems used in genomics
- Cosmids, P1 bacteriophage, BAC and YAC cloning vectors, Isolation of High molecular weight DNA and separation of chromosomes by PFGE, Contig assembly, Chromosome walking and map-based cloning.
- Genome analysis: Physical mapping of genome
- Conventional cytogenetics, Physical mapping by restriction hybridization analysis, FISH and related techniques, Chromosome painting and microdissection, Long range physical mapping.
- Genome Analysis: Sequencing and analyzing genome
- Sequencing strategies for the systematic sequencing of complex genomes, Genome sequence analysis, annotation and gene prediction.
- Functional genomics
- Introduction, Strategies to find functional genes in the genome, Gene tagging strategies and application. ESTs and its utility in genomics, Differential gene profiling methods, DNA chips/Microarrays.
- Plant Transposable and Retrotransposable elements
- Introduction, Types of plant transposable elements, Transposon tagging of genes, Role in genome evolution.
- Proteomics
- Strategies and applications of proteome analysis.
- Evolutionary Genomics
- Introduction to genome evolution, Acquisition of new genes, Evolution of non-coding regions, Molecular phylogenetics and applications, Evolution of multigene families in the genome.
- Comparative genomics
- Introduction, Comparative genomics of plants, Cereal and legume comparative genomics.
- SAGE and SNPs analysis
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| In Silico Analysis of Plant Genome |
Total Credit : 2
Total Number of Lectures : 24
Course In-charge: Dr. Manoj Prasad and Dr. Gitanjali Yadav |
| Course Material |
- Introduction: From Sequence to Function in the Age of genomics, Genome databases of various plants.
- Introduction to various Sequence Formats, Different types of BLAST searches and ENTREZ
- Principles of Genome Annotation, tools and resources.
- Multiple Sequence Alignments & Phylogenetic analysis.
- Gene Mapping, map making tools and resources.
- The Peptide Bond, Protein Motifs, Domains and Flexibility, Importance of Secondary Structure. Intermolecular Interfaces.
- Interpretation of PDB structure files, Structural basis of protein function, Location & nature of Binding Sites.
- From Sequence to Structure: Prediction of Secondary structure, Comparative & Homology modeling, profile based threading methods, Rosetta, and Hidden Markov Models.
- From Structure to Function: Protein Superfamilies, Identification of Binding Sites, Identification of Catalytic Residues.
- Protein-Protein interactions: docking algorithms for predicting receptor-ligand affinity & modeling structures of Biomolecular complexes.
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