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BI 527 PHYLOGENETIC ANALYSIS                                                                                 (1L+1P) II

Objective
  To find out the evolutionary relationship among various species by using different phylogenetic algorithms.

Theory

UNIT I
  Phylogenetic trees and their comparison: Definition and description, various types of  trees; Consensus (strict, semi-strict, Adams, majority rule, Nelson); Data partitioning and combination. Tree to tree distances, similarity; Phylogenetic analysis algorithms: Maximum Parsimony, Distance- based: UPGMA, Transformed Distance, Neighbors-Relation, Neighbor-Joining.

UNIT II
  Probabilistic models of  evolution, Maximum likelihood algorithm ; Approaches for tree reconstruction: Character optimization; delayed and accelerated transformation, Reliability of trees, Bootstrap, jackknife, decay, randomization tests; Applications of phylogeny analyses: Comparison of Phylogenetic Trees obtained using DNA seq. Vs. protein seq. Vs. Full genomes. Need for addition of other properties towards total phylogenetic analysis, Comparative methods for detection of species / organism relationships, Gene duplication, Horizontal transfer, Domain evolution, Study of co-evolution: Plant-insect interactions. Host-parasite interactions, Viral evolution.

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