Chapter 22 Phylogenetics

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Chapter 22 Phylogenetics 1. Systematics - Study of diversity & Evolutionary Relationships i. Taxonomy - describing naming and classifying ii. Phylogeny – includes the evolutionary history b. Taxonomy i. Nested hierarchy ii. Domain -> species iii. Taxon = general name for group at any level 1. Domain 2. Kingdom 3. Phylum 4. Class 5. Order 6. Family 7. Genus 8. Species iv. Carolus Linnaeus is the first to suggest concept of binomial nomenclature 1. Two-name system; species = basic unit 2. Genus + specific epithet; Homo sapiens c. Linking Taxonomy and Phylogeny i. Linnaean classification & phylogeny can differ from each other ii. Phylogeny – groups with common ancestor & all descendants iii. Phylogenetic species concept 1. Smallest set of organisms that can be distinguished on a phylogenetic tree 2. Basics of Phylogenetics a. Introduction to Phylogenetics i. Phylogenetic tree = branching diagram 1. Pattern of descent 2. Hypothesis about evolutionary relationships; dichotomies (2 way branch points) 3. Extant species = alive, tips of branches b. How to read phylogeny i. Rooted tree = represents most recent common ancestors of all taxa on tree ii. Basal taxon diverges early and originates near the common ancestor 1. Less evolutionary changes from common ancestor iii. Branch Point = divergence of 2 species from a common ancestor iv. Sister taxa = 2 taxa share immediate common ancestor v. Polytomy = more than 2 groups emerge from one branch vi. Monophyletic 1. Includes ancestor and all descendants 2. All members of group share common ancestor vii. One way of making a mistake:
1. Paraphyletic grouping: 2. Common ancestor and some, but not all descendants 3. Not a natural evolutionary grouping viii. Another mistake: 1. Polyphyletic grouping 2. Does not include most recent common ancestor 3. Misinterprets evolutionary relationships 3. Making Phylogenies a. Inferred from molecular and morphological traits i. Cladistics – groups organisms by common descent/ancestry ii. A clade = a group which includes ancestral species and all descendants b. General methods i. Homology (homologous) = derived from a common ancestor ii. Analogies (analogous characteristics) 1. Convergent evolution (independently acquired) 2. Because of similar evolutionary pressure iii. Homologies are good characteristics to build a tree, Analogies are not iv. In bats and birds, the bone structure of the two are homologous, but the wing structure is analogous v. Shared ancestral characters: 1. Characteristics of a group that are present in the ancestors vi. Shared Derived characters: 1. Characteristics unique to a particular clade vii. Outgroup : taxa diverged before the lineage that is being studied viii. Ingroup : taxa that are being studied ix. Recent developments use computer programs or math to analyze relationships 1. Primary structure of Proteins 2. DNA or mRNA sequence x. Molecular similarities: same problem need to distinguish homology from analogy but how?
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