Tree of Life: primary divisions

OEB 192 – 11.09.12

Tree of Life: three “domains”• Based on 16S rRNA (Woese, 1987):

Tree of Life: three “domains”• Based on 16S rRNA (Pace, 1997):

Bacteria & Archaeal: all genomes as of 12 Feb., 2010

(Lee, Robinson & Marx, in prep)

Tree basics: meaning

Tree basics: rotation

Tree basics: shape

Microbial systematics

• Formerly Pseudomonas (partial list): Ralstonia, Burkholderia, Hydrogenophaga, Sphingomonas, Methylobacterium, Cellvibrio, Xanthomonas, Acidovorax, Hydrogenophillus, Brevundimonas, Pandoraea

multi-C C1(& all use methanol)

16S rRNA as phylogenetic marker• Why a good molecule?

70S 30S 50S

Tree basics: clades & character changes

Key phylogenetic terms

Phenetics vs. cladistics

Maximum Parsimony• Parsimony – shortest tree (fewest homoplasies)

Neutral theory• Developed by Motoo Kimura, 1968

Wednesday (9/14): Molecular evolution & phylogenetic inference:

case of HIV

& comment…