Sample size for a phylogenetic inference.
The objective of this work is to describe sample-size calculations for the inference of a nonzero central branch length in an unrooted four-species phylogeny. Attention is restricted to independent binary characters, such as might be obtained from an alignment of the purine-pyrimidine sequences of a nucleic acid molecule. A statistical test based on a multinomial model for character-state configurations is described. The importance of including invariable sites in models for sequence change is demonstrated, and their effect on sample size is quantified. The methods are applied to a four-species alignment of small-subunit rRNA sequences derived from two archaebacteria, a eubacteria and a eukaryote. We conclude that the information in these sequences is not sufficient to resolve the branching order of this tree. Estimates of the number of aligned nucleotide positions required to provide a reasonably powerful test are given.
Churchill
G A
GA
Department of Plant Breeding and Biometry, Cornell University, Ithaca, New York 14853.
von Haeseler
A
A
Navidi
W C
WC
D001105:Archaea / Q000145:classification; D015233:Models, Statistical; D010802:Phylogeny; D012494:Sampling Studies