Molecular Biology and Evolution, Vol 12, 627-640, Copyright © 1995 by Society for Molecular Biology and Evolution
DJ Funk, DJ Futuyma, G Orti and A Meyer
This paper presents the phylogenetic infrastructure for an integrated
historical and experimental study of host use evolution in the chrysomelid
leaf beetle genus Ophraella. We report the collection of sequence data from
the 16S ribosomal RNA (446 bp) and the cytochrome oxidase subunit I (420
bp) mitochondrial genes from 12 species of Ophraella and two outgroups.
Sequence analysis revealed a strong A + T nucleotide bias, high
interspecific COI sequence divergences (up to 21.4%) that greatly exceeded
those for 16S (up to 5.9%), high intraspecific COI divergences (up to
3.8%), a dearth of amino acid substitutions in COI, and differing
substitution patterns in ribosomal stems and loops. Intraspecific variation
in COI haplotypes generally supported the genealogical coherence of
Ophraella lineages, while suggesting two cases of paraphyletic species.
Separate phylogenetic analyses of 16S and COI data sets yielded largely
congruent trees. A combined 16S + COI analysis yielded a single shortest
tree under maximum parsimony that was identical to trees provided by
successive approximations, neighbor-joining, and maximum-likelihood
methods. This topology proved robust to various forms of weighting and most
nodes were highly supported (by bootstrap analysis). Separate parsimony
analyses of mtDNA and previously collected morphological and electromorphic
data sets revealed congruent estimates of all cladistic relationships
except those within one clade. Analysis of the pooled data sets in a
combined approach additionally provided support for the basal placement of
two species from this clade, although the topology for the remaining
species was weakly supported and incongruent with the mtDNA tree. Each data
set contained significantly structured phylogenetic signal with respect to
this clade, and data sets exhibited limited conflict (character
incongruence) with each other. The combined data set, however, was found to
lack phylogenetic signal. These observations may imply that pooling
heterogeneously evolving classes of data obscured the phylogenetic signal
in each, a potential limitation of the combined approach.
ORIGINAL ARTICLE
Mitochondrial DNA sequences and multiple data sets: a phylogenetic study of phytophagous beetles (Chrysomelidae: Ophraella)
Department of Ecology and Evolution, State University of New York at Stony Brook 11794-5245, USA.
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