title: Rates of nucleotide substitution in Cornaceae (Cornales)-Pattern of variation and underlying causal factors.
abstract: Identifying causes of genetic divergence is a central goal in evolutionary biology. Although rates of nucleotide substitution vary among taxa and among genes, the causes of this variation tend to be poorly understood. In the present study, we examined the rate and pattern of molecular evolution for five DNA regions over a phylogeny of Cornus, the single genus of Cornaceae. To identify evolutionary mechanisms underlying the molecular variation, we employed Bayesian methods to estimate divergence times and to infer how absolute rates of synonymous and nonsynonymous substitutions and their ratios change over time. We found that the rates vary among genes, lineages, and through time, and differences in mutation rates, selection type and intensity, and possibly genetic drift all contributed to the variation of substitution rates observed among the major lineages of Cornus. We applied independent contrast analysis to explore whether speciation rates are linked to rates of molecular evolution. The results showed no relationships for individual genes, but suggested a possible localized link between species richness and rate of nonsynonymous nucleotide substitution for the combined cpDNA regions. Furthermore, we detected a positive correlation between rates of molecular evolution and morphological change in Cornus. This was particularly pronounced in the dwarf dogwood lineage, in which genome-wide acceleration in both molecular and morphological evolution has likely occurred.
authors.affiliation: Department of Plant Biology, North Carolina State University, Gardner Hall 2115, Campus Box 7612, Raleigh, NC 27695, USA. jenny_xiang@ncsu.edu
authors.forename: Qiu-Yun Jenny
authors.initials: QY
authors.lastname: Xiang
authors.forename: Jeffrey L
authors.initials: JL
authors.lastname: Thorne
authors.forename: Tae-Kun
authors.initials: TK
authors.lastname: Seo
authors.forename: Wenheng
authors.initials: W
authors.lastname: Zhang
authors.forename: David T
authors.initials: DT
authors.lastname: Thomas
authors.forename: Robert E
authors.initials: RE
authors.lastname: Ricklefs
mesh_terms: D001499:Bayes Theorem; D002736:Chloroplasts / Q000235:genetics; D029768:Cornus / Q000033:anatomy & histology / Q000145:classification* / Q000235:genetics*; D018742:DNA, Chloroplast / Q000235:genetics; D018744:DNA, Plant / Q000235:genetics; D019143:Evolution, Molecular; D005580:Fossils; D017343:Genes, Plant; D049810:Genetic Speciation; D054628:Genome, Chloroplast; D008957:Models, Genetic; D009711:Nucleotides / Q000235:genetics; D010802:Phylogeny; D017422:Sequence Analysis, DNA
chemical_list: D018742:DNA, Chloroplast; D018744:DNA, Plant; D009711:Nucleotides