RT Journal Article
SR Electronic
T1 Disparity, Diversity, and Duplications in the Caryophyllales
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 132878
DO 10.1101/132878
A1 Stephen A. Smith
A1 Joseph W. Brown
A1 Ya Yang
A1 Riva Bruenn
A1 Chloe P. Drummond
A1 Samuel F. Brockington
A1 Joseph F. Walker
A1 Noah Last
A1 Norman A. Douglas
A1 Michael J. Moore
YR 2017
UL http://biorxiv.org/content/early/2017/07/24/132878.abstract
AB The role whole genome duplication (WGD) plays in the history of lineages is actively debated. WGDs have been associated with advantages including superior colonization, various adaptations, and increased effective population size. However, the lack of a comprehensive mapping of WGDs within a major plant clade has led to uncertainty regarding the potential association of WGDs and higher diversification rates.Using seven chloroplast and nuclear ribosomal genes, we constructed a phylogeny of 5,036 species of Caryophyllales, representing nearly half of the extant species. We phylogenetically mapped putative WGDs as identified from analyses on transcriptomic and genomic data and analyzed these in conjunction with shifts in climatic niche and lineage diversification rate.Thirteen putative WGDs and twenty-seven diversification shifts could be mapped onto the phylogeny. Of these, four WGDs were concurrent with diversification shifts, with other diversification shifts occurring at more recent nodes than WGDs. Five WGDs were associated with shifts to colder climatic niches.While we find that many diversification shifts occur after WGDs it is difficult to consider diversification and duplication to be tightly correlated. Our findings suggest that duplications may often occur along with shifts in either diversification rate, climatic niche, or rate of evolution.