Evolution of the FAD2-1 fatty acid desaturase 5 ' UTR intron and the molecular systematics of Gossypium (Malvaceae)

The FAD2-1 microsomal omega -6 desaturase gene contains a large intron (sim ilar to 1133 bp [base pairs]) in the 5' untranslated region that may partic ipate in gene regulation and, in Gossypium, is evolving at an evolutionary rate useful for elucidating recently diverged lineages. FAD2-1 is single co py in diploid Gossypium species, and two orthologs are present in the allot etraploid species. Among the diploid species, the D-genome FAD2-1 introns h ave accumulated substitutions 1.4-1.8 times faster than the A-genome intron s. In the tetraploids, the difference between the D-subgenome introns and t heir A-subgenome orthologs is even greater The substitution rate of the int ron in the D-genome diploid G. gossypioides more closely approximates that of the A genome than other D genome species, highlighting its unique evolut ionary history. However, phylogenetic analyses support G. raimondii as the closest living relative of the D-subgenome donor. The Australian K-genome s pecies diverged 8-16 million years ago into two clades. One clade comprises the sporadically distributed, erect to suberect coastal species; a second clade comprises the more widely spread, prostrate, inland species. A compar ison of published gene trees to the FAD2-1 intron topology suggests that G. bickii arose from an early divergence, but that it carries a G. australe-l ike rDNA captured via a previously undetected hybridization event.