Complete Chloroplast Genome Sequence of Dahlia imperialis (Asteraceae): Comparative Analysis and Phylogenetic Relationships

The genus Dahlia has approximately 40 species; however, the complete chloroplast genome has been reported only for one species. Due to this lack of information on the chloroplast genomes, the phylogenetic relationships within the Dahlia genus remain unclear. Therefore, the present study sequenced the complete chloroplast genome of D. imperialis for the first time. This genome was 152,084 bp long with a typical quadripartite structure and a GC content of 38.45%. A total of 134 genes were annotated in the genome, including 86 protein-coding genes, 38 transfer RNA genes, 8 ribosomal RNA genes, and 2 pseudogenes. The detailed analysis identified UUA as the most frequently used codon and found 62 intergenic repeat sequences and 157 SSR loci in the D. imperialis genome. Phylogenetic analysis based on 49 chloroplast genomes showed that Dahlia was a monophyletic group, with D. imperialis positioned at the base of this clade. Network evolution and gene flow analysis unveiled extensive hybridization events within the Heliantheae alliance, especially in Dahlia. Thus, the comprehensive analysis of the complete chloroplast genome of D. imperialis enriches the information on the genetic resources of the Dahlia species, provides valuable information for reconstructing their phylogeny, and reveals the evolutionary dynamics of the Dahlia chloroplast genome.