Complete Mitochondrial Genome of Platygyra daedalea and Characteristics Analysis of the Mitochondrial Genome in Merulinidae.

Abstract

Background: The Merulinidae family belonging to the order Scleractinia is mainly distributed in the Indo-Pacific and Caribbean regions and often constitute the most dominant species of coral reefs. Mitochondrial genome is a key tool for studying the phylogeny and adaptation. Only a few studies have conducted the characteristics analyses of mitochondrial genome in the Merulinidae family.

Methods: Therefore, we used high-throughput sequencing technology to describe the mitochondrial genome of Platygyra daedalea, a member of this family. Bioinformatics was used to analyze the composition characteristics of the mitochondrial genome of 10 Merulinidae species.

Results: The mitochondrial genome of P. daedalea had a total length of 16,462 bp and a GC content of 33.0%. Thirteen unique protein-coding genes (PCGs), two transfer RNA (tRNA) genes, and two ribosomal RNA (rRNA) genes were annotated. Each species of Merulinidae had 13 unique PCGs in the mitochondrial genome. In contrast, the number of tRNAs and rRNAs significantly varied in Merulinidae species. Collinearity and gene rearrangement analyses indicated that the mitochondrial evolution of species in the Merulinidae family was relatively conserved. Divergence time analysis indicated that Merulinidae originated in the Oligocene, whereas the Platygyra genus originated in the Miocene. The formation and intraspecific divergence of coral species were consistent with geological changes in the ocean.

Conclusions: The results of this study help better understand the characteristics of the mitochondrial genome in the Merulinidae family and provide insights into the utility of mitochondrial genes as molecular markers of phylogeny.