Characterisation of genomic variation among corals can help uncover
variants underlying trait differences and contribute towards genotype
prioritisation in coastal restoration projects. For example, there is
growing interest in identifying resilient genotypes for transplantation,
and to better understand the genetic processes that allow some
individuals to survive in specific conditions better than others. The
coral species Pocillopora acuta is known to survive in a wide range of
habitats, from reefs to seawalls, suggesting its potential use as a
starter species for ecological engineering efforts involving coral
transplantation onto intertidal seawalls. However, the intertidal
section of coastal armour is a challenging environment for corals, with
conditions during periods of emersion being particularly stressful.
Here, we scanned the entire genome of P. acuta corals for DNA
polymorphisms to identify the regions harbouring SNPs and copy number
variations (CNVs) that separate intertidal colonies (n=18) from those
found in subtidal areas (n=21). Findings revealed 74,391 high quality
SNPs distributed across 386 regions of the P. acuta genome. While the
majority of the detected SNPs were in non-coding regions, 12% were
identified in exons (i.e. coding regions). Functional SNPs that were
significantly associated with intertidal colonies were found in
overrepresented genomic regions linked to cellular homeostasis,
metabolism, and signalling process, which can represent local
environmental adaptation in the intertidal. Interestingly, regions that
exhibited CNVs were also associated with metabolic and signalling
processes, suggesting intertidal corals have a high capacity to perform
biological functions critical for survival in extreme environments.