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Many corals depend upon the highly specialised and intricate relationship they form with Symbiodiniaceae algal symbionts.  Porites lutea  is a massive reef-building coral found throughout Southeast Asia that hosts these endosymbionts obligately. Yet despite the prevalence and importance of  P. lutea  as one of the most dominant corals here, its associated Symbiodiniaceae communities have not been precisely characterised. In this study, we used high-throughput DNA amplicon sequencing of the nuclear internal transcribed spacer 2 (ITS2) to characterise the diversity, community structure and biogeographic distribution of Symbiodiniaceae in  P. lutea  throughout Singapore and Peninsular Malaysia. Consistent with previous studies, we found that  Cladocopium  was the most dominant genus among all samples, and  Cladocopium  C15 was the most dominant type (or subclade) with 100% occurrence in all samples from every study site. Results also revealed numerous Symbiodiniaceae types associated with  P. lutea  that were previously undetected in Southeast Asia. Endosymbiont diversity and community variation are driven by a combination of site-specific mean monthly cloud cover and variance in monthly sea surface temperature. This study contributes baseline data toward understanding differences in Symbiodiniaceae assemblages hosted by  P. lutea , shedding light on how they might be indicative of particular environmental conditions and coral responses.

Endosymbiont diversity and community structure in Porites lutea from Southeast Asia are driven by a suite of environmental variables