Population genomics for symbiotic anthozoans: can reduced representation approaches be used for taxa without reference genomes?

Population genetic studies of symbiotic anthozoans have been historically challenging because their endosymbioses with dinoflagellates have impeded marker development. Genomic approaches like reduced representation sequencing alleviate marker development issues but produce anonymous loci, and without a reference genome, it is unknown which organism is contributing to the observed patterns. Alternative methods such as bait-capture sequencing targeting Ultra-Conserved Elements are now possible but costly. Thus, RADseq remains attractive, but how useful are these methods for symbiotic anthozoan taxa without a reference genome to separate anthozoan from algal sequences? We explore this through a case-study using a double-digest RADseq dataset for the sea anemone Bartholomea annulata. We assembled a holobiont dataset (3854 loci) for 101 individuals, then used a reference genome to create an aposymbiotic dataset (1402 loci). For both datasets, we investigated population structure and used coalescent simulations to estimate demography and population parameters. We demonstrate complete overlap in the spatial patterns of genetic diversity, demographic histories, and population parameter estimates for holobiont and aposymbiotic datasets. We hypothesize that the unique combination of anthozoan biology, diversity of the endosymbionts, and the manner in which assembly programs identify orthologous loci alleviates the need for reference genomes in some circumstances. We explore this hypothesis by assembling an additional 21 datasets using the assembly programs pyRAD and Stacks. We conclude that RADseq methods are more tractable for symbiotic anthozoans without reference genomes than previously realized.

Lack of strategic service provisioning by Pederson's cleaner shrimp (Ancylomenes pedersoni) highlights independent evolution of cleaning behaviors between ocean basins

Marine cleaning interactions have been useful model systems for exploring evolutionary game theory and explaining the stability of mutualism. In the Indo-Pacific, cleaner organisms will occasionally "cheat" and remove live tissue, clients use partner control mechanisms to maintain cleaner honesty, and cleaners strategically increase service quality for predatory clients that can "punish" more severely. The extent to which reef communities in the Caribbean have evolved similar strategies for maintaining the stability of these symbioses is less clear. Here we study the strategic service provisioning in Pederson's cleaner shrimp (Ancylomenes pedersoni) on Caribbean coral reefs. In the Gulf of Honduras, we use video observations to analyze >1000 cleaning interactions and record >850 incidents of cheating. We demonstrate that A. pedersoni cheat frequently and do not vary their service quality based on client trophic position or cleaner shrimp group size. As a direct analog to the cleaner shrimp A. longicarpus in the Indo-Pacific, our study highlights that although cleaning interactions in both ocean basins are ecologically analogous and result in parasite removal, the strategic behaviors that mediate these interactions have evolved independently in cleaner shrimps.