Geographic distances and ocean currents influence Caribbean Acropora palmata population connectivity in the Lesser Antilles

Japaud, Aurélien; Bouchon, Claude; Magalon, Hélène; Fauvelot, Cécile

doi:10.1007/s10592-019-01145-9

Cited by 13 publications

(10 citation statements)

References 91 publications

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“…IBD is driven by distance-limited dispersal (Wright 1943 ; Aguillon et al 2017 ), which is consistent with the short planktonic duration common for lecithotrophic sponge larvae. IBD patterns were also observed in the coral A. palmata in this area (Japaud et al 2019 ), and have been found in other sponges at similar spatial scales elsewhere (Bell et al 2014 ; Pérez-Portela et al 2015 ; Riesgo et al 2016 ). However, many sponge studies have found IBD to be absent or very weak, with oceanographic conditions forming better predictors of population structure (Giles et al 2015 ; Taboada et al 2018 ; Riesgo et al 2019 ).…”

Section: Discussionsupporting

confidence: 75%

Oceanographic features and limited dispersal shape the population genetic structure of the vase sponge Ircinia campana in the Greater Caribbean

et al. 2020

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Understanding population genetic structure can help us to infer dispersal patterns, predict population resilience and design effective management strategies. For sessile species with limited dispersal, this is especially pertinent because genetic diversity and connectivity are key aspects of their resilience to environmental stressors. Here, we describe the population structure of Ircinia campana, a common Caribbean sponge subject to mass mortalities and disease. Microsatellites were used to genotype 440 individuals from 19 sites throughout the Greater Caribbean. We found strong genetic structure across the region, and significant isolation by distance across the Lesser Antilles, highlighting the influence of limited larval dispersal. We also observed spatial genetic structure patterns congruent with oceanography. This includes evidence of connectivity between sponges in the Florida Keys and the southeast coast of the United States (>700 km away) where the oceanographic environment is dominated by the strong Florida Current. Conversely, the population in southern Belize was strongly differentiated from all other sites, consistent with the presence of dispersal-limiting oceanographic features, including the Gulf of Honduras gyre. At smaller spatial scales (<100 km), sites showed heterogeneous patterns of low-level but significant genetic differentiation (chaotic genetic patchiness), indicative of temporal variability in recruitment or local selective pressures. Genetic diversity was similar across sites, but there was evidence of a genetic bottleneck at one site in Florida where past mass mortalities have occurred. These findings underscore the relationship between regional oceanography and weak larval dispersal in explaining population genetic patterns, and could inform conservation management of the species.

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Section: Discussionsupporting

confidence: 75%

Oceanographic features and limited dispersal shape the population genetic structure of the vase sponge Ircinia campana in the Greater Caribbean

et al. 2020

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“…S5) in contrast to earlier findings that backcrosses are restricted to introgression of A. palmata genes into the A. cervicornis genome. A recent report also found putative A. palmata backcrosses based on microsatellite data in the Lesser Antilles 62 . Together, these results support the conclusion of bidirectional introgression in Caribbean acroporids.…”

Section: A Muricatamentioning

confidence: 83%

STAGdb: a 30K SNP genotyping array and Science Gateway for Acropora corals and their dinoflagellate symbionts

Kitchen

Kuster

Kuntz

et al. 2020

Sci Rep

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Standardized identification of genotypes is necessary in animals that reproduce asexually and form large clonal populations such as coral. We developed a high-resolution hybridization-based genotype array coupled with an analysis workflow and database for the most speciose genus of coral, Acropora, and their symbionts. We designed the array to co-analyze host and symbionts based on bi-allelic single nucleotide polymorphisms (SNP) markers identified from genomic data of the two Caribbean Acropora species as well as their dominant dinoflagellate symbiont, Symbiodinium 'fitti'. SNPs were selected to resolve multi-locus genotypes of host (called genets) and symbionts (called strains), distinguish host populations and determine ancestry of coral hybrids between Caribbean acroporids. Pacific acroporids can also be genotyped using a subset of the SNP loci and additional markers enable the detection of symbionts belonging to the genera Breviolum, Cladocopium, and Durusdinium. Analytic tools to produce multi-locus genotypes of hosts based on these SNP markers were combined in a workflow called the Standard tools for Acroporid Genotyping (STAG). The STAG workflow and database are contained within a customized Galaxy environment (https ://coral snp.scien ce.psu.edu/ galax y/), which allows for consistent identification of host genet and symbiont strains and serves as a template for the development of arrays for additional coral genera. STAG data can be used to track temporal and spatial changes of sampled genets necessary for restoration planning and can be applied to downstream genomic analyses. Using STAG, we uncover bi-directional hybridization between and population structure within Caribbean acroporids and detect a cryptic Acroporid species in the Pacific. Genotype identification and tracking are required for well-replicated basic research experiments and in applied research such as designing restoration projects. High-resolution genetic tools are necessary for large clonal populations where genets can only be delineated via genotyping. The advent of reduced representation sequencing methods such as Genotype-By-Sequencing (GBS) or Restriction-site Associated DNA Sequencing (RADseq) have made it possible to assay a large number of single-nucleotide polymorphism (SNP) loci in any organism at a reasonable cost 1. These methods are widely used in population genomics but have the disadvantage that the SNP loci are anonymous. Thus, there is no guarantee that the same set of SNP loci will be recovered from each sample within an experiment or between experiments, making it more difficult to design standardized workflows. To circumvent this issue, standardized SNP probes can be designed for reproducible genotyping and analysis from hundreds of samples using modified RAD-based approaches like Rapture 2 , RADcap 3 , and quaddRAD 4 or using hybridization-based SNP genotyping arrays. Hybridization-based SNP arrays tend to have lower error rates then RADseq methods 5,6 and thus increased accuracy of genet identification and tracking...

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“…Besides the impact of latitude and host biology, geographic factors also likely contribute to the evolutionary dynamics of the CsRV1. Studies revealed the restricted population connectivity and short-distance dispersal of coral ( Acropora palmata ) and sponge ( Ircinia campana ) larvae in the Caribbean, limited by geographic distances among habitats [ 93 , 94 ]. Similarly, blue crab habitats in the CAR areas are also likely to be isolated islands linked by larval transport, with fewer opportunities for juvenile or adult migration between islands.…”

Section: Discussionmentioning

confidence: 99%

Cross-Hemispheric Genetic Diversity and Spatial Genetic Structure of Callinectes sapidus Reovirus 1 (CsRV1)

Zhao

Plough

Behringer

et al. 2023

Viruses

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The movement of viruses in aquatic systems is rarely studied over large geographic scales. Oceanic currents, host migration, latitude-based variation in climate, and resulting changes in host life history are all potential drivers of virus connectivity, adaptation, and genetic structure. To expand our understanding of the genetic diversity of Callinectes sapidus reovirus 1 (CsRV1) across a broad spatial and host life history range of its blue crab host (Callinectes sapidus), we obtained 22 complete and 96 partial genomic sequences for CsRV1 strains from the US Atlantic coast, Gulf of Mexico, Caribbean Sea, and the Atlantic coast of South America. Phylogenetic analyses of CsRV1 genomes revealed that virus genotypes were divided into four major genogroups consistent with their host geographic origins. However, some CsRV1 sequences from the US mid-Atlantic shared high genetic similarity with the Gulf of Mexico genotypes, suggesting potential human-mediated movement of CsRV1 between the US mid-Atlantic and Gulf coasts. This study advances our understanding of how climate, coastal geography, host life history, and human activity drive patterns of genetic structure and diversity of viruses in marine animals and contributes to the capacity to infer broadscale host population connectivity in marine ecosystems from virus population genetic data.

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Geographic distances and ocean currents influence Caribbean Acropora palmata population connectivity in the Lesser Antilles

Cited by 13 publications

References 91 publications

Oceanographic features and limited dispersal shape the population genetic structure of the vase sponge Ircinia campana in the Greater Caribbean

Oceanographic features and limited dispersal shape the population genetic structure of the vase sponge Ircinia campana in the Greater Caribbean

STAGdb: a 30K SNP genotyping array and Science Gateway for Acropora corals and their dinoflagellate symbionts

Cross-Hemispheric Genetic Diversity and Spatial Genetic Structure of Callinectes sapidus Reovirus 1 (CsRV1)

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