ArticleScientific reports2020
STAGdb: a 30K SNP genotyping array and Science Gateway for Acropora corals and their dinoflagellate symbionts.
Article in Scientific reports, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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26 citing papers in PubMed, 47 citations in OpenAlex.
- Mosaic Accumulation of Somatic Genetic Variation and Estimates of Age in the Long-Lived Reef-Building Coral Acropora palmata.Molecular ecology · 2026Article
- Assisted Gene Flow Yields Physiologically RobustEvolutionary applications · 2026Article
- Success of restoration strategies in preventing extirpation of 2 critically endangered coral species.Conservation biology : the journal of the Society for Conservation Biology · 2026Article
- Design and Application of a Genome-Wide SNP Array to Improve Conservation Outcomes in the Critically Endangered Southern Corroboree Frog.Molecular ecology resources · 2026Article
- 2023 global heatwave causes mass mortality of a keystone coral on shallow Western Atlantic reefs.iScience · 2025Article
- Speciation across depth gradients in reef corals.Nature communications · 2025Article
- Article
- Adaptive Potential of Intracolonial Genetic Variability in Coral Populations.Ecology and evolution · 2025Review
- Evolutionary Genomics of Two Co-occurring Congeneric Fore Reef Coral Species on Guam (Mariana Islands).Genome biology and evolution · 2025Article
- Chromosome-level genome assemblies and genetic maps reveal heterochiasmy and macrosynteny in endangered Atlantic Acropora.BMC genomics · 2024Article
- Fertile Hybrids Could Aid Coral Adaptation.Ecology and evolution · 2024Article
- Interspecific hybridisation provides a low-risk option for increasing genetic diversity of reef-building corals.Biology open · 2024Article
- Synergistic response to climate stressors in coral is associated with genotypic variation in baseline expression.Proceedings. Biological sciences · 2024Article
- Phenotypic plasticity for improved light harvesting, in tandem with methylome repatterning in reef-building corals.Molecular ecology · 2024Article
- Assessing acute thermal assays as a rapid screening tool for coral restoration.Scientific reports · 2024Article
- Coral recruits demonstrate thermal resilience.PeerJ · 2024Article
- Rampant asexual reproduction and limited dispersal in a mangrove population of the coralProceedings. Biological sciences · 2023Article
- Building consensus around the assessment and interpretation of Symbiodiniaceae diversity.PeerJ · 2023Article
- Evidence for adaptive morphological plasticity in the Caribbean coral,Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Inheritance of somatic mutations by animal offspring.Science advances · 2022Article
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Authors and funding
8 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
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://coralsnp.science.psu.edu/galaxy/), 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.
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