Dataset: Genetic sequence accessions, collection information, and methodology for raw sequences from ezRAD libraries of Pocillopora spp. collected in Moorea, French Polynesia in 2019

Final no updates expectedDOI: 10.26008/1912/bco-dmo.881853.1Version 1 (2022-10-04)Dataset Type:Other Field Results

Principal Investigator: Scott Burgess (Florida State University)

BCO-DMO Data Manager: Amber D. York (Woods Hole Oceanographic Institution)


Project: Collaborative research: Coral community resilience: testing the role of hidden diversity in pocilloporid corals at Moorea (Pocilloporid Coral Diversity)


Abstract

This dataset contains genetic sequence accessions, collection information, and methodology for raw sequences from ezRAD libraries of Pocillopora spp. collected in 2019. Samples were collected between 5 and 20m on the fore reef in Moorea, French Polynesia. Sequence accessions are for holdings in the Sequence Read Archive (SRA) at the National Center for Biotechnology Information (NCBI). All sequence and biosample accessions can be found under BioProject PRJNA852278 (https://www.ncbi.nlm.nih.gov...

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Tissue samples from 44 Pocillopora colonies were collected using SCUBA in August 2019 from six sites (LTER 1 – 6) and three depths (5, 10, and 20 m) around Mo’orea, French Polynesia. Tissue samples were stored in salt-saturated DMSO (dimethyl sulfoxide) buffer until DNA was extracted.  Genomic DNA was extracted from tissue using the OMEGA (BIO-TEK) E.Z.N.A. Tissue DNA Kit. Extractions were quantified using the Qubit dsDNA HS Assay Kit with the Qubit Fluorometer. ezRAD libraries were generated by digesting samples with the isoschizomer restriction enzymes MboI and Sau3AI (New England BioLab), which cleave at GATC cut sites, and libraries were generated with the KAPA HyperPrep Kit (Roche) using TruSeq DNA indexes (Illumina). Libraries were size selected at 350 – 700 bp and sequenced on the MiSeq platform as paired-end 300 bp runs at Florida State University. 


Related Datasets

IsRelatedTo

Dataset: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA852278
Florida State University (2022). Cophylogeny between Pocillopora spp. and Symbiodiniaceae at Moorea. NCBI:BioProject: PRJNA852278. Bethesda, MD: National Library of Medicine (US), National Center for Biotechnology Information; Available from: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA852278.

Related Publications

Results

Johnston, E. C., Cunning, R., & Burgess, S. C. (2022). Cophylogeny and specificity between cryptic coral species (Pocillopora spp.) at Mo′orea and their symbionts (Symbiodiniaceae). Molecular Ecology, 31(20), 5368–5385. Portico. https://doi.org/10.1111/mec.16654