Dataset: mtORF haplotype of each Pocillopora colony sampled at a given site and depth at Moorea, French Polynesia in August 2019

Final no updates expectedDOI: 10.26008/1912/bco-dmo.857058.1Version 1 (2021-08-03)Dataset Type:Other Field Results

Principal Investigator: Scott Burgess (Florida State University)

Co-Principal Investigator: Peter J. Edmunds (California State University Northridge)

BCO-DMO Data Manager: Shannon Rauch (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 reports the mtORF haplotype of each Pocillopora colony sampled at a given site and depth at Moorea in August 2019. These data are published in Figures 2, 3, and 4 of Johnston et al., 2021 (doi: 10.1007/s00338-021-02107-9). The attached Supplemental File "Pocillopora_mtORF.fasta" contains the mtORF haplotype sequence (855bp) for each coral colony as identified by the 'Tube_ID' column.

In August 2019, Pocillopora colonies were sampled from three depths (5, 10, and 20 m) at each of four sites (sites 1, 2, 4, and 5) on the fore reef of Mo'orea. Site locations and names correspond to that used by the Mo'orea Coral Reef Long-Term Ecological Research (MCR-LTER) program. At each depth at each site, 10-15 50x50 cm quadrats were randomly placed on the reef along the target depth contour until approximately 50 colonies had been sampled. Tissue from all Pocillopora colonies within the quadrat was sampled. Tissue (~ 5 mm diameter) was collected using small bone clippers, stored in salt-saturated dimethyl sulfoxide DMSO buffer. Genomic DNA was extracted from tissues using Chelex 100 (Bio-Rad, USA). DNA was then used for PCR amplification using the mitochondrial Open Reading Frame (mtORF) marker (Flot & Tillier, 2007). A restriction fragment length polymorphism (RFLP) gel-based assay was used to distinguish P. meandrina and P. eydouxi. In GENEIOUS v.9.1.8 (Biomatters), forward mtORF sequences (855bp) were aligned and samples were identified to haplotype based on previously published sequences of mtORF haplotypes (see the attached Supplemental File 'Pocillopora_mtORF.fasta').


Related Datasets

Different Version

Dataset: https://doi.org/10.5061/dryad.kwh70rz3p
Johnston, E., Wyatt, A., Leichter, J., & Burgess, S. (2021). Niche differences in co-occurring cryptic coral species (Pocillopora spp.) (Version 2) [Data set]. Dryad. https://doi.org/10.5061/DRYAD.KWH70RZ3P

Related Publications

Results

Johnston, E. C., Wyatt, A. S. J., Leichter, J. J., & Burgess, S. C. (2021). Niche differences in co-occurring cryptic coral species (Pocillopora spp.). Coral Reefs. doi:10.1007/s00338-021-02107-9
Methods

Flot, J.-F., & Tillier, S. (2007). The mitochondrial genome of Pocillopora (Cnidaria: Scleractinia) contains two variable regions: The putative D-loop and a novel ORF of unknown function. Gene, 401(1-2), 80–87. doi:10.1016/j.gene.2007.07.006