DOI: 10.5061/dryad.t1g1jwt0x
title: Multi-locus microsatellite genotypes of Pocillopora acuta (Scleractinia: Pocilloporidae) in the Bolinao-Anda Reef Complex, Philippines

description: This repository contains genotype data and sampling metadata used for the
 manuscript "Shifts in coral clonality along a gradient of
 disturbance: insights on reproduction and dispersal
 of Pocillopora acuta". The dataset
 contains genotypes of 428 P.
 acuta colonies using 16 polymorphic microsatellite loci, colony
 sizes, in-transect locations of each coral, and geographic
 coordinates of reef sites. These were used to examine clonal richness and
 structure, population genetic differentiation, and demographic and genetic
 connectivity within the reef system. In the study, we estimated the
 relative contribution of sexual and asexual modes of reproduction to
 population maintenance, and inferred the species' spatial
 scale of realized dispersal all against a backdrop of
 varying levels of wave exposure. 
description: Four reef sites at 3–5 m depths, separated by distances of 5–22
 km, were chosen to represent reefs adjacent to the municipalities of
 Bolinao (Malilnep/MLP, Lucero/LCR) and Anda (Cangaluyan/CLY,
 Caniogan/CNG). Each site was represented by an exhaustively sampled 400
 m<sup>2</sup> transect. Identified adult colonies (&gt; 5
 cm diameter, n = 451) of <i>P. damicornis </i>sensu
 lato<i> </i>(Veron and Pichon 1976)<i> </i>were
 photographed, measured, and mapped within the transect.A putative outgroup
 population of <i>P. damicornis </i>s.l. (n = 37) haphazardly
 sampled in a reef site in Gonzaga, Cagayan, located ~ 325 km northeast of
 the selected sites, was also examined. Sixteen
 poymorphic microsatellite loci exhibiting robust amplification and
 polymorphism were used for genotyping (Magalon et al. 2004, Starger et al.
 2008, Torda et al. 2013). Forward primers for all loci were labeled at the
 5′-end with either of four fluorophores (6-FAM, VIC, PET, or NED) for
 allelic detection. Fragment analysis was performed on an ABI3730xl
 sequencer (Applied Biosystems) at the Philippine Genome Center core
 sequencing facility (University of the Philippines Diliman). Fragment
 sizes were manually checked in Geneious Prime v2020.0.3 using the
 Microsatellite Plug-in v1.4.6 (Kearse et al. 2012). Reamplification was
 performed for loci and individuals with missing data. Individuals with
 missing data after two rounds of repeat amplification were removed from
 further analyses. The multilocus dataset was checked for genotyping errors
 and evidence of stuttering, large allele drop-outs, and null alleles using
 Micro-checker v2.2.3 (Van Oosterhout et al. 2004).
description: The two files contain multi-locus genotypic data and sample
 metadata from Andrew F. Torres' master's thesis (UP
 Diliman). 
 <strong>Data_BARCGON_16loci_all_genotype.txt</strong> lists 16 polymorphic microsatellite/SSR markers used for analysis, followed by MLGs of all coral ramets collected from five reef sites in the Philippines. <strong>Data_BARCGON_16loci_all_meta.txt</strong> contains sampling information: sample identifiers (Sample_Name, ColonyID_Database, Sample_Number), year of collection (Year), area of sampling (Region, Site, Station, PopCode), coral location in transects (Xcoord, Ycoord), geographic coordinates (Lat_Pop, Long_Pop, Long_Indiv, Lat_Indiv), and coral colony sizes (Colony_Diameter_m, Colony_Diameter_cm). For more information regarding the data, please contact aftorres @msi.upd.edu.ph.