DOI: 10.5061/dryad.1bm52p41
title: Data from: Extensive sympatry, cryptic diversity and introgression throughout the geographic distribution of two coral species complexes

description: The identification of species is one of the most basic, and yet critically
 important, issues in biology with far-reaching potential implications for
 fields such as biodiversity conservation, population ecology and
 epidemiology. Morphology has long been the primary tool biologists have
 used to categorize life. However, we now know that a significant portion
 of natural diversity is morphologically hidden, and therefore, we must
 integrate non-morphological tools into the description of biodiversity.
 Here, we demonstrate the utility of multi-locus population genetic data
 for identifying and characterizing cryptic species complexes, even when
 species share large amounts of genetic variability. Specifically, we have
 used DNA sequence data from 12 genomic regions to characterize two
 widespread species complexes in the coral genus Acropora: A. cytherea and
 A. hyacinthus. These two morphospecies have each been sampled from 5-7
 locations throughout their Indo-Pacific distributions, and with the use of
 structure and hierarchical clustering, we demonstrate the presence of at
 least six widespread, cryptic species within these two morphospecies
 complexes. After identifying cryptic lineages, we then utilize the genetic
 data to examine the history of introgressive hybridization within and
 between these morphospecies complexes. Our data indicate that these two
 complexes form a global syngameon with consistent patterns of
 introgression between species across large geographic distributions.
description: Structure_files_by_locationZipped file containing seven files that were used as input for Structure analyses. There is one file for each geographic location. 12 loci were included in each analysis.Australia_IMa_input_filesZipped file containing multiple input files used for IMa analyses of the corals from Australia. The name of each file indicates the pair of species being analyzed.Palau_IMa_input_filesZipped file containing multiple input files used for IMa analyses of the corals from Palau. The name of each file indicates the pair of species being analyzed.Palmyra_IMa_input_filesZipped file containing multiple input files used for IMa analyses of the corals from Palmyra. The name of each file indicates the pair of species being analyzed.Pohnpei_IMa_input_filesZipped file containing multiple input files used for IMa analyses of the corals from Pohnpei. The name of each file indicates the pair of species being analyzed.Samoa_IMa_input_filesZipped file containing multiple input files used for IMa analyses of the corals from American Samoa. The name of each file indicates the pair of species being analyzed.Phylip sequence files for each locusZipped file containing 12 phylip files that contain the sequence data from all individuals for all 12 loci.Phylip_files_by_locus.zipGenBank Accession NumbersAn Excel table listing the GenBank accession numbers of the sequences for each individual sample. A blank indicates a lack of sequence information. GenBank accessions are only available for the 9 loci with lengths ≥200 base pairs.GenBank_accessions.xlsx