DOI: 10.5061/dryad.6q573n65w
title: EST-SSR genotyping data from: Ecotype variation in the endemic tree Callicarpa subpubescens on small oceanic islands: Genetic, phenotypic, and environmental insights

description: Callicarpa subpubescens, endemic to the Ogasawara Islands, is suggested to
 have multiple ecotypes in the Hahajima Islands, specifically in the
 central part of the Ogasawara Islands. In this study, associations between
 genetic groups and spatial distribution, habitat, leaf morphology, size
 structure, and flowering time of each genetic group were investigated on
 Hahajima and the satellite Imoutojima Islands. Genetic groups were
 identified using EST-SSR markers, revealing four ecotypes named based on
 morphological features: Dwarf (D), Glabrescent (G), Tall (T), and Middle
 (M), with M being a result of the hybridization of G and T. Ecotype D,
 adapted to dry environments, is characterized by small tree size, dense
 thick leaves with abundant hairs, and is distributed in dry scrub. Ecotype
 G, adapted to understory of mesic forests, lacks leaf hairs. Ecotype T,
 adapted to the canopy of mesic forests, has hairy leaves and is tall in
 tree height. Ecotype M, adapted to the canopy of mesic scrub or edges of
 mesic forests, has hairy leaves but with a shorter tree height than
 ecotype T. Flowering peaks differed among all ecotype pairs except G and
 M, but the flowering times more or less overlapped among all ecotypes,
 suggesting that pre-mating isolation among ecotypes is not perfect.
 Post-mating isolation is considered absent, as there were no differences
 in the results, germination, and survival rates of one-year seedlings
 among inter- and intra-ecotype crossings. The existence of such ecotypes
 provides valuable insights into the ongoing speciation processes adapting
 to the oceanic island environments.
description: Genotypes of each sample were characterized by the 17 EST-SSR
 markers, which were developed for <em>Callicarpa
 subpubescens</em> (Setsuko<em> </em>et al. 2018). PCR
 was carried out in 6 µl reaction mixtures containing ca. 1 ng genomic DNA,
 2.5 µl Type-it Multiplex PCR Master Mix (Qiagen, Hilden, Germany), and 0.2
 µM of each primer. PCR conditions were as follows: 95°C for 5 min, then 35
 or 38 cycles of 94°C for 30 s, 55°C or 60°C for 90 s, 72°C for 90 s,
 followed by final extension at 60°C for 30 min. PCR fragments were then
 separated using a 3130 Genetic Analyzer (Applied Biosystems, CA, USA) and
 genotyped using GeneMarker software (SoftGenetics, PA, USA).
  
description: # EST-SSR genotyping data from: Ecotype variation in the endemic tree
 Callicarpa subpubescens on small oceanic islands: Genetic, phenotypic, and
 environmental insights
 [https://doi.org/10.5061/dryad.6q573n65w](https://doi.org/10.5061/dryad.6q573n65w) This study investigated associations between genetic groups and ecological and morphological traits in *Callicarpa subpubescens* on the Hahajima and Imoutojima Islands of the Ogasawara Islands, revealing four ecotypes adapted to different habitats and displaying partial reproductive isolation. This data indicates EST-SSR genotypes of all 716 individuals characterized by the 17 EST-SSR markers, which were developed for *Callicarpa subpubescens* (Setsuko et al. 2018). ## Description of the data and file structure MS Excel sheet "SupplementaryData1" contains 17 EST-SSR genotypes of all studied 716 individuals. Column A contains individual IDs, column B contains the names of the islands to which the individuals belong, columns C through AD contain genotypes at 14 EST-SSR loci, columns AE and AF contain latitude and longitude, and column AG indicates whether the individual was used in the outlier test, with "SH" indicating that it was used if the population name starting with "SH" is input. Missing values are represented as "0" for genotypes and as "-" for latitude and longitude. ## Sharing/access Information Links to publications that cite or use the data: Setsuko S, Sugai K, Tamaki I, Hayama K, Kato H (2023) Ecotype variation in the endemic tree *Callicarpa subpubescens* on small oceanic islands: genetic, phenotypic, and environmental insights. Heredity Links to other publicly accessible locations of the data: No Links/relationships to ancillary data sets: No Was data derived from another source? No If yes, list source(s): NA Recommended citation for this dataset: Setsuko S, Sugai K, Tamaki I, Hayama K, Kato H (2023) Ecotype variation in the endemic tree *Callicarpa subpubescens* on small oceanic islands: genetic, phenotypic, and environmental insights. Dryad Digital Repository. [https://doi.org/10.5061/dryad.6q573n65w](https://doi.org/10.5061/dryad.6q573n65w)