DOI: 10.5061/dryad.7d7wm37rm
title: Rapid morphological divergence following a human-mediated introduction: The role of drift and directional selection

description: Theory predicts that when populations are established by few individuals,
 random founder effects can facilitate rapid phenotypic divergence even in
 the absence of selective processes. However, empirical evidence from
 historically documented colonisations suggest that, in most cases, drift
 alone is not sufficient to explain the rate of morphological divergence.
 Here, using the human-mediated introduction of the silvereye (Zosterops
 lateralis) to French Polynesia, which represents a potentially extreme
 example of population founding, we reassess the potential for
 morphological shifts to arise via drift alone. Despite only 80 years of
 separation from their New Zealand ancestors, French Polynesian silvereyes
 displayed significant changes in body and bill size and shape, most of
 which could be accounted for by drift, without the need to invoke
 selection. However, signatures of selection at genes previously identified
 as candidates for bill size and body shape differences in a range of bird
 species, also suggests a role for selective processes in driving
 morphological shifts within this population. Twenty-four SNPs in our
 RAD-Seq dataset were also found to be strongly associated with phenotypic
 variation. Hence, even under population founding extremes, when it is
 difficult to reject drift as the sole mechanism based on rate tests of
 phenotypic shifts, the additional role of divergent natural selection in
 novel environments can be revealed at the level of the genome.
description: This dataset contains VCF files, morphological data and custom
 scripts required to repeat analyses conducted in Sendell-Price et al. (in
 press). Rapid morphological divergence following a human-mediated
 introduction: The role of drift and directional
 selection. <em>Heredity. </em>
 <strong>ZLat_Orientated_SNZ_FP_FullFiltered_63849SNPs.vcf</strong><br> Full dataset VCF file (63,849 SNPs) mapped to the Zosterops lateralis melanops reference genome. <strong>ZLat_Orientated_SNZ_FP_LD_Filtered_5414SNPs.vcf</strong><br> SNP dataset filtered to remove one of every pair of SNPs with r2 &gt; 0 within 100kb sliding windows and SNPs with missing data. This VCF file was used for admixture analysis.  <strong>ZLat_Orientated_SNZ_FP_MaxMissingZero_LD_Filtered_1587SNPs.vcf</strong><br> SNP dataset filtered to remove one of every pair of SNPs with r2 &gt; 0 within 100kb sliding windows and SNPs with missing data. This VCF file was used when producing SFS for demographic analysis. <strong>GWAS</strong><br> The following files were used when preforming GWAS in GEMMA.  SNZ_FP_75indv.bbgeno.gz SNZ_FP_75indv.pheno ZF_Pos_Map.txt gemma_bslmm.sh - script to perform analyses gemma_relmatrix.sh - script to produce relatedness matrix <strong>Pairwise_VCFs</strong><br> Contains VCF files used for outlier detection using PCAdapt. Each VCF contains samples from the New Zealand population plus one French Polynesian island. VCF files have been re-ordered relative to the zebra finch genome (based on output from satsuma synteny).  <strong>Reorder_VCF</strong><br> Custom scripts (plus required files) used to re-order VCF files into zebra finch chromosomes.  <strong>Calculating_Landes_Statistic.xlsx</strong><br> Excel spreadsheet containing morphological data for French Polynesian and New Zealand silvereyes. Also contains calculations of Lande’s statistic Ne* for each morphological trait. <strong>Fastsimcoal</strong><br> The following directory contains scripts and SFS required to repreform demopgraphic inference using fastsimcoal. This directory contains two sub-directories (1 per model tested). Files ending .tpl - describe the model to be tested Files ending .est - details prior estimates for parameters Files ending .obs - 2D site frequency spectra Launch_PointEstimate_Runs.sh - script used to run fastsimcoal for given model.