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<b>Abstract</b><br/>

Adaptation often proceeds from standing variation, and natural selection acting on pairs of populations is a quantitative continuum ranging from parallel to divergent. Yet, it is unclear how the extent of parallel genetic evolution during adaptation from standing variation is affected by the difference in the direction of selection between populations. Nor is it clear whether the availability of standing variation for adaptation affects progress toward speciation in a manner that depends on the difference in the direction of selection. We conducted a theoretical study investigating these questions and have two primary findings. First, the extent of parallel genetic evolution between two populations rapidly declines as selection changes from fully parallel toward divergent, and this decline is steeper in organisms with more traits (i.e., greater dimensionality). This rapid decline happens because small differences in the direction of selection greatly reduce the fraction of alleles that are beneficial in both populations. For example, populations adapting to optima separated by an angle of 33° might have only 50% of potentially beneficial alleles in common. Second, relative to when adaptation is from only new mutation, adaptation from standing variation improves hybrid fitness under parallel selection and reduces hybrid fitness under divergent selection. Under parallel selection, genetic parallelism from standing variation reduces the phenotypic segregation variance in hybrids, thereby increasing mean fitness in the parental environment. Under divergent selection, larger pleiotropic effects of alleles fixed from standing variation lead to maladaptive transgressive phenotypes when combined in hybrids. Adaptation from standing genetic variation therefore slows progress toward speciation under parallel selection and facilitates progress toward speciation under divergent selection.</p>; <b>Usage notes</b><br /><div class="o-metadata__file-usage-entry"> <h4 class="o-heading__level3-file-title">Simulation python script</h4> <div class="o-metadata__file-description">This is the simulation script used to generate results plotted in the main text. It was run using Python v3.6.4.</div> <div class="o-metadata__file-name">MainTextSims.py</div> </div> <div class="o-metadata__file-usage-entry"> <h4 class="o-heading__level3-file-title">Mathematica notebooks (zip)</h4> <div class="o-metadata__file-description">This is a zip folder containing Wolfram Mathematica Notebooks used to derive the analytical results.</div> <div class="o-metadata__file-name">notebooks.zip</div> </div> <div class="o-metadata__file-usage-entry"> <h4 class="o-heading__level3-file-title">Simulated data and R script</h4> <div class="o-metadata__file-description">This ZIP folder contains an RProject file, R script, and simulated data. The script grabs data from the 'data' folder to make the plots used in the paper.</div> <div class="o-metadata__file-name">Analysis_and_figures_Rproject.zip</div> </div>