Inversions contribute disproportionately to parallel genomic divergence in dune sunflowers

The probability of parallel genetic evolution is a function of the strength of selection and constraints imposed by genetic architecture. Inversions capture locally adapted alleles and suppress recombination between them, which limits the range of adaptive responses. Also, the combined phenotypic effect of alleles within inversions is likely to be greater than that of individual alleles, which should further increase the contributions of inversions to parallel evolution. We tested the hypothesis that inversions contribute disproportionately to parallel genetic evolution in independent dune ecotypes of Helianthus petiolaris. We analyzed habitat data and identified variables underlying parallel habitat shifts. Genotype-environment association analyses of these variables indicated parallel responses of inversions to shared selective pressures. We also confirmed larger seed size across the dunes and performed quantitative trait locus (QTL) mapping with multiple crosses. QTL shared between l..., This dataset includes: 

Habitat data collected from areas where wild H. petiolaris sunflowers grow
Seed size data collected from H. petiolaris growing in the wild and under common garden conditions
Unfiltered vcfs used for QTL mapping seed size and looking for genotype environement associations
Genomic locations of previously identified haploblocks (inversions) within H. petiolaris 
Inversion genotypes for the QTL mapping populations 

Please see the README file and associated publication for more complete descriptions of each dataset., , # Data from: Inversions contribute disproportionately to parallel genomic divergence in dune sunflowers

[https://doi.org/10.5061/dryad.bcc2fqznn](https://doi.org/10.5061/dryad.bcc2fqznn)

## Description of the data and file structure

### Files and variables

#### File: Habitat\_data\_clean.csv

**Description:** Habitat data collected from multiple locations where dune and non-dune populations of sunflowers grow.

New data was collected for the populations near Monahans Sandhills State Park in Texas. We established a transect through each population and picked 5 sites for habitat analysis at even intervals along those transects. At each site, we took a photo of a 0.65 m2 quadrat and used ImageJ to determine the proportion of vegetative cover and grass cover. Soil samples were taken from 25 cm deep, dried at 60 °C for 24 h, and pooled from the 5 sites at each population. Available phosphorus, and exchangeable potassium, magnesium, and calcium were measured at A&L Eastern Laboratories (R...