Data and code from: Extremely fine-scale soil heterogeneity in a rare serpentine endemic plant shapes patterns of genetic diversity

Studies of population genetic structure are typically conducted at the scale of species distributions and encompass large distances and substantial environmental variation. However, population genetic structure could also be present in species with highly restricted global distributions, such as habitat specialists with threatened or vulnerable conservation status. For these organisms, low dispersal distances coupled with fine-scale environmental heterogeneity could influence population genetic composition, potentially creating spatial genetic structure and genotype by environment associations. Here we use the serpentine endemic plant Calochortus tiburonensis, with a global distribution of 160 ha, to evaluate whether fine-scale structure in soil composition and low seed dispersal distances result in the development of population genetic structure. We paired soil elemental analysis with a RAD-seq SNP dataset for 24 C. tiburonensis individuals. Although no population structure was detecte..., , # Data and code from: Extremely fine-scale soil heterogeneity in a rare serpentine endemic plant shapes patterns of genetic diversity

Dataset DOI: [10.5061/dryad.t4b8gtjgs](https://doi.org/10.5061/dryad.t4b8gtjgs)

## Description of the data and file structure

# Code and data for \"Extremely fine-scale soil heterogeneity in a rare serpentine endemic plant shapes patterns of genetic diversity\"

This repository contains scripts and input files used in the analysis for the manuscript titled, \"Extremely fine-scale soil heterogeneity in a rare serpentine endemic plant shapes patterns of genetic diversity\", which is on [biorxiv here](https://www.biorxiv.org/content/10.1101/2025.09.01.673272v1.full.pdf) and will be submitted to Ecology and Evolution shortly.

## Contents:

### code:

`GDM_script.r` - code for the Generalized Dissimilarity Model analysis \
`CATI_PCA_Code.r` - code for the performing PCA on *C. tiburonensis* SNP data with visualization \
`cati_rda.r` - code for the performing R..., ,