DOI: 10.5061/dryad.nk98sf84m
title: Range-wide climate risk and adaptive potential in an iconic cold-water species (Part 2/2)

description: Predicting extinction risk from climate change requires understanding
 adaptive variation and local adaptation across species’ ranges. We combine
 experimental and -omics approaches with climate change modeling to
 identify molecular mechanisms of local adaptation to heat stress in brook
 trout, a coldwater species experiencing extirpations due to warming
 temperatures. We identify genomic variation corresponding with thermal
 conditions across the native range, suggesting local adaptation, and
 experimentally identify variants linked with gene expression responses to
 thermal stress. Using climate projections, we find that southern brook
 trout populations are the most vulnerable to extirpation from climate
 warming and mid-range populations are the most promising candidates for
 receiving assisted gene flow to improve climate resilience. Together, this
 work highlights the importance of genomic information in managing
 populations threatened by climate change. This is Part 2 of the full
 dataset, containing the RNAseq dataset.
description: # Range-wide climate risk and adaptive potential in an iconic cold-water
 species (Part 2/2) Dataset DOI:
 [10.5061/dryad.nk98sf84m](10.5061/dryad.nk98sf84m) This is one of two
 datasets related to the same study: * Part 1 contains all of the RADseq
 data, [https://doi.org/10.5061/dryad.sj3tx96fs](https://doi.org/10.5061/dryad.sj3tx96fs) * Part 2 (this data) contains all of the RNAseq data, [https://doi.org/](https://doi.org/10.5061/dryad.4qrfj6qgn)[10.5061/dryad.nk98sf84m](10.5061/dryad.nk98sf84m) ## Description of the data and file structure The code and RNAseq data associated with Meek et al. Nature Communications 2025 manuscript. Zipped files: * PLATE_1.zip 79.26 GB - contains the demultiplexed RNAseq sequences for each individual in Plate 1. The sample ID of the individual is in the file name (e.g. "44B*"). * PLATE_2.zip 63.53 GB - *contains the demultiplexed RNAseq sequences for each individual in Plate 2. The sample ID of the individual is in the file name (e.g. "44B*"). * PLATE_3.zip 4 - *contains the demultiplexed RNAseq sequences for each individual in Plate 3. The sample ID of the individual is in the file name (e.g. "44B*"). ### Files and variables **Description:** All RNAseq data generated on individuals used in the brook trout common garden experiment in Meek et al. Nature Communications 2025. File: RNAseqBTSampleInfo.csv Metadata: "RNAseqBTSampleInfo" Column headers for metadata: | Variable | Description | | :------------------- | :---------------------------------------------------------- | | SampleID | Individual sample ID | | GONADwt | Gonad weight in grams | | Sex | Male or female | | Tag | Individual tag number | | TagColor | Tag color | | Lake | Lake sampled from | | Stratified | Stratified lake or unstratified | | TankNumber | Tank number | | Treatment | Cold or hot treatment | | Age | Age of fish in years | | AgeMethod | Method of aging fish | | LengthE | Length of fish | | WtE | Weight in grams | | SampleTime | Time of sampling | | DateSampled | Date of sampling | | ExperimentDaySampled | Day of treamtment--3, 9 or 15 days of exposure to treatment | blank cells = NA ## Code/software "BrookTroutCommonGardenExperimentScripts.zip" (included in the dataset https://doi.org/10.5061/dryad.sj3tx96fs) contains the scripts to process the RNAseq data and do the eQTL analysis for the common garden experiment as described in Meek et al. Nature Communications 2025.