Climate Adaptation Genetic Variants and Modeling Scripts for Quercus variabilis

Quercus variabilis candidate SNPs and structural variants for climate adaptation are contained in 2.6 MB of VCF files, processed with LD filtering and stringent q-value thresholds. The dataset, authored by Somone Researcher and last updated in April 2026, includes R scripts for species distribution modeling, genotype-environment association testing, and genome-niche index calculations.

Use Cases

• Identifying candidate genetic variants for climate adaptation based on concordant results from LFMM, RDA, and PCAdapt analyses.
• Modeling habitat suitability and species distribution under climate change using the provided SDM and GDM scripts.
• Testing genotype-environment associations with the included Bayesian GLMM analytical pipeline.
• Calculating genome-niche indices to identify potential sources for evolutionary rescue.

Strengths

• Data size is 2.6 MB, indicating a focused and manageable dataset.
• Variants have undergone LD-based filtering with a defined r² < 0.8 threshold within 50kb windows.
• Stringent q-value thresholds (1e-2 for index variants, 1e-1 for secondary variants) were applied.

Limitations

• Row count is unknown, which may limit suitability assessment.
• Column-level documentation is absent; field semantics must be inferred after download.

Provenance

Source

figshare

Collection Method

Candidate variants identified through concordant results from LFMM, RDA and PCAdapt analyses.

Time Range

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Freshness

Last updated 2026-04-16 04:40:15; freshness should be verified.

Geography

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