Mitochondrial-Nuclear Interaction SNPs in Fundulus Heteroclitus

A collection of genetic data from a natural Fundulus heteroclitus population, analyzing nuclear allele frequency differences associated with two divergent mitochondrial haplotypes. It identifies 349 outlier nuclear SNPs with significant frequency differences between the haplotypes. The data was used to examine how mito-nuclear interactions affect cardiac oxidative phosphorylation function.

Use Cases

• Identify 349 outlier nuclear SNPs associated with divergent mitochondrial haplotypes to study mito-nuclear epistasis.
• Analyze allele frequency differences for ~11,000 nuclear SNPs between two mt-haplotypes to detect signatures of selection.
• Use mt-haplotype as a polygenic factor to model individual variation in oxidative phosphorylation function.
• Examine genes containing outlier SNPs for their role in regulating metabolic processes upstream of oxidative phosphorylation.

Strengths

• Analysis of ~11,000 nuclear SNPs provides a broad genomic scan for mito-nuclear interactions.
• Identifies 349 statistically significant outlier SNPs (236 with 10% FDR) linked to mitochondrial haplotypes.
• Data originates from a single, natural population, controlling for broad geographic confounding factors.

Limitations

• The dataset's sample size (number of individuals genotyped) is not specified.
• The specific file formats, data structure (e.g., VCF, table), and raw genotype calls are not detailed.
• Findings are specific to Fundulus heteroclitus; generalizability to other species is untested.

Provenance

Source

Dryad digital repository.

Collection Method

Genotyping By Sequencing (GBS) data analyzed for nuclear allele frequencies in relation to mitochondrial haplotypes.

Freshness

Last updated in June 2020.

Geography

A single, natural population of Fundulus heteroclitus (killifish).