Data from: Heritability estimates from genome wide relatedness matrices in wild populations: application to a passerine, using a small sample size
Perrier, Charles, Centre d'Ecologie Fonctionnelle et Evolutive
Delahaie, Boris, Centre d'Ecologie Fonctionnelle et Evolutive
Charmantier, Anne, Centre d'Ecologie Fonctionnelle et Evolutive
Published Mar 30, 2018 on Dryad.
Cite this dataset
Perrier, Charles; Delahaie, Boris; Charmantier, Anne (2018). Data from: Heritability estimates from genome wide relatedness matrices in wild populations: application to a passerine, using a small sample size [Dataset]. Dryad. https://doi.org/10.5061/dryad.k6r1mk8
Genomic developments have empowered the investigation of heritability in wild populations directly from genome wide relatedness matrices (GRM). Such GRM based approaches can in particular be used to improve or substitute approaches based on social pedigree (PED-social). However, measuring heritability from GRM in the wild has not been widely applied yet, especially using small samples and in non-model species. Here, we estimated heritability for four quantitative traits (tarsus length, wing length, bill length and body mass), using PED-social and a pedigree corrected by genetic data (PED-corrected) and GRM from a small sample (n = 494) of blue tits from natural populations in Corsica genotyped at nearly 50,000 filtered SNPs derived from RAD-seq. We also measured genetic correlations among traits and we performed chromosome partitioning. Heritability estimates were slightly higher when using GRM compared to PED-social, and PED-corrected yielded intermediate values, suggesting a minor underestimation of heritability in PED-social due to incorrect pedigree links, including extra-pair paternity, and to lower information content than the GRM. Genetic correlations among traits were similar between PED-social and GRM but credible intervals were very large in both cases, suggesting a lack of power for this small dataset. Although a positive linear relationship was found between the number of genes per chromosomes and the chromosome heritability for tarsus length, chromosome partitioning similarly showed a lack of power for the three other traits. We discuss the usefulness and limitations of the quantitative genetic inferences based on genomic data in small samples from wild populations.
BLUPS for the four phenotypic traits studied. Each row corresponds to one individual.
Plink files (bed, bim, fam) containing genomic data for the 494 individuals.
Pairwise relatedness obtained from social pedigree.