Format

Send to

Choose Destination
Proc Natl Acad Sci U S A. 2014 Mar 11;111(10):3775-80. doi: 10.1073/pnas.1318945111. Epub 2014 Feb 28.

High-throughput sequencing reveals inbreeding depression in a natural population.

Author information

1
Department of Animal Behaviour, Bielefeld University, 33501 Bielefeld, Germany.

Abstract

Proxy measures of genome-wide heterozygosity based on approximately 10 microsatellites have been used to uncover heterozygosity fitness correlations (HFCs) for a wealth of important fitness traits in natural populations. However, effect sizes are typically very small and the underlying mechanisms remain contentious, as a handful of markers usually provides little power to detect inbreeding. We therefore used restriction site associated DNA (RAD) sequencing to accurately estimate genome-wide heterozygosity, an approach transferrable to any organism. As a proof of concept, we first RAD sequenced oldfield mice (Peromyscus polionotus) from a known pedigree, finding strong concordance between the inbreeding coefficient and heterozygosity measured at 13,198 single-nucleotide polymorphisms (SNPs). When applied to a natural population of harbor seals (Phoca vitulina), a weak HFC for parasite infection based on 27 microsatellites strengthened considerably with 14,585 SNPs, the deviance explained by heterozygosity increasing almost fivefold to a remarkable 49%. These findings arguably provide the strongest evidence to date of an HFC being due to inbreeding depression in a natural population lacking a pedigree. They also suggest that under some circumstances heterozygosity may explain far more variation in fitness than previously envisaged.

KEYWORDS:

RAD sequencing; genetic variability; heterozygosity fitness correlation; inbreeding; single nucleotide polymorphism

PMID:
24586051
PMCID:
PMC3956162
DOI:
10.1073/pnas.1318945111
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for HighWire Icon for PubMed Central
Loading ...
Support Center