Efficiency of the inbreeding coefficient f and other estimators in detecting null alleles, as revealed by empirical data of locus oke3 across 65 populations of chum salmon Oncorhynchus keta

J Fish Biol. 2015 Jan;86(1):402-8. doi: 10.1111/jfb.12568. Epub 2014 Nov 26.

Abstract

A survey of 65 populations of chum salmon Oncorhynchus keta across the species range revealed homozygote excess (947 homozygotes in 2954 fish) at a polymerase chain reaction (PCR)-based simple sequence repeat (SSR) locus oke3 with multiple alleles, whereas re-designed PCR primers indicated that 328 of these homozygotes were actually heterozygotes. Statistically significant high positive values of inbreeding coefficients, f, in multiple populations appeared to be a reliable predictor of null alleles. Based on these data, three methods were checked for their ability to estimate null-allele frequencies.

Keywords: DNA amplification; SNP; f-value; null allele; population study.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Alleles
  • Animals
  • DNA Primers
  • Gene Frequency
  • Genetics, Population*
  • Heterozygote
  • Homozygote
  • Inbreeding*
  • Microsatellite Repeats
  • Oncorhynchus keta / genetics*
  • Polymerase Chain Reaction

Substances

  • DNA Primers