Characterization of 14 anonymous nuclear loci in Pinus thunbergii and their cross-species transferability

Abstract

We characterized 14 anonymous nuclear loci from Pinus thunbergii Parl., an important pine species native to Japan. One hundred and twenty-six single nucleotide polymorphisms (SNPs) were identified from these loci, giving a frequency of 1 SNP per 51 bp. Nucleotide diversity (θ) ranged from 1.06 × 10⁻³ to 11.87 × 10⁻³, with an average of 4.99 × 10⁻³. Only one locus (mK45) deviated significantly from the Hardy-Weinberg equilibrium. Thirteen of 14 loci were applicable in other pine species. These loci will be useful for nucleotide variation studies and will provide material for SNP-based marker development in P. thunbergii and related species.

Keywords

anonymous nuclear loci / Pinus thunbergii / SNP / SCAR / cross-species transferability

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