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Estimation of population structure in coastal Douglas-fir [Pseudotsuga menziesii (Mirb.) Franco var. menziesii] using allozyme and microsatellite markersAuthor(s): Konstantin V. Krutovsky; John Bradley St. Clair; Robert Saich; Valerie D. Hipkins; David B. Neale
Source: Tree Genetics & Genomes. 5: 641-658
Publication Series: Scientific Journal (JRNL)
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DescriptionCharacterizing population structure using neutral markers is an important first step in association genetic studies in order to avoid false associations between phenotypes and genotypes that may arise from nonselective demographic factors. Population structure was studied in a wide sample of approximately 1,300 coastal Douglas-fir [Pseudotsuga menziesii (Mirb.) Franco var. menziesii] trees from Washington and Oregon. This sample is being used for association mapping between cold hardiness and phenology phenotypes and single-nucleotide polymorphisms in adaptive-trait candidate genes. All trees were genotyped for 25 allozyme and six simple sequence repeat (SSR) markers using individual megagametophytes. Population structure analysis was done separately for allozyme and SSR markers, as well as for both datasets combined. The parameter of genetic differentiation was standardized to take into account high within-population variation in the SSR loci and to allow comparison with allozyme loci.
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CitationKrutovsky, Konstantin V.; St. Clair, John Bradley; Saich, Robert; Hipkins, Valerie D.; Neale, David B. 2009. Estimation of population structure in coastal Douglas-fir [Pseudotsuga menziesii (Mirb.) Franco var. menziesii] using allozyme and microsatellite markers. Tree Genetics & Genomes. 5: 641-658.
KeywordsAllozyme, genetic markers, microsatellites, population structure, Pseudotsuga menziesii, simple sequence repeats (SSR)
- Linking phenotype, genotype and environment to unravel genetic components underlying cold hardiness in coastal Douglas-fir (Pseudotsuga menziesii var. menziesii)
- A sex-averaged genetic linkage map in coastal Douglas-fir (Pseudotsuga menziesii [Mirb] Franco var menziesii) based on RFLP and RAPD markers
- Multilocus patterns of nucleotide diversity and divergence reveal positive selection at candidate genes related to cold hardiness in coastal Douglas Fir (Pseudotsuga menziesii var. menziesii).
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