The use of genetic correlations to evaluate associations between SNP markers and quantitative traits

Brawner, J. T., Dillon, S. K., Lee, D. J., Meder, A. R., Dieters, M. J. and Southerton, Simon G. (2012) The use of genetic correlations to evaluate associations between SNP markers and quantitative traits. Tree Genetics & Genomes, 8 6: 1423-1435. doi:10.1007/s11295-012-0530-7

Author Brawner, J. T.
Dillon, S. K.
Lee, D. J.
Meder, A. R.
Dieters, M. J.
Southerton, Simon G.
Title The use of genetic correlations to evaluate associations between SNP markers and quantitative traits
Journal name Tree Genetics & Genomes   Check publisher's open access policy
ISSN 1614-2942
Publication date 2012-12
Sub-type Article (original research)
DOI 10.1007/s11295-012-0530-7
Volume 8
Issue 6
Start page 1423
End page 1435
Total pages 13
Place of publication Heidelberg, Germany
Publisher Springer
Collection year 2013
Language eng
Formatted abstract
Open-pollinated progeny of Corymbia citriodora established in replicated field trials were assessed for stem diameter, wood density, and pulp yield prior to genotyping single nucleotide polymorphisms (SNP) and testing the significance of associations between markers and assessment traits. Multiple individuals within each family were genotyped and phenotyped, which facilitated a comparison of standard association testing methods and an alternative method developed to relate markers to additive genetic effects. Narrow-sense heritability estimates indicated there was significant additive genetic variance within this population for assessment traits (ĥ2=0.28 to 0.44) and genetic correlations between the three traits were negligible to moderate (rG = 0.08 to 0.50). The significance of association tests (p values) were compared for four different analyses based on two different approaches: (1) two software packages were used to fit standard univariate mixed models that include SNP-fixed effects, (2) bivariate and multivariate mixed models including each SNP as an additional selection trait were used. Within either the univariate or multivariate approach, correlations between the tests of significance approached +1; however, correspondence between the two approaches was less strong, although between-approach correlations remained significantly positive. Similar SNP markers would be selected using multivariate analyses and standard marker-trait association methods, where the former facilitates integration into the existing genetic analysis systems of applied breeding programs and may be used with either single markers or indices of markers created with genomic selection processes.
Keyword Genetic correlation
Tests of association
Single nucleotide polymorphism (SNP)
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status UQ
Additional Notes Published online: 9 June 2012.

Document type: Journal Article
Sub-type: Article (original research)
Collections: Queensland Alliance for Agriculture and Food Innovation
Official 2013 Collection
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Citation counts: TR Web of Science Citation Count  Cited 2 times in Thomson Reuters Web of Science Article | Citations
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