Exploration of genetic architecture through sib-ship reconstruction in advanced breeding population of Eucalyptus nitens

• Published in: PloS one Vol. 12; no. 9; p. e0185137
• Main Authors: Klápště, Jaroslav, Suontama, Mari, Telfer, Emily, Graham, Natalie, Low, Charlie, Stovold, Toby, McKinley, Russel, Dungey, Heidi
• Format: Journal Article
• Language: English
• Published: United States Public Library of Science 22.09.2017; Public Library of Science (PLoS)
• Subjects: Accuracy; Australia; Biology and Life Sciences; Breeding; Design; Estimates; Eucalyptus; Eucalyptus - genetics; Exploration; Genetic aspects; Genetic diversity; Genetic variance; Genetic Variation; Genomes; Genotypes; Heritability; Inbreeding; Inbreeding depression; Models, Genetic; Multivariate Analysis; Pedigree; Plant Breeding; Pollen; Population; Population studies; Progeny; Quantitative genetics; Reconstruction; Ships; Shrinkage; Software; Stiffness; Test procedures; Tree breeding; Trees; Variance; Wood
• ISSN: 1932-6203; 1932-6203
• DOI: 10.1371/journal.pone.0185137

Accurate inference of relatedness between individuals in breeding population contributes to the precision of genetic parameter estimates, effectiveness of inbreeding management and the amount of genetic progress delivered from breeding programs. Pedigree reconstruction has been proven to be an efficient tool to correct pedigree errors and recover hidden relatedness in open pollinated progeny tests but the method can be limited by the lack of parental genotypes and the high proportion of alien pollen from outside the breeding population. Our study investigates the efficiency of sib-ship reconstruction in an advanced breeding population of Eucalyptus nitens with only partially tracked pedigree. The sib-ship reconstruction allowed the identification of selfs (4% of the sample) and the exploration of their potential effect on inbreeding depression in the traits studied. We detected signs of inbreeding depression in diameter at breast height and growth strain while no indications were observed in wood density, wood stiffness and tangential air-dry shrinkage. After the application of a corrected sib-ship relationship matrix, additive genetic variance and heritability were observed to increase where signs of inbreeding depression were initially detected. Conversely, the same genetic parameters for traits that appeared to be free of inbreeding depression decreased in size. It therefore appeared that greater genetic variance may be due, at least in part, to contributions from inbreeding in these studied populations rather than a removal of inbreeding as is traditionally thought.