Modelling additive genotype-by-environment interaction is best achieved with the use of factor analytic models. With numerous environments and for outcrossing plant species, computation is facilitated using reduced animal models. The development of efficient plant breeding strategies requires a knowledge of the magnitude and structure of genotype-by-environment interaction. This information can be obtained from appropriate linear mixed model analyses of phenotypic data from multi-environment trials. The use of factor analytic models for genotype-by-environment effects is known to provide a reliable, parsimonious and holistic approach for obtaining estimates of genetic correlations between all pairs of trials. When breeding for outcrossing species the focus is on estimating additive genetic correlations and effects which is achieved by including pedigree information in the analysis. The use of factor analytic models in this setting may be computationally prohibitive when the number of environments is moderate to large. In this paper, we present an approach that uses an approximate reduced animal model to overcome the computational issues associated with factor analytic models for additive genotype-by-environment effects. The approach is illustrated using a Pinus radiata breeding dataset involving 77 trials, located in environments across New Zealand and south eastern Australia, and with pedigree information on 315,581 trees. Using this approach we demonstrate the existence of substantial additive genotype-by-environment interaction for the trait of stem diameter measured at breast height. This finding has potentially significant implications for both breeding and deployment strategies. Although our approach has been developed for forest tree breeding programmes, it is directly applicable for other outcrossing plant species, including sugarcane, maize and numerous horticultural crops.

A new breeding strategy is presented for the Radiata Pine Breeding Company, a New Zealand based research consortium, that drives the breeding program for Pinus radiata for both the New Zealand and New South Wales based Australian forest plantation industry. The new strategy builds on the existing base for P. radiata, and on the last strategy review in 2000. The new strategy comprises a large open-pollinated (OP) Main Population (MP) with 500 female parents and two sublines (250 female parents per subline). The MP will be tested using alpha designs, single-tree plots and incomplete blocks to maximise efficiency. Each subline will be tested on four sites, geographically distant from the other subline. The MP will be managed in discrete generations. Selection of the next generation will be using a combination of backward and forward selection, but the strict control of inbreeding with identified lineage will rely on the development of parental reconstruction for OP progeny. There are alternatives to this, however, such as estimating the group coancestry and accepting some additional increase in inbreeding. This is a new and significant departure from previous breeding strategies for P. radiata in New Zealand. There will also be a single, small Elite Population (EP), tested 50% as progeny and 50% as clones. Twenty four parents will be tested each year as clones and 24 as seedling progeny with some overlap between the two. It is expected that the clonal population will capture the greatest gains in traits with low heritabilities, and the half-sib progeny will capture the greatest gains in traits with high heritabilities. The two sublines will be maintained in the EP, and breeding will be managed as a rolling front with trials established every year, while trials of the MP will be established every 10 years.

Background: Three of the traits considered of most economic importance in the genetic improvement of Pinus radiata D. Don, termed as 'key' traits, are tree diameter (a proxy for stem volume), wood density and wood stiffness. A number of other traits (non-key traits) may be of equal importance to growers depending on where and for what purpose the trees are being grown. Two such non-key traits are: resistance to the needle blight caused by Dothistroma septosporum (Dorog.) M. Morelet, and reduced heartwood content.

Growth and form traits from a series of three provenance trials of Pinus radiata D. Don planted in New Zealand and Australia were analysed at age 9 years from planting. The trials included selections from three mainland California natural populations-Año Nuevo, Monterey and Cambria. Monterey and Cambria performed better than Año Nuevo at two New Zealand sites, but Monterey and Año Nuevo were almost identical in growth, whereas Cambria grew less vigorously at the Australian site. We detected significant provenance differences for diameter at breast height (DBH) growth and stem straightness across countries (p<0.001). Estimated heritability for DBH ranged from 0.19 to 0.26 within sites, while heritability estimates for stem straightness and branching frequency ranged from 0.10 to 0.24. Estimated type B genetic correlations for DBH were always higher between the two trials in New Zealand trials than between pairs of trials in New Zealand and the Australian site. The genetic coefficient of variation (CV A ) for DBH was around 8-10% compared to ca. 5% for the current breeding population. These results suggested that there is appreciable genetic variation in the native populations, and infusion of these materials would increase the genetic variation in current breeding populations. Ten unrelated parents ranked above control seedlots from the older open-pollinated seed orchard stock for DBH growth and would be potential candidates for infusion. The promising performance of the Cambria material is an important result because the genetic base of the present Australian and New Zealand plantations is principally derived from Año Nuevo and Monterey.

No abstract