Alison B. Smith, Aanandini Ganesalingam, Haydn Kuchel, Brian R. Cullis

Theoretical and Applied Genetics January 2015, Volume 128, Issue 1, pp 55-72,

http://link.springer.com/article/10.1007/s00122-014-2412-x

Abstract

Key message

Factor analytic mixed models for national crop variety testing programs have the potential to improve industry productivity through appropriate modelling and reporting to growers of variety by environment interaction.

Abstract

Crop variety testing programs are conducted in many countries world-wide. Within each program, data are combined across locations and seasons, and analysed in order to provide information to assist growers in choosing the best varieties for their conditions. Despite major advances in the statistical analysis of multi-environment trial data, such methodology has not been adopted within national variety testing programs. The most commonly used approach involves a variance component model that includes variety and environment main effects, and variety by environment ( V×E ) interaction effects. The variety predictions obtained from such an analysis, and subsequently reported to growers, are typically on a long-term regional basis. In Australia, the variance component model has been found to be inadequate in terms of modelling V×E interaction, and the reporting of information at a regional level often masks important local V×E interaction. In contrast, the factor analytic mixed model approach that is widely used in Australian plant breeding programs, has regularly been found to provide a parsimonious and informative model for V×E effects, and accurate predictions. In this paper we develop an approach for the analysis of crop variety evaluation data that is based on a factor analytic mixed model. The information obtained from such an analysis may well be superior, but will only enhance industry productivity if mechanisms exist for successful technology transfer. With this in mind, we offer a suggested reporting format that is user-friendly and contains far greater local information for individual growers than is currently the case.

Fig. 2 Variety connectivity across regions for the 2013 wheat trials. The numbers along the diagonal are the average number of varieties grown in a trial for each region and the colours of the boxes on the off-diagonals indicate the average number of varieties in common between pairs of trials in different regions. Boundaries for mega-regions are also indicated