Abstract

In this study, we extend research on genomic prediction (GP) to polysomic polyploid plant species with the main objective to investigate single-trait (ST) and multitrait (MT) multienvironment (ME) models using field trial data from 3 locations in Sweden [Helgegården (HEL), Mosslunda (MOS), Umeå (UM)] over 2 years (2020, 2021) of 253 potato cultivars and breeding clones for 5 tuber weight traits and 2 tuber flesh quality characteristics. This research investigated the GP of 4 genome-based prediction models with genotype × environment interactions (GEs): (1) ST reaction norm model (M1), (2) ST model considering covariances between environments (M2), (3) ST M2 extended to include a random vector that utilizes the environmental covariances (M3), and (4) MT model with GE (M4). Several prediction problems were analyzed for each of the GP accuracy of the 4 models. Results of the prediction of traits in HEL, the high yield potential testing site in 2021, show that the best-predicted traits were tuber flesh starch (%), weight of tuber above 60 or below 40 mm in size, and the total tuber weight. In terms of GP, accuracy model M4 gave the best prediction accuracy in 3 traits, namely tuber weight of 40–50 or above 60 mm in size, and total tuber weight, and very similar in the starch trait. For MOS in 2021, the best predictive traits were starch, weight of tubers above 60, 50–60, or below 40 mm in size, and the total tuber weight. MT model M4 was the best GP model based on its accuracy when some cultivars are observed in some traits. For the GP accuracy of traits in UM in 2021, the best predictive traits were the weight of tubers above 60, 50–60, or below 40 mm in size, and the best model was MT M4, followed by models ST M3 and M2.

Keywords

Solanum tuberosum; genomic prediction in potato; genomic x environment interaction; multienvironment modeling; multiple trait modeling; single-environment modeling; single-trait modeling

Published in

G3
2023, Volume: 13, number: 2, article number: jkac322

SLU Authors

• Reslow, Fredrik

  • Department of Plant Breeding, Swedish University of Agricultural Sciences
    

• Ortiz Rios, Rodomiro Octavio

  • Department of Plant Breeding, Swedish University of Agricultural Sciences
    

Sustainable Development Goals

End hunger, achieve food security and improved nutrition and promote sustainable agriculture


UKÄ Subject classification

Horticulture
Agricultural Science
Genetics and Breeding


Publication identifier

DOI: https://doi.org/10.1093/g3journal/jkac322

Permanent link to this page (URI)

https://res.slu.se/id/publ/120488