Multitrait, random regression, or simple repeatability model in high-throughput phenotyping data improve genomic prediction for wheat grain yield

Jin Sun, Jessica E. Rutkoski, Jesse A. Poland, José Crossa, Jean Luc Jannink, Mark E. Sorrells

Research output: Contribution to journalArticle

Abstract

High-throughput phenotyping (HTP) platforms can be used to measure traits that are genetically correlated with wheat (Triticum aestivum L.) grain yield across time. Incorporating such secondary traits in the multivariate pedigree and genomic prediction models would be desirable to improve indirect selection for grain yield. In this study, we evaluated three statistical models, simple repeatability (SR), multitrait (MT), and random regression (RR), for the longitudinal data of secondary traits and compared the impact of the proposed models for secondary traits on their predictive abilities for grain yield. Grain yield and secondary traits, canopy temperature (CT) and normalized difference vegetation index (NDVI), were collected in five diverse environments for 557 wheat lines with available pedigree and genomic information. A two-stage analysis was applied for pedigree and genomic selection (GS). First, secondary traits were fitted by SR, MT, or RR models, separately, within each environment. Then, best linear unbiased predictions (BLUPs) of secondary traits from the above models were used in the multivariate prediction models to compare predictive abilities for grain yield. Predictive ability was substantially improved by 70%, on average, from multivariate pedigree and genomic models when including secondary traits in both training and test populations. Additionally, (i) predictive abilities slightly varied for MT, RR, or SR models in this data set, (ii) results indicated that including BLUPs of secondary traits from the MT model was the best in severe drought, and (iii) the RR model was slightly better than SR and MT models under drought environment.

Original languageEnglish (US)
JournalPlant Genome
Volume10
Issue number2
DOIs
StatePublished - Jan 1 2017
Externally publishedYes

Fingerprint

Pedigree
repeatability
Triticum
grain yield
genomics
phenotype
wheat
prediction
Droughts
pedigree
Statistical Models
Temperature
drought
Population
statistical models
marker-assisted selection
Triticum aestivum
canopy

ASJC Scopus subject areas

  • Genetics
  • Agronomy and Crop Science
  • Plant Science

Cite this

Multitrait, random regression, or simple repeatability model in high-throughput phenotyping data improve genomic prediction for wheat grain yield. / Sun, Jin; Rutkoski, Jessica E.; Poland, Jesse A.; Crossa, José; Jannink, Jean Luc; Sorrells, Mark E.

In: Plant Genome, Vol. 10, No. 2, 01.01.2017.

Research output: Contribution to journalArticle

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