Canopy temperature and vegetation indices from high-throughput phenotyping improve accuracy of pedigree and genomic selection for grain yield in wheat

Jessica Rutkoski, Jesse Poland, Suchismita Mondal, Enrique Autrique, Lorena González Pérez, José Crossa, Matthew Reynolds, Ravi Singh

Research output: Contribution to journalArticle

Abstract

Genomic selection can be applied prior to phenotyping, enabling shorter breeding cycles and greater rates of genetic gain relative to phenotypic selection. Traits measured using high-throughput phenotyping based on proximal or remote sensing could be useful for improving pedigree and genomic prediction model accuracies for traits not yet possible to phenotype directly. We tested if using aerial measurements of canopy temperature, and green and red normalized difference vegetation index as secondary traits in pedigree and genomic best linear unbiased prediction models could increase accuracy for grain yield in wheat, Triticum aestivum L., using 557 lines in five environments. Secondary traits on training and test sets, and grain yield on the training set were modeled as multivariate, and compared to univariate models with grain yield on the training set only. Cross validation accuracies were estimated within and across-environment, with and without replication, and with and without correcting for days to heading. We observed that, within environment, with unreplicated secondary trait data, and without correcting for days to heading, secondary traits increased accuracies for grain yield by 56% in pedigree, and 70% in genomic prediction models, on average. Secondary traits increased accuracy slightly more when replicated, and considerably less when models corrected for days to heading. In across-environment prediction, trends were similar but less consistent. These results show that secondary traits measured in high-throughput could be used in pedigree and genomic prediction to improve accuracy. This approach could improve selection in wheat during early stages if validated in early-generation breeding plots.

Original languageEnglish (US)
Pages (from-to)2799-2808
Number of pages10
JournalG3: Genes, Genomes, Genetics
Volume6
Issue number9
DOIs
StatePublished - Jan 1 2016
Externally publishedYes

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Pedigree
Triticum
Temperature
Breeding
Phenotype

Keywords

  • GenPred
  • Multivariate analysis
  • Secondary traits in genomic selection
  • Selection index
  • Shared data resource

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics
  • Genetics(clinical)

Cite this

Canopy temperature and vegetation indices from high-throughput phenotyping improve accuracy of pedigree and genomic selection for grain yield in wheat. / Rutkoski, Jessica; Poland, Jesse; Mondal, Suchismita; Autrique, Enrique; Pérez, Lorena González; Crossa, José; Reynolds, Matthew; Singh, Ravi.

In: G3: Genes, Genomes, Genetics, Vol. 6, No. 9, 01.01.2016, p. 2799-2808.

Research output: Contribution to journalArticle

Rutkoski, Jessica ; Poland, Jesse ; Mondal, Suchismita ; Autrique, Enrique ; Pérez, Lorena González ; Crossa, José ; Reynolds, Matthew ; Singh, Ravi. / Canopy temperature and vegetation indices from high-throughput phenotyping improve accuracy of pedigree and genomic selection for grain yield in wheat. In: G3: Genes, Genomes, Genetics. 2016 ; Vol. 6, No. 9. pp. 2799-2808.
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