title: Genomic prediction of northern corn leaf blight resistance in maize with combined or separated training sets for heterotic groups.
abstract: Northern corn leaf blight (NCLB), a severe fungal disease causing yield losses worldwide, is most effectively controlled by resistant varieties. Genomic prediction could greatly aid resistance breeding efforts. However, the development of accurate prediction models requires large training sets of genotyped and phenotyped individuals. Maize hybrid breeding is based on distinct heterotic groups that maximize heterosis (the dent and flint groups in Central Europe). The resulting allocation of resources to parallel breeding programs challenges the establishment of sufficiently sized training sets within groups. Therefore, using training sets combining both heterotic groups might be a possibility of increasing training set sizes and thereby prediction accuracies. The objectives of our study were to assess the prospect of genomic prediction of NCLB resistance in maize and the benefit of a training set that combines two heterotic groups. Our data comprised 100 dent and 97 flint lines, phenotyped for NCLB resistance per se and genotyped with high-density single-nucleotide polymorphism marker data. A genomic BLUP model was used to predict genotypic values. Prediction accuracies reached a maximum of 0.706 (dent) and 0.690 (flint), and there was a strong positive response to increases in training set size. The use of combined training sets led to significantly greater prediction accuracies for both heterotic groups. Our results encourage the application of genomic prediction in NCLB-resistance breeding programs and the use of combined training sets.
authors: Institute of Plant Breeding, Seed Sciences and Population Genetics, University of Hohenheim, Stuttgart 70599, Germany. Frank.Technow@uni-hohenheim.de
authors: Frank
authors: F
authors: Technow
authors: Anna
authors: A
authors: Bürger
authors: Albrecht E
authors: AE
authors: Melchinger
mesh_terms: D001499:Bayes Theorem; D060467:Disease Resistance; D018745:Genome, Plant; D005838:Genotype; D006823:Hybrid Vigor; D015810:Linkage Disequilibrium; D010641:Phenotype; D010935:Plant Diseases / Q000235:genetics* / Q000382:microbiology; D020641:Polymorphism, Single Nucleotide; D003313:Zea mays / Q000235:genetics*
keywords: GenPred; disease resistance; genomic prediction; heterotic groups; maize; northern corn leaf blight; shared data resources
references: Genetics. 2012 Jul;191(3):969-87
references: 22554888
references: Theor Appl Genet. 2003 Mar;106(5):895-903
references: 12647065
references: Proc Natl Acad Sci U S A. 2011 Apr 26;108(17):6893-8
references: 21482771
references: J Dairy Sci. 2009 Feb;92(2):433-43
references: 19164653
references: Nat Genet. 2012 Jan 15;44(2):217-20
references: 22246502
references: J Dairy Sci. 2008 Nov;91(11):4414-23
references: 18946147
references: Genet Sel Evol. 2009 Nov 24;41:51
references: 19930712
references: Theor Appl Genet. 2011 Jul;123(2):339-50
references: 21505832
references: Genetics. 2010 Jul;185(3):1021-31
references: 20407128
references: Phytopathology. 2006 Feb;96(2):120-9
references: 18943914
references: J Dairy Sci. 2012 Jul;95(7):4114-29
references: 22720968
references: Theor Appl Genet. 2012 Mar;124(4):769-76
references: 22075809
references: PLoS One. 2011 May 04;6(5):e19379
references: 21573248
references: PLoS One. 2011;6(12):e28334
references: 22174790
references: Am J Hum Genet. 2009 Feb;84(2):210-23
references: 19200528
references: Genetics. 2008 Sep;180(1):611-8
references: 18757934
references: Genetics. 2001 Apr;157(4):1819-29
references: 11290733
references: Genetics. 2009 Dec;183(4):1545-53
references: 19822733
references: Theor Appl Genet. 2012 Oct;125(6):1181-94
references: 22733443
references: Philos Trans R Soc Lond B Biol Sci. 2008 Feb 12;363(1491):557-72
references: 17715053
references: J Anim Sci. 2012 Dec;90(12):4177-90
references: 22767091
references: BMC Plant Biol. 2012 Apr 30;12:56
references: 22545925