US 11,985,930 B2
Molecular breeding methods
Mark Cooper, Johnston, IA (US); Carlos Messina, Des Moines, IA (US); Frank Technow, Waterloo (CA); and Liviu Radu Totir, Johnston, IA (US)
Assigned to PIONEER HI-BRED INTERNATIONAL, INC., , IA (US)
Appl. No. 15/521,816
Filed by PIONEER HI-BRED INTERNATIONAL, INC., Johnston, IA (US)
PCT Filed Aug. 4, 2015, PCT No. PCT/US2015/043525
§ 371(c)(1), (2) Date Apr. 25, 2017,
PCT Pub. No. WO2016/069078, PCT Pub. Date May 6, 2016.
Claims priority of provisional application 62/093,713, filed on Dec. 18, 2014.
Claims priority of provisional application 62/069,007, filed on Oct. 27, 2014.
Prior Publication US 2017/0245446 A1, Aug. 31, 2017
Int. Cl. A01H 1/04 (2006.01); A01K 67/00 (2006.01); C12N 15/82 (2006.01); C12Q 1/6895 (2018.01); G16B 5/00 (2019.01); G16B 20/00 (2019.01); G16B 20/20 (2019.01); G16B 20/40 (2019.01); G16B 20/50 (2019.01); G16H 50/30 (2018.01); G16H 70/60 (2018.01)
CPC A01H 1/04 (2013.01) [A01K 67/00 (2013.01); C12N 15/8213 (2013.01); C12Q 1/6895 (2013.01); G16B 5/00 (2019.02); G16B 20/00 (2019.02); G16B 20/20 (2019.02); G16B 20/40 (2019.02); G16B 20/50 (2019.02); C12Q 2600/13 (2013.01); C12Q 2600/156 (2013.01); G16H 50/30 (2018.01); G16H 70/60 (2018.01); Y02A 90/10 (2018.01)] 16 Claims
 
1. A method for selecting individuals in a breeding program, said method comprising:
a. growing a genetically diverse population of training individuals, wherein said training individuals are plants;
b. phenotyping the genetically diverse population of training individuals to generate a phenotype training data set;
c. associating the phenotype training data set with a genotype training data set comprising genetic information across the genome of each training individual, integrating a crop growth model into a rejection sampling algorithm for estimation of genotypic marker effects and linking the estimation of effects of genotypic markers with the crop growth model to generate an association training data set;
d. genotyping a genetically diverse population of breeding individuals, wherein said breeding individuals are plants;
e. selecting breeding pairs from the genetically diverse population of breeding individuals based genotypes using the association training data set and the crop growth model, estimating effects of genotypic markers and linking the estimation of effects of genotypic markers with the crop growth model to select breeding pairs likely to generate offspring with one or more desired traits;
f. crossing the breeding pairs to generate offspring; and
g. growing the offspring with the one or more desired traits.