Selection based on optimal haploid value to create elite lines

a haploid value and optimal selection technology, applied in the field of plant molecular genetics and breeding, can solve the problems of gs from a sparse marker map in an outbreeding species, gebv from reaching the calculated selection limit, time-consuming and expensive process, etc., to increase the genetic gain, increase the genetic diversity, and increase the genetic gain

Inactive Publication Date: 2015-07-02
DOW AGROSCIENCES LLC
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Benefits of technology

[0018]Utilization of OHV in a plant breeding program in some embodiments increases genetic gain over GS (for example, by up to 0.6 genetic base standard deviations (SD)), while also increasing genetic diversity when compared to GS. Larger increases in genetic gain may be realized by increasing the number of progeny produced and genotyped for each breeding pair. Advantages of OHV can be realized at no additional cost, assuming the scale of DH production remains constant, thus making OHV selection an attractive new tool for the plant breeder.

Problems solved by technology

Choosing the best doubled haploid is accomplished by the time-consuming and expensive process of artificial phenotypic selection, utilizing phenotypic records of individual plants and their relatives.
However, information for GS from a sparse marker map in an outbreeding species is limited, because the linkage phase between particular markers and QTLs must be established for every family in which the marker is to be used for selection.
However, antagonistic relationships among both major and minor QTLs prevent GEBV from reaching calculated selection limits.
Thus, selection based on overall GEBV gives the highest response in the next generation, but it is not guaranteed to maximize gains over multiple generations.

Method used

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  • Selection based on optimal haploid value to create elite lines
  • Selection based on optimal haploid value to create elite lines
  • Selection based on optimal haploid value to create elite lines

Examples

Experimental program
Comparison scheme
Effect test

example 1

Comparison of GS and OHV Breeding Programs

[0164]Plant breeding programs utilizing OHV selection were directly compared to programs utilizing GS. The comparison was performed with a base population of empirically determined genotypes for 4,788 SNPs from 1110 wheat lines (empirical Illumina iSELECT™ Bead Chip 9K array genotypes (Cavanagh et al. (2013), supra), which ensured a realistic linkage disequilibrium structure.

[0165]These SNPs were placed on 21 chromosomes, each measuring 150 Morgans (3 genomes and 7 chromosomes each). The genome was then divided into segments of equal lengths of 50 cM, which resulted in approximately 3 segments per chromosome.

[0166]During the creation of gametes, either for conventional offspring, or during doubled haploid production, recombinations were randomly placed on the genome at a rate of 1 per Morgan. Allele substitution effects were sampled from a double exponential distribution for 500 loci, reflecting a quantitative trait that is influenced by man...

example 2

Increased Genetic Gain and Genetic Variation with OHV Selection

[0170]Certain points in the breeding cycle that have been determined to be important when trying to increase genetic gain are shown in FIG. 2. Relevant considerations include the number of offspring per pair of outbred plants, and the number of doubled haploids produced per elite plant. Several variations of these factors were tested. The number of offspring per pair was varied between 5, 20, 100, 200, and 1000. The number of doubled haploids produced was varied between 200, 500, and 1000. 100 replicates were run for each variation, and within each replicate the marker effects and base population were identical for GS and OHV selection. All scenario groups and levels within are listed in Table 2. Each scenario was replicated 100 times, and standard errors (SE) are given in Tables and Figures. The results on genetic gain focus on the difference between OHV and GS in genetic standard deviations (SD) of the base generation ...

example 3

OHV Selection During Introgression

[0187]A breeding program combining OHV and introgression was performed in silico using an elite wheat line that includes five events (i.e., a highly transformable line with five EXZACT™ genome modifications), which was crossed with the same elite wheat base population described in Example 1 to simultaneously introgress the five event loci. For the next 5 generations (approximately the time taken to recover the original background after an introgression), the plants with the highest OHV that also carry at least one introgression allele at each introgression locus were selected for doubled haploid production. When 100 doubled haploids were produced, most of the selected haploid lines produced several doubled haploids fixed at all introgressions.

[0188]FIG. 6 shows the difference between traditional introgression (GS) and introgression combined with OHV selection (mean of 100 replicates). While the genetic value using traditional introgression remained ...

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Abstract

This disclosure concerns methods for estimating the breeding value of plants for the purpose of producing doubled haploid, for example, to identify selection candidates having high breeding values.

Description

CROSS-REFERENCE TO RELATED APPLICATION[0001]This application claims the benefit of U.S. Provisional Patent Application Ser. No. 61 / 922,148, filed Dec. 31, 2013, U.S. Provisional Patent Application Ser. No. 61 / 939,599, filed Feb. 13, 2014, and U.S. Provisional Patent Application Ser. No. 62 / 092,737, filed Dec. 16, 2014, each of the disclosures of which is hereby incorporated herein in their entirety by this reference.FIELD OF THE DISCLOSURE[0002]The present disclosure relates to plant molecular genetics and breeding. Some embodiments relate to methods for making selections in a breeding population for preferred mating pairs. Some embodiments relate to methods for selecting a progeny plant for use and / or advancement as an elite line.BACKGROUND[0003]The creation of doubled haploids in plant breeding programs allows for the creation of completely homozygous individuals from outbred plants, thereby facilitating the development of new varieties. Choosing the best doubled haploid is accomp...

Claims

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Application Information

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Patent Type & Authority Applications(United States)
IPC IPC(8): A01H1/04C12Q1/68A01H1/02
CPCA01H1/04C12Q2600/13C12Q1/6895A01H1/02A01H1/08
Inventor DAETWYLER, HANS DIETERHAYES, BENJAMIN JOHNROBBINS, KELLYHAYDEN, MATTHEW JAMESSPANGENBERG, GERMAN
Owner DOW AGROSCIENCES LLC
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