Multi-Year Dynamics of Single-Step Genomic Prediction in an Applied Wheat Breeding Program
The availability of cost-efficient genotyping technologies has facilitated the implementation of genomic selection into numerous breeding programs. However, some studies reported a superiority of pedigree over genomic selection in line breeding, and as, aside from systematic record keeping, no addit...
| Main Authors: | , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
MDPI AG
2020-10-01
|
| Series: | Agronomy |
| Subjects: | |
| Online Access: | https://www.mdpi.com/2073-4395/10/10/1591 |
| _version_ | 1797550639006351360 |
|---|---|
| author | Sebastian Michel Franziska Löschenberger Ellen Sparry Christian Ametz Hermann Bürstmayr |
| author_facet | Sebastian Michel Franziska Löschenberger Ellen Sparry Christian Ametz Hermann Bürstmayr |
| author_sort | Sebastian Michel |
| collection | DOAJ |
| description | The availability of cost-efficient genotyping technologies has facilitated the implementation of genomic selection into numerous breeding programs. However, some studies reported a superiority of pedigree over genomic selection in line breeding, and as, aside from systematic record keeping, no additional costs are incurring in pedigree-based prediction, the question about the actual benefit of fingerprinting several hundred lines each year might suggest itself. This study aimed thus on shedding some light on this question by comparing pedigree, genomic, and single-step prediction models using phenotypic and genotypic data that has been collected during a time period of ten years in an applied wheat breeding program. The mentioned models were for this purpose empirically tested in a multi-year forward prediction as well as a supporting simulation study. Given the availability of deep pedigree records, pedigree prediction performed similar to genomic prediction for some of the investigated traits if preexisting information of the selection candidates was available. Notwithstanding, blending both information sources increased the prediction accuracy and thus the selection gain substantially, especially for low heritable traits. Nevertheless, the largest advantage of genomic predictions can be seen for breeding scenarios where such preexisting information is not systemically available or difficult and costly to obtain. |
| first_indexed | 2024-03-10T15:33:10Z |
| format | Article |
| id | doaj.art-16fc7d6a1eff4740879fa47043c9c1a1 |
| institution | Directory Open Access Journal |
| issn | 2073-4395 |
| language | English |
| last_indexed | 2024-03-10T15:33:10Z |
| publishDate | 2020-10-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Agronomy |
| spelling | doaj.art-16fc7d6a1eff4740879fa47043c9c1a12023-11-20T17:28:06ZengMDPI AGAgronomy2073-43952020-10-011010159110.3390/agronomy10101591Multi-Year Dynamics of Single-Step Genomic Prediction in an Applied Wheat Breeding ProgramSebastian Michel0Franziska Löschenberger1Ellen Sparry2Christian Ametz3Hermann Bürstmayr4Department of Agrobiotechnology, IFA-Tulln, University of Natural Resources and Life Sciences Vienna, Konrad-Lorenz-Str. 20, 3430 Tulln, AustriaSaatzucht Donau GesmbH. & CoKG, Saatzuchtstrasse 11, 2301 Probstdorf, AustriaC&M Seeds, 6180 5th Line, Palmerston, ON N0G 2P0, CanadaSaatzucht Donau GesmbH. & CoKG, Saatzuchtstrasse 11, 2301 Probstdorf, AustriaDepartment of Agrobiotechnology, IFA-Tulln, University of Natural Resources and Life Sciences Vienna, Konrad-Lorenz-Str. 20, 3430 Tulln, AustriaThe availability of cost-efficient genotyping technologies has facilitated the implementation of genomic selection into numerous breeding programs. However, some studies reported a superiority of pedigree over genomic selection in line breeding, and as, aside from systematic record keeping, no additional costs are incurring in pedigree-based prediction, the question about the actual benefit of fingerprinting several hundred lines each year might suggest itself. This study aimed thus on shedding some light on this question by comparing pedigree, genomic, and single-step prediction models using phenotypic and genotypic data that has been collected during a time period of ten years in an applied wheat breeding program. The mentioned models were for this purpose empirically tested in a multi-year forward prediction as well as a supporting simulation study. Given the availability of deep pedigree records, pedigree prediction performed similar to genomic prediction for some of the investigated traits if preexisting information of the selection candidates was available. Notwithstanding, blending both information sources increased the prediction accuracy and thus the selection gain substantially, especially for low heritable traits. Nevertheless, the largest advantage of genomic predictions can be seen for breeding scenarios where such preexisting information is not systemically available or difficult and costly to obtain.https://www.mdpi.com/2073-4395/10/10/1591wheatgenomic selectionsingle-step genomic predictionpedigreegrain yieldprotein content |
| spellingShingle | Sebastian Michel Franziska Löschenberger Ellen Sparry Christian Ametz Hermann Bürstmayr Multi-Year Dynamics of Single-Step Genomic Prediction in an Applied Wheat Breeding Program Agronomy wheat genomic selection single-step genomic prediction pedigree grain yield protein content |
| title | Multi-Year Dynamics of Single-Step Genomic Prediction in an Applied Wheat Breeding Program |
| title_full | Multi-Year Dynamics of Single-Step Genomic Prediction in an Applied Wheat Breeding Program |
| title_fullStr | Multi-Year Dynamics of Single-Step Genomic Prediction in an Applied Wheat Breeding Program |
| title_full_unstemmed | Multi-Year Dynamics of Single-Step Genomic Prediction in an Applied Wheat Breeding Program |
| title_short | Multi-Year Dynamics of Single-Step Genomic Prediction in an Applied Wheat Breeding Program |
| title_sort | multi year dynamics of single step genomic prediction in an applied wheat breeding program |
| topic | wheat genomic selection single-step genomic prediction pedigree grain yield protein content |
| url | https://www.mdpi.com/2073-4395/10/10/1591 |
| work_keys_str_mv | AT sebastianmichel multiyeardynamicsofsinglestepgenomicpredictioninanappliedwheatbreedingprogram AT franziskaloschenberger multiyeardynamicsofsinglestepgenomicpredictioninanappliedwheatbreedingprogram AT ellensparry multiyeardynamicsofsinglestepgenomicpredictioninanappliedwheatbreedingprogram AT christianametz multiyeardynamicsofsinglestepgenomicpredictioninanappliedwheatbreedingprogram AT hermannburstmayr multiyeardynamicsofsinglestepgenomicpredictioninanappliedwheatbreedingprogram |