Genomic Prediction Within and Among Doubled-Haploid Libraries from Maize Landraces [Statistical Genetics and Genomics]

Publication Date:
2018-12-07
Publisher:
Genetics Society of America (GSA)
Print ISSN:
0016-6731
Topics:
Biology
Published by:
http://www.genetics-gsa.org/
_version_ 1836399099239202816
autor Brauner, P. C., Muller, D., Schopp, P., Bohm, J., Bauer, E., Schon, C.-C., Melchinger, A. E.
beschreibung Thousands of maize landraces are stored in seed banks worldwide. Doubled-haploid libraries (DHL) produced from landraces harness their rich genetic diversity for future breeding. We investigated the prospects of genomic prediction (GP) for line per se performance in DHL from six European landraces and 53 elite flint (EF) lines by comparing four scenarios: GP within a single library (sL); GP between pairs of libraries (LwL); and GP among combined libraries, either including (cLi) or excluding (cLe) lines from the training set (TS) that belong to the same DHL as the prediction set. For scenario sL, with N = 50 lines in the TS, the prediction accuracy () among seven agronomic traits varied from –0.53 to 0.57 for the DHL and reached up to 0.74 for the EF lines. For LwL, was close to zero for all DHL and traits. Whereas scenario cLi showed improved values compared to sL, for cLe remained at the low level observed for LwL. Forecasting with deterministic equations yielded inflated values compared to empirical estimates of for the DHL, but conserved the ranking. In conclusion, GP is promising within DHL, but large TS sizes ( N 〉 100) are needed to achieve decent prediction accuracy because LD between QTL and markers is the primary source of information that can be exploited by GP. Since production of DHL from landraces is expensive, we recommend GP only for very large DHL produced from a few highly preselected landraces.
citation_standardnr 6365893
datenlieferant ipn_articles
feed_id 2584
feed_publisher Genetics Society of America (GSA)
feed_publisher_url http://www.genetics-gsa.org/
insertion_date 2018-12-07
journalissn 0016-6731
publikationsjahr_anzeige 2018
publikationsjahr_facette 2018
publikationsjahr_intervall 7984:2015-2019
publikationsjahr_sort 2018
publisher Genetics Society of America (GSA)
quelle Genetics
relation http://www.genetics.org/cgi/content/short/210/4/1185?rss=1
search_space articles
shingle_author_1 Brauner, P. C., Muller, D., Schopp, P., Bohm, J., Bauer, E., Schon, C.-C., Melchinger, A. E.
shingle_author_2 Brauner, P. C., Muller, D., Schopp, P., Bohm, J., Bauer, E., Schon, C.-C., Melchinger, A. E.
shingle_author_3 Brauner, P. C., Muller, D., Schopp, P., Bohm, J., Bauer, E., Schon, C.-C., Melchinger, A. E.
shingle_author_4 Brauner, P. C., Muller, D., Schopp, P., Bohm, J., Bauer, E., Schon, C.-C., Melchinger, A. E.
shingle_catch_all_1 Genomic Prediction Within and Among Doubled-Haploid Libraries from Maize Landraces [Statistical Genetics and Genomics]
Thousands of maize landraces are stored in seed banks worldwide. Doubled-haploid libraries (DHL) produced from landraces harness their rich genetic diversity for future breeding. We investigated the prospects of genomic prediction (GP) for line per se performance in DHL from six European landraces and 53 elite flint (EF) lines by comparing four scenarios: GP within a single library (sL); GP between pairs of libraries (LwL); and GP among combined libraries, either including (cLi) or excluding (cLe) lines from the training set (TS) that belong to the same DHL as the prediction set. For scenario sL, with N = 50 lines in the TS, the prediction accuracy () among seven agronomic traits varied from –0.53 to 0.57 for the DHL and reached up to 0.74 for the EF lines. For LwL, was close to zero for all DHL and traits. Whereas scenario cLi showed improved values compared to sL, for cLe remained at the low level observed for LwL. Forecasting with deterministic equations yielded inflated values compared to empirical estimates of for the DHL, but conserved the ranking. In conclusion, GP is promising within DHL, but large TS sizes ( N > 100) are needed to achieve decent prediction accuracy because LD between QTL and markers is the primary source of information that can be exploited by GP. Since production of DHL from landraces is expensive, we recommend GP only for very large DHL produced from a few highly preselected landraces.
Brauner, P. C., Muller, D., Schopp, P., Bohm, J., Bauer, E., Schon, C.-C., Melchinger, A. E.
Genetics Society of America (GSA)
0016-6731
00166731
shingle_catch_all_2 Genomic Prediction Within and Among Doubled-Haploid Libraries from Maize Landraces [Statistical Genetics and Genomics]
Thousands of maize landraces are stored in seed banks worldwide. Doubled-haploid libraries (DHL) produced from landraces harness their rich genetic diversity for future breeding. We investigated the prospects of genomic prediction (GP) for line per se performance in DHL from six European landraces and 53 elite flint (EF) lines by comparing four scenarios: GP within a single library (sL); GP between pairs of libraries (LwL); and GP among combined libraries, either including (cLi) or excluding (cLe) lines from the training set (TS) that belong to the same DHL as the prediction set. For scenario sL, with N = 50 lines in the TS, the prediction accuracy () among seven agronomic traits varied from –0.53 to 0.57 for the DHL and reached up to 0.74 for the EF lines. For LwL, was close to zero for all DHL and traits. Whereas scenario cLi showed improved values compared to sL, for cLe remained at the low level observed for LwL. Forecasting with deterministic equations yielded inflated values compared to empirical estimates of for the DHL, but conserved the ranking. In conclusion, GP is promising within DHL, but large TS sizes ( N > 100) are needed to achieve decent prediction accuracy because LD between QTL and markers is the primary source of information that can be exploited by GP. Since production of DHL from landraces is expensive, we recommend GP only for very large DHL produced from a few highly preselected landraces.
Brauner, P. C., Muller, D., Schopp, P., Bohm, J., Bauer, E., Schon, C.-C., Melchinger, A. E.
Genetics Society of America (GSA)
0016-6731
00166731
shingle_catch_all_3 Genomic Prediction Within and Among Doubled-Haploid Libraries from Maize Landraces [Statistical Genetics and Genomics]
Thousands of maize landraces are stored in seed banks worldwide. Doubled-haploid libraries (DHL) produced from landraces harness their rich genetic diversity for future breeding. We investigated the prospects of genomic prediction (GP) for line per se performance in DHL from six European landraces and 53 elite flint (EF) lines by comparing four scenarios: GP within a single library (sL); GP between pairs of libraries (LwL); and GP among combined libraries, either including (cLi) or excluding (cLe) lines from the training set (TS) that belong to the same DHL as the prediction set. For scenario sL, with N = 50 lines in the TS, the prediction accuracy () among seven agronomic traits varied from –0.53 to 0.57 for the DHL and reached up to 0.74 for the EF lines. For LwL, was close to zero for all DHL and traits. Whereas scenario cLi showed improved values compared to sL, for cLe remained at the low level observed for LwL. Forecasting with deterministic equations yielded inflated values compared to empirical estimates of for the DHL, but conserved the ranking. In conclusion, GP is promising within DHL, but large TS sizes ( N > 100) are needed to achieve decent prediction accuracy because LD between QTL and markers is the primary source of information that can be exploited by GP. Since production of DHL from landraces is expensive, we recommend GP only for very large DHL produced from a few highly preselected landraces.
Brauner, P. C., Muller, D., Schopp, P., Bohm, J., Bauer, E., Schon, C.-C., Melchinger, A. E.
Genetics Society of America (GSA)
0016-6731
00166731
shingle_catch_all_4 Genomic Prediction Within and Among Doubled-Haploid Libraries from Maize Landraces [Statistical Genetics and Genomics]
Thousands of maize landraces are stored in seed banks worldwide. Doubled-haploid libraries (DHL) produced from landraces harness their rich genetic diversity for future breeding. We investigated the prospects of genomic prediction (GP) for line per se performance in DHL from six European landraces and 53 elite flint (EF) lines by comparing four scenarios: GP within a single library (sL); GP between pairs of libraries (LwL); and GP among combined libraries, either including (cLi) or excluding (cLe) lines from the training set (TS) that belong to the same DHL as the prediction set. For scenario sL, with N = 50 lines in the TS, the prediction accuracy () among seven agronomic traits varied from –0.53 to 0.57 for the DHL and reached up to 0.74 for the EF lines. For LwL, was close to zero for all DHL and traits. Whereas scenario cLi showed improved values compared to sL, for cLe remained at the low level observed for LwL. Forecasting with deterministic equations yielded inflated values compared to empirical estimates of for the DHL, but conserved the ranking. In conclusion, GP is promising within DHL, but large TS sizes ( N > 100) are needed to achieve decent prediction accuracy because LD between QTL and markers is the primary source of information that can be exploited by GP. Since production of DHL from landraces is expensive, we recommend GP only for very large DHL produced from a few highly preselected landraces.
Brauner, P. C., Muller, D., Schopp, P., Bohm, J., Bauer, E., Schon, C.-C., Melchinger, A. E.
Genetics Society of America (GSA)
0016-6731
00166731
shingle_title_1 Genomic Prediction Within and Among Doubled-Haploid Libraries from Maize Landraces [Statistical Genetics and Genomics]
shingle_title_2 Genomic Prediction Within and Among Doubled-Haploid Libraries from Maize Landraces [Statistical Genetics and Genomics]
shingle_title_3 Genomic Prediction Within and Among Doubled-Haploid Libraries from Maize Landraces [Statistical Genetics and Genomics]
shingle_title_4 Genomic Prediction Within and Among Doubled-Haploid Libraries from Maize Landraces [Statistical Genetics and Genomics]
timestamp 2025-06-30T23:37:35.338Z
titel Genomic Prediction Within and Among Doubled-Haploid Libraries from Maize Landraces [Statistical Genetics and Genomics]
titel_suche Genomic Prediction Within and Among Doubled-Haploid Libraries from Maize Landraces [Statistical Genetics and Genomics]
topic W
uid ipn_articles_6365893