Multi-trait genomic prediction model increased the predictive ability for agronomic and malting quality traits in barley (Hordeum vulgare L.)
Resumen:
Plant breeders regularly evaluate multiple traits across multiple environments, which opens an avenue for using multiple traits in genomic prediction models. We assessed the potential of multi-trait (MT) genomic prediction model through evaluating several strategies of incorporating multiple traits (eight agronomic and malting quality traits) into the prediction models with two cross-validation schemes (CV1, predicting new lines with genotypic information only and CV2, predicting partially phenotyped lines using both genotypic and phenotypic information from correlated traits) in barley. The predictive ability was similar for single (ST-CV1) and multi-trait (MT-CV1) models to predict new lines. However, the predictive ability for agronomic traits was considerably increased when partially phenotyped lines (MT-CV2) were used. The predictive ability for grain yield using the MT-CV2 model with other agronomic traits resulted in 57% and 61% higher predictive ability than ST-CV1 and MT-CV1 models, respectively. Therefore, complex traits such as grain yield are better predicted when correlated traits are used. Similarly, a considerable increase in the predictive ability of malting quality traits was observed when correlated traits were used. The predictive ability for grain protein content using the MT-CV2 model with both agronomic and malting traits resulted in a 76% higher predictive ability than ST-CV1 and MT-CV1 models. Additionally, the higher predictive ability for new environments was obtained for all traits using the MT-CV2 model compared to the MT-CV1 model. This study showed the potential of improving the genomic prediction of complex traits by incorporating the information from multiple traits (cost-friendly and easy to measure traits) collected throughout breeding programs which could assist in speeding up breeding cycles
2020 | |
CEBADA GENOTIPO |
|
Inglés | |
Laboratorio Tecnológico del Uruguay | |
Catálogo digital del LATU | |
https://catalogo.latu.org.uy/opac_css/index.php?lvl=notice_display&id=32416 | |
Acceso abierto | |
CC BY |
_version_ | 1807353831786283008 |
---|---|
author | BHATTA, MADHAV |
author2 | GUTIÉRREZ, LUCÍA CAMMAROTA RICCO, LORENA CARDOZO, FERNANDA GERMAN, SILVIA GÓMEZ GUERRERO, BLANCA PARDO, MARÍA FERNANDA LANARO, VALERIA SAYAS, MERCEDES CASTRO, ARIEL J. |
author2_role | author author author author author author author author author |
author_facet | BHATTA, MADHAV GUTIÉRREZ, LUCÍA CAMMAROTA RICCO, LORENA CARDOZO, FERNANDA GERMAN, SILVIA GÓMEZ GUERRERO, BLANCA PARDO, MARÍA FERNANDA LANARO, VALERIA SAYAS, MERCEDES CASTRO, ARIEL J. |
author_role | author |
collection | Catálogo digital del LATU |
dc.coverage.none.fl_str_mv | En: G3: Genes, Genomes, Genetics, 10(3), pp.1113-1124. DOI: 10.1177/1082013219853489 |
dc.creator.none.fl_str_mv | BHATTA, MADHAV GUTIÉRREZ, LUCÍA CAMMAROTA RICCO, LORENA CARDOZO, FERNANDA GERMAN, SILVIA GÓMEZ GUERRERO, BLANCA PARDO, MARÍA FERNANDA LANARO, VALERIA SAYAS, MERCEDES CASTRO, ARIEL J. |
dc.date.none.fl_str_mv | 2020-01-01 |
dc.description.abstract.none.fl_txt_mv | Plant breeders regularly evaluate multiple traits across multiple environments, which opens an avenue for using multiple traits in genomic prediction models. We assessed the potential of multi-trait (MT) genomic prediction model through evaluating several strategies of incorporating multiple traits (eight agronomic and malting quality traits) into the prediction models with two cross-validation schemes (CV1, predicting new lines with genotypic information only and CV2, predicting partially phenotyped lines using both genotypic and phenotypic information from correlated traits) in barley. The predictive ability was similar for single (ST-CV1) and multi-trait (MT-CV1) models to predict new lines. However, the predictive ability for agronomic traits was considerably increased when partially phenotyped lines (MT-CV2) were used. The predictive ability for grain yield using the MT-CV2 model with other agronomic traits resulted in 57% and 61% higher predictive ability than ST-CV1 and MT-CV1 models, respectively. Therefore, complex traits such as grain yield are better predicted when correlated traits are used. Similarly, a considerable increase in the predictive ability of malting quality traits was observed when correlated traits were used. The predictive ability for grain protein content using the MT-CV2 model with both agronomic and malting traits resulted in a 76% higher predictive ability than ST-CV1 and MT-CV1 models. Additionally, the higher predictive ability for new environments was obtained for all traits using the MT-CV2 model compared to the MT-CV1 model. This study showed the potential of improving the genomic prediction of complex traits by incorporating the information from multiple traits (cost-friendly and easy to measure traits) collected throughout breeding programs which could assist in speeding up breeding cycles |
dc.format.none.fl_str_mv | Pdf |
dc.identifier.none.fl_str_mv | https://catalogo.latu.org.uy/opac_css/index.php?lvl=notice_display&id=32416 32416 urn:ISBN:69387 |
dc.language.iso.none.fl_str_mv | eng |
dc.rights.license.none.fl_str_mv | CC BY |
dc.rights.none.fl_str_mv | info:eu-repo/semantics/openAccess CC BY |
dc.source.none.fl_str_mv | reponame:Catálogo digital del LATU instname:Laboratorio Tecnológico del Uruguay instacron:Laboratorio Tecnológico del Uruguay |
dc.subject.none.fl_str_mv | CEBADA GENOTIPO |
dc.title.none.fl_str_mv | Multi-trait genomic prediction model increased the predictive ability for agronomic and malting quality traits in barley (Hordeum vulgare L.) |
dc.type.none.fl_str_mv | info:eu-repo/semantics/article Publicado |
dc.type.version.none.fl_str_mv | info:eu-repo/semantics/publishedVersion |
description | Plant breeders regularly evaluate multiple traits across multiple environments, which opens an avenue for using multiple traits in genomic prediction models. We assessed the potential of multi-trait (MT) genomic prediction model through evaluating several strategies of incorporating multiple traits (eight agronomic and malting quality traits) into the prediction models with two cross-validation schemes (CV1, predicting new lines with genotypic information only and CV2, predicting partially phenotyped lines using both genotypic and phenotypic information from correlated traits) in barley. The predictive ability was similar for single (ST-CV1) and multi-trait (MT-CV1) models to predict new lines. However, the predictive ability for agronomic traits was considerably increased when partially phenotyped lines (MT-CV2) were used. The predictive ability for grain yield using the MT-CV2 model with other agronomic traits resulted in 57% and 61% higher predictive ability than ST-CV1 and MT-CV1 models, respectively. Therefore, complex traits such as grain yield are better predicted when correlated traits are used. Similarly, a considerable increase in the predictive ability of malting quality traits was observed when correlated traits were used. The predictive ability for grain protein content using the MT-CV2 model with both agronomic and malting traits resulted in a 76% higher predictive ability than ST-CV1 and MT-CV1 models. Additionally, the higher predictive ability for new environments was obtained for all traits using the MT-CV2 model compared to the MT-CV1 model. This study showed the potential of improving the genomic prediction of complex traits by incorporating the information from multiple traits (cost-friendly and easy to measure traits) collected throughout breeding programs which could assist in speeding up breeding cycles |
eu_rights_str_mv | openAccess |
format | article |
id | LATU_5adfe47f12a99475530b4d136446a2e4 |
identifier_str_mv | 32416 urn:ISBN:69387 |
instacron_str | Laboratorio Tecnológico del Uruguay |
institution | Laboratorio Tecnológico del Uruguay |
instname_str | Laboratorio Tecnológico del Uruguay |
language | eng |
network_acronym_str | LATU |
network_name_str | Catálogo digital del LATU |
oai_identifier_str | oai:PMBOAI:32416 |
publishDate | 2020 |
reponame_str | Catálogo digital del LATU |
repository.mail.fl_str_mv | lfiori@latu.org.uy |
repository.name.fl_str_mv | Catálogo digital del LATU - Laboratorio Tecnológico del Uruguay |
repository_id_str | |
rights_invalid_str_mv | CC BY CC BY |
spelling | Multi-trait genomic prediction model increased the predictive ability for agronomic and malting quality traits in barley (Hordeum vulgare L.)BHATTA, MADHAVGUTIÉRREZ, LUCÍACAMMAROTA RICCO, LORENACARDOZO, FERNANDAGERMAN, SILVIAGÓMEZ GUERRERO, BLANCAPARDO, MARÍA FERNANDALANARO, VALERIASAYAS, MERCEDESCASTRO, ARIEL J.CEBADAGENOTIPOPlant breeders regularly evaluate multiple traits across multiple environments, which opens an avenue for using multiple traits in genomic prediction models. We assessed the potential of multi-trait (MT) genomic prediction model through evaluating several strategies of incorporating multiple traits (eight agronomic and malting quality traits) into the prediction models with two cross-validation schemes (CV1, predicting new lines with genotypic information only and CV2, predicting partially phenotyped lines using both genotypic and phenotypic information from correlated traits) in barley. The predictive ability was similar for single (ST-CV1) and multi-trait (MT-CV1) models to predict new lines. However, the predictive ability for agronomic traits was considerably increased when partially phenotyped lines (MT-CV2) were used. The predictive ability for grain yield using the MT-CV2 model with other agronomic traits resulted in 57% and 61% higher predictive ability than ST-CV1 and MT-CV1 models, respectively. Therefore, complex traits such as grain yield are better predicted when correlated traits are used. Similarly, a considerable increase in the predictive ability of malting quality traits was observed when correlated traits were used. The predictive ability for grain protein content using the MT-CV2 model with both agronomic and malting traits resulted in a 76% higher predictive ability than ST-CV1 and MT-CV1 models. Additionally, the higher predictive ability for new environments was obtained for all traits using the MT-CV2 model compared to the MT-CV1 model. This study showed the potential of improving the genomic prediction of complex traits by incorporating the information from multiple traits (cost-friendly and easy to measure traits) collected throughout breeding programs which could assist in speeding up breeding cycles2020-01-01info:eu-repo/semantics/articlePublicadoinfo:eu-repo/semantics/publishedVersionPdfhttps://catalogo.latu.org.uy/opac_css/index.php?lvl=notice_display&id=3241632416urn:ISBN:69387engEn: G3: Genes, Genomes, Genetics, 10(3), pp.1113-1124. DOI: 10.1177/1082013219853489 info:eu-repo/semantics/openAccessCC BYCC BYreponame:Catálogo digital del LATUinstname:Laboratorio Tecnológico del Uruguayinstacron:Laboratorio Tecnológico del Uruguay2021-11-17T18:09:27Zoai:PMBOAI:32416Gobiernohttps://latu.org.uy/https://catalogo.latu.org.uy/ws/PMBOAIlfiori@latu.org.uyUruguayopendoar:2024-08-01T14:48:58.858068Catálogo digital del LATU - Laboratorio Tecnológico del Uruguayfalse |
spellingShingle | Multi-trait genomic prediction model increased the predictive ability for agronomic and malting quality traits in barley (Hordeum vulgare L.) BHATTA, MADHAV CEBADA GENOTIPO |
status_str | publishedVersion |
title | Multi-trait genomic prediction model increased the predictive ability for agronomic and malting quality traits in barley (Hordeum vulgare L.) |
title_full | Multi-trait genomic prediction model increased the predictive ability for agronomic and malting quality traits in barley (Hordeum vulgare L.) |
title_fullStr | Multi-trait genomic prediction model increased the predictive ability for agronomic and malting quality traits in barley (Hordeum vulgare L.) |
title_full_unstemmed | Multi-trait genomic prediction model increased the predictive ability for agronomic and malting quality traits in barley (Hordeum vulgare L.) |
title_short | Multi-trait genomic prediction model increased the predictive ability for agronomic and malting quality traits in barley (Hordeum vulgare L.) |
title_sort | Multi-trait genomic prediction model increased the predictive ability for agronomic and malting quality traits in barley (Hordeum vulgare L.) |
topic | CEBADA GENOTIPO |
url | https://catalogo.latu.org.uy/opac_css/index.php?lvl=notice_display&id=32416 |