Methodological proposal for the characterization of accessions in Germplasm Banks using Generalized Procrustes Analysis applied to incomplete but connected trials
Characterization of plant material conserved in germplasm banks allows the study and analysis of the genetic variability within a collection. When germplasm banks have a large number of accessions, field evaluation should be performed using assays with manageable accession subsets. Common checks co...
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| Formato: | Online |
| Lenguaje: | eng |
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Facultad de Ciencias Agrarias-UNCuyo
2021
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| Acceso en línea: | https://revistas.uncu.edu.ar/ojs3/index.php/RFCA/article/view/4638 |
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I11-R107article-4638 |
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Universidad Nacional de Cuyo |
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Revistas en línea |
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Revistas en línea |
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Revista de la Facultad de Ciencias Agrarias |
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Revista de la Facultad de Ciencias Agrarias |
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I-11 |
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R-107 |
| language |
eng |
| format |
Online |
| author |
Lavalle, Andrea Lina Defacio, Raquel De Leo, Mariano Bramardi, Sergio Jorge |
| spellingShingle |
Lavalle, Andrea Lina Defacio, Raquel De Leo, Mariano Bramardi, Sergio Jorge Methodological proposal for the characterization of accessions in Germplasm Banks using Generalized Procrustes Analysis applied to incomplete but connected trials datos de tres vías MANOVA modelización de procesos biológicos recursos fitogenéticos three-way data MANOVA modeling biological process plant genetic resources |
| author_facet |
Lavalle, Andrea Lina Defacio, Raquel De Leo, Mariano Bramardi, Sergio Jorge |
| author_sort |
Lavalle, Andrea Lina |
| title |
Methodological proposal for the characterization of accessions in Germplasm Banks using Generalized Procrustes Analysis applied to incomplete but connected trials |
| title_short |
Methodological proposal for the characterization of accessions in Germplasm Banks using Generalized Procrustes Analysis applied to incomplete but connected trials |
| title_full |
Methodological proposal for the characterization of accessions in Germplasm Banks using Generalized Procrustes Analysis applied to incomplete but connected trials |
| title_fullStr |
Methodological proposal for the characterization of accessions in Germplasm Banks using Generalized Procrustes Analysis applied to incomplete but connected trials |
| title_full_unstemmed |
Methodological proposal for the characterization of accessions in Germplasm Banks using Generalized Procrustes Analysis applied to incomplete but connected trials |
| title_sort |
methodological proposal for the characterization of accessions in germplasm banks using generalized procrustes analysis applied to incomplete but connected trials |
| description |
Characterization of plant material conserved in germplasm banks allows the study and analysis of the genetic variability within a collection. When germplasm banks have a large number of accessions, field evaluation should be performed using assays with manageable accession subsets. Common checks connecting the different assays are required to compare these accession subsets. In this study, the Generalized Procrustes Analysis was proposed as a basis for obtaining a factorial plane where all individuals are projected. This technique is applied to genotypes common to all assays, iteratively generating scale factors and rotation matrices. Accessions only belonging to a given assay are considered supplementary elements. This proposal was illustrated using datasets of 54 maize accessions from the Pergamino Active Germplasm Bank of the Experimental Station at the Instituto Nacional de Tecnología Agropecuaria (INTA) in Argentina. The proposal achieved highly satisfactory results.
Highlights:
In field evaluation of large germplasm collections, the material must be divided into manageable experimental trials, in which different accession subsets are evaluated in different environments.
A new algorithm based on Generalized Procrustes Analysis (GPA) allowed to find the consensus of several configurations of individuals connected by common checks.
The characterization data analysis strategy was illustrated using a set of accessions from the Argentine Maize Germplasm Bank.
The new proposal stands as a useful tool for evaluate germplasm collections, providing good results with easy implementation and considering the multivariate structure of the data set.
|
| publisher |
Facultad de Ciencias Agrarias-UNCuyo |
| publishDate |
2021 |
| url |
https://revistas.uncu.edu.ar/ojs3/index.php/RFCA/article/view/4638 |
| topic |
datos de tres vías MANOVA modelización de procesos biológicos recursos fitogenéticos three-way data MANOVA modeling biological process plant genetic resources |
| topic_facet |
datos de tres vías MANOVA modelización de procesos biológicos recursos fitogenéticos three-way data MANOVA modeling biological process plant genetic resources |
| work_keys_str_mv |
AT lavalleandrealina methodologicalproposalforthecharacterizationofaccessionsingermplasmbanksusinggeneralizedprocrustesanalysisappliedtoincompletebutconnectedtrials AT defacioraquel methodologicalproposalforthecharacterizationofaccessionsingermplasmbanksusinggeneralizedprocrustesanalysisappliedtoincompletebutconnectedtrials AT deleomariano methodologicalproposalforthecharacterizationofaccessionsingermplasmbanksusinggeneralizedprocrustesanalysisappliedtoincompletebutconnectedtrials AT bramardisergiojorge methodologicalproposalforthecharacterizationofaccessionsingermplasmbanksusinggeneralizedprocrustesanalysisappliedtoincompletebutconnectedtrials |
| _version_ |
1800220930502295552 |
| spelling |
I11-R107article-46382021-07-07T00:37:22Z Methodological proposal for the characterization of accessions in Germplasm Banks using Generalized Procrustes Analysis applied to incomplete but connected trials Methodological proposal for the characterization of accessions in Germplasm Banks using Generalized Procrustes Analysis applied to incomplete but connected trials Lavalle, Andrea Lina Defacio, Raquel De Leo, Mariano Bramardi, Sergio Jorge datos de tres vías MANOVA modelización de procesos biológicos recursos fitogenéticos three-way data MANOVA modeling biological process plant genetic resources Characterization of plant material conserved in germplasm banks allows the study and analysis of the genetic variability within a collection. When germplasm banks have a large number of accessions, field evaluation should be performed using assays with manageable accession subsets. Common checks connecting the different assays are required to compare these accession subsets. In this study, the Generalized Procrustes Analysis was proposed as a basis for obtaining a factorial plane where all individuals are projected. This technique is applied to genotypes common to all assays, iteratively generating scale factors and rotation matrices. Accessions only belonging to a given assay are considered supplementary elements. This proposal was illustrated using datasets of 54 maize accessions from the Pergamino Active Germplasm Bank of the Experimental Station at the Instituto Nacional de Tecnología Agropecuaria (INTA) in Argentina. The proposal achieved highly satisfactory results. Highlights: In field evaluation of large germplasm collections, the material must be divided into manageable experimental trials, in which different accession subsets are evaluated in different environments. A new algorithm based on Generalized Procrustes Analysis (GPA) allowed to find the consensus of several configurations of individuals connected by common checks. The characterization data analysis strategy was illustrated using a set of accessions from the Argentine Maize Germplasm Bank. The new proposal stands as a useful tool for evaluate germplasm collections, providing good results with easy implementation and considering the multivariate structure of the data set. Characterization of plant material conserved in germplasm banks allows the study and analysis of the genetic variability within a collection. When germplasm banks have a large number of accessions, field evaluation should be performed using assays with manageable accession subsets. Common checks connecting the different assays are required to compare these accession subsets. In this study, the Generalized Procrustes Analysis was proposed as a basis for obtaining a factorial plane where all individuals are projected. This technique is applied to genotypes common to all assays, iteratively generating scale factors and rotation matrices. Accessions only belonging to a given assay are considered supplementary elements. This proposal was illustrated using datasets of 54 maize accessions from the Pergamino Active Germplasm Bank of the Experimental Station at the Instituto Nacional de Tecnología Agropecuaria (INTA) in Argentina. The proposal achieved highly satisfactory results. Highlights: In field evaluation of large germplasm collections, the material must be divided into manageable experimental trials, in which different accession subsets are evaluated in different environments. A new algorithm based on Generalized Procrustes Analysis (GPA) allowed to find the consensus of several configurations of individuals connected by common checks. The characterization data analysis strategy was illustrated using a set of accessions from the Argentine Maize Germplasm Bank. The new proposal stands as a useful tool for evaluate germplasm collections, providing good results with easy implementation and considering the multivariate structure of the data set. Facultad de Ciencias Agrarias-UNCuyo 2021-07-07 info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion application/pdf https://revistas.uncu.edu.ar/ojs3/index.php/RFCA/article/view/4638 10.48162/rev.39.004 Revista de la Facultad de Ciencias Agrarias UNCuyo; Vol. 53 No. 1 (2021): January-June; 35-45 Revista de la Facultad de Ciencias Agrarias UNCuyo; Vol. 53 Núm. 1 (2021): Enero-Junio; 35-45 1853-8665 0370-4661 eng https://revistas.uncu.edu.ar/ojs3/index.php/RFCA/article/view/4638/3410 https://creativecommons.org/licenses/by-nc-sa/3.0/deed.es |
