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 | Acceso al texto completo restringido a Biblioteca INIA Las Brujas. Por información adicional contacte bibliolb@inia.org.uy. |
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Biblioteca (s) : |
INIA Las Brujas. |
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Fecha : |
16/03/2020 |
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Actualizado : |
10/08/2020 |
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Tipo de producción científica : |
Artículos en Revistas Indexadas Internacionales |
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Autor : |
AGUILAR, I.; FERNÁNDEZ, E.N.; BLASCO, A.; RAVAGNOLO, O.; LEGARRA, A. |
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Afiliación : |
IGNACIO AGUILAR GARCIA, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; EDUARDO N. FERNÁNDEZ, Cátedra de Mejora y Conservación de Recursos Genéticos e Instituto de Investigación sobre Producción Agropecuaria, Ambiente y Salud, Facultad de Ciencias Agrarias, UNLZ, Buenos Aires, Argentina; AGUSTÍN BLASCO, Institute for Animal Science and Technology, Universitat Politècnica de València, València, Spain; OLGA RAVAGNOLO GUMILA, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; ANDRÉS LEGARRA, UMR GenPhySE, INRA Toulouse, Castanet Tolosan, France. |
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Título : |
Effects of ignoring inbreeding in model-based accuracy for BLUP and SSGBLUP. |
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Fecha de publicación : |
2020 |
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Fuente / Imprenta : |
Journal of Animal Breeding and Genetics, 1 July 2020, Volume 137, Issue 4, pp. 356-364. Doi: https://doi.org/10.1111/jbg.12470 |
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ISSN : |
0931-2668 |
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DOI : |
10.1111/jbg.12470 |
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Idioma : |
Inglés |
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Notas : |
Article history: Received: 22 August 2019 / Revised: 10 December 2019 / Accepted: 11 January 2020 / First published:20 February 2020
Corresponding author: Aguilar, I.; email:iaguilar@inia.org.uy
Funding information: FEDER; INRA; Universidad Nacional de Lomas de Zamora; European Unions' Horizon 2020 Research & Innovation Programme, Grant/Award Number: N°772787 |
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Contenido : |
ABSTRACT.
Model-based accuracy, defined as the theoretical correlation between true and estimated breeding value, can be obtained for each individual as a function of its prediction error variance (PEV) and inbreeding coefficient F, in BLUP, GBLUP and SSGBLUP genetic evaluations. However, for computational convenience, inbreeding is often ignored in two places. First, in the computation of reliability = 1-PEV/(1 + F). Second, in the set-up, using Henderson's rules, of the inverse of the pedigree-based relationship matrix A. Both approximations have an effect in the computation of model-based accuracy and result in wrong values. In this work, first we present a reminder of the theory and extend it to SSGBLUP. Second, we quantify the error of ignoring inbreeding with real data in three scenarios: BLUP evaluation and SSGBLUP in Uruguayan dairy cattle, and BLUP evaluations in a line of rabbit closed for >40 generations with steady increase of inbreeding up to an average of 0.30. We show that ignoring inbreeding in the set-up of the A-inverse is equivalent to assume that non-inbred animals are actually inbred. This results in an increase of apparent PEV that is negligible for dairy cattle but considerable for rabbit. Ignoring inbreeding in reliability = 1-PEV/(1 + F) leads to underestimation of reliability for BLUP evaluations, and this underestimation is very large for rabbit. For SSGBLUP in dairy cattle, it leads to both underestimation and overestimation of reliability, both for genotyped and non-genotyped animals. We strongly recommend to include inbreeding both in the set-up of A-inverse and in the computation of reliability from PEVs.
© 2020 Blackwell Verlag GmbH MenosABSTRACT.
Model-based accuracy, defined as the theoretical correlation between true and estimated breeding value, can be obtained for each individual as a function of its prediction error variance (PEV) and inbreeding coefficient F, in BLUP, GBLUP and SSGBLUP genetic evaluations. However, for computational convenience, inbreeding is often ignored in two places. First, in the computation of reliability = 1-PEV/(1 + F). Second, in the set-up, using Henderson's rules, of the inverse of the pedigree-based relationship matrix A. Both approximations have an effect in the computation of model-based accuracy and result in wrong values. In this work, first we present a reminder of the theory and extend it to SSGBLUP. Second, we quantify the error of ignoring inbreeding with real data in three scenarios: BLUP evaluation and SSGBLUP in Uruguayan dairy cattle, and BLUP evaluations in a line of rabbit closed for >40 generations with steady increase of inbreeding up to an average of 0.30. We show that ignoring inbreeding in the set-up of the A-inverse is equivalent to assume that non-inbred animals are actually inbred. This results in an increase of apparent PEV that is negligible for dairy cattle but considerable for rabbit. Ignoring inbreeding in reliability = 1-PEV/(1 + F) leads to underestimation of reliability for BLUP evaluations, and this underestimation is very large for rabbit. For SSGBLUP in dairy cattle, it leads to both underestimation and overestimation of reliability, both f... Presentar Todo |
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Palabras claves : |
BREEDING; Genomic predictions; GENOMICS. |
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Asunto categoría : |
L10 Genética y mejoramiento animal |
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Marc : |
LEADER 02789naa a2200241 a 4500
001 1060921
005 2020-08-10
008 2020 bl uuuu u00u1 u #d
022 $a0931-2668
024 7 $a10.1111/jbg.12470$2DOI
100 1 $aAGUILAR, I.
245 $aEffects of ignoring inbreeding in model-based accuracy for BLUP and SSGBLUP.$h[electronic resource]
260 $c2020
500 $aArticle history: Received: 22 August 2019 / Revised: 10 December 2019 / Accepted: 11 January 2020 / First published:20 February 2020 Corresponding author: Aguilar, I.; email:iaguilar@inia.org.uy Funding information: FEDER; INRA; Universidad Nacional de Lomas de Zamora; European Unions' Horizon 2020 Research & Innovation Programme, Grant/Award Number: N°772787
520 $aABSTRACT. Model-based accuracy, defined as the theoretical correlation between true and estimated breeding value, can be obtained for each individual as a function of its prediction error variance (PEV) and inbreeding coefficient F, in BLUP, GBLUP and SSGBLUP genetic evaluations. However, for computational convenience, inbreeding is often ignored in two places. First, in the computation of reliability = 1-PEV/(1 + F). Second, in the set-up, using Henderson's rules, of the inverse of the pedigree-based relationship matrix A. Both approximations have an effect in the computation of model-based accuracy and result in wrong values. In this work, first we present a reminder of the theory and extend it to SSGBLUP. Second, we quantify the error of ignoring inbreeding with real data in three scenarios: BLUP evaluation and SSGBLUP in Uruguayan dairy cattle, and BLUP evaluations in a line of rabbit closed for >40 generations with steady increase of inbreeding up to an average of 0.30. We show that ignoring inbreeding in the set-up of the A-inverse is equivalent to assume that non-inbred animals are actually inbred. This results in an increase of apparent PEV that is negligible for dairy cattle but considerable for rabbit. Ignoring inbreeding in reliability = 1-PEV/(1 + F) leads to underestimation of reliability for BLUP evaluations, and this underestimation is very large for rabbit. For SSGBLUP in dairy cattle, it leads to both underestimation and overestimation of reliability, both for genotyped and non-genotyped animals. We strongly recommend to include inbreeding both in the set-up of A-inverse and in the computation of reliability from PEVs. © 2020 Blackwell Verlag GmbH
653 $aBREEDING
653 $aGenomic predictions
653 $aGENOMICS
700 1 $aFERNÁNDEZ, E.N.
700 1 $aBLASCO, A.
700 1 $aRAVAGNOLO, O.
700 1 $aLEGARRA, A.
773 $tJournal of Animal Breeding and Genetics, 1 July 2020, Volume 137, Issue 4, pp. 356-364. Doi: https://doi.org/10.1111/jbg.12470
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Registro original : |
INIA Las Brujas (LB) |
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Registro completo
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Biblioteca (s) : |
INIA Las Brujas. |
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Fecha actual : |
19/05/2023 |
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Actualizado : |
19/05/2023 |
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Tipo de producción científica : |
Abstracts/Resúmenes |
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Autor : |
VIERA, L.; ALCOBA, F.; GONZÁLEZ-BARRIOS, P.; RODRÍGUEZ, G.; GONZÁLEZ-ARCOS, M.; FERREIRA, V.; GALVÁN, G.; SIRI, M.I.; GAIERO, P.; VILARÓ, F. |
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Afiliación : |
LUCIANA VIERA, Facultad de Ciencias Agrarias, Universidad de la Empresa (UDE); FLORENCIA ALCOBA, Facultad de Química, Universidad de la República; PABLO GONZÁLEZ-BARRIOS, Facultad de Agronomía, Universidad de la República; GUSTAVO ROBERTO RODRÍGUEZ LAGOUTTE, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; MATIAS GONZÁLEZ-ARCOS, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; VIRGINIA FERREIRA, Facultad de Química, Universidad de la República; GUILLERMO GALVÁN, Facultad de Agronomía, Universidad de la República; MARÍA INÉS SIRI, Facultad de Química, Universidad de la República; PAOLA GAIERO, Facultad de Agronomía, Universidad de la República; FRANCISCO LUIS VILARO PAREJA, Facultad de Ciencias Agrarias, Universidad de la Empresa; Facultad de Agronomía, Universidad de la República. |
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Título : |
Evaluación de la resistencia a marchitez bacteriana en germoplasma avanzado de Papa (Solanum tuberosum). 153. (resúmen). |
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Complemento del título : |
Áreas temáticas: Genética. |
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Fecha de publicación : |
2022 |
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Fuente / Imprenta : |
In: Physiological Mini Reviews, 2022, volume 15, Special Issue: III (3er) Congreso Nacional de Biociencias Octubre 2022, Montevideo, Uruguay. p.151-152. |
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ISSN : |
1669-5410 |
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Idioma : |
Español |
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Notas : |
Resumen publicado en las jornadas de BIOCIENCIAS: II Jornadas Binacionales Argentina-Uruguay; III Congreso Nacional 2022 "Ciencia para el desarrollo sustentable". |
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Contenido : |
Una de las principales enfermedades que afecta al cultivo de la papa es la marchitez bacteriana, causada por Ralstonia solanacearum. Con este trabajo se busca caracterizar la resistencia a marchitez bacteriana en germoplasma seleccionado del Programa nacional de papa y otros materiales promisorios de diverso origen. |
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Palabras claves : |
Introgresión; Murchera; Parientes silvestres de la papa; Ralstonia solanacearum; Retrocruza. |
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Asunto categoría : |
H20 Enfermedades de las plantas |
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URL : |
http://www.ainfo.inia.uy/digital/bitstream/item/17150/1/Viera-L.-et.al-p151-152-3er-Congreso-Nacional-Biociencias-2022.pdf
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Marc : |
LEADER 01464nam a2200301 a 4500
001 1064134
005 2023-05-19
008 2022 bl uuuu u01u1 u #d
022 $a1669-5410
100 1 $aVIERA, L.
245 $aEvaluación de la resistencia a marchitez bacteriana en germoplasma avanzado de Papa (Solanum tuberosum). 153. (resúmen).$h[electronic resource]
260 $aIn: Physiological Mini Reviews, 2022, volume 15, Special Issue: III (3er) Congreso Nacional de Biociencias Octubre 2022, Montevideo, Uruguay. p.151-152.$c2022
500 $aResumen publicado en las jornadas de BIOCIENCIAS: II Jornadas Binacionales Argentina-Uruguay; III Congreso Nacional 2022 "Ciencia para el desarrollo sustentable".
520 $aUna de las principales enfermedades que afecta al cultivo de la papa es la marchitez bacteriana, causada por Ralstonia solanacearum. Con este trabajo se busca caracterizar la resistencia a marchitez bacteriana en germoplasma seleccionado del Programa nacional de papa y otros materiales promisorios de diverso origen.
653 $aIntrogresión
653 $aMurchera
653 $aParientes silvestres de la papa
653 $aRalstonia solanacearum
653 $aRetrocruza
700 1 $aALCOBA, F.
700 1 $aGONZÁLEZ-BARRIOS, P.
700 1 $aRODRÍGUEZ, G.
700 1 $aGONZÁLEZ-ARCOS, M.
700 1 $aFERREIRA, V.
700 1 $aGALVÁN, G.
700 1 $aSIRI, M.I.
700 1 $aGAIERO, P.
700 1 $aVILARÓ, F.
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