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Registro completo
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Biblioteca (s) : |
INIA Las Brujas. |
Fecha : |
18/12/2017 |
Actualizado : |
15/10/2019 |
Tipo de producción científica : |
Artículos en Revistas Indexadas Internacionales |
Autor : |
LOURENCO, D.A.L.; FRAGOMENI, B.O.; BRADFORD, H.L.; MENEZES I.R.; FERRAZ, J.B.S.; AGUILAR, I.; MISZTAL, I. |
Afiliación : |
D.A.L. LOURENCO, Universidad de Georgia (UG); B.O. FRAGOMENI, Universidad de Georgia (UG); H.L. BRADFORD, Universidad de Georgia (UG); I.R. MENEZES, FZEA, University of Sao Paulo.; J.B.S. FERRAZ, FZEA, University of Sao Paulo.; IGNACIO AGUILAR GARCIA, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; I. MISZTAL, Universidad de Georgia (UG). |
Título : |
Implications of SNP weighting on single-step genomic predictions for different reference population sizes. |
Fecha de publicación : |
2017 |
Fuente / Imprenta : |
Journal of Animal Breeding and Genetics, 2017, v. 134 (6), p. 463-471. |
DOI : |
10.1111/jbg.12288 |
Idioma : |
Inglés |
Notas : |
Article history: Received: 28 February 2017 / Accepted: 19 July 2017.
This study was partially funded by the American Angus Association (St. Joseph, MO), Zoetis (Kalamazoo, MI) and by Agriculture and Food Research Initiative Competitive Grants no. 2015-67015-22936 from the US Department of Agriculture's National Institute of Food and Agriculture. We gratefully acknowledge the very helpful comments by the two anonymous reviewers, and we thank Andra H. Nelson for assisting with data analysis. |
Contenido : |
ABSTRACT.
We investigated the importance of SNP weighting in populations with 2,000 to 25,000 genotyped animals. Populations were simulated with two effective sizes (20 or 100) and three numbers of QTL (10, 50 or 500). Pedigree information was available for six generations; phenotypes were recorded for the four middle generations. Animals from the last three generations were genotyped for 45,000 SNP. Single-step genomic BLUP (ssGBLUP) and weighted ssGBLUP (WssGBLUP) were used to estimate genomic EBV using a genomic relationship matrix (G). The WssGBLUP performed better in small genotyped populations; however, any advantage for WssGBLUP was reduced or eliminated when more animals were genotyped. WssGBLUP had greater resolution for genome-wide association (GWA) as did increasing the number of genotyped animals. For few QTL, accuracy was greater for WssGBLUP than ssGBLUP; however, for many QTL, accuracy was the same for both methods. The largest genotyped set was used to assess the dimensionality of genomic information (number of effective SNP). The number of effective SNP was considerably less in weighted G than in unweighted G. Once the number of independent SNP is well represented in the genotyped population, the impact of SNP weighting becomes less important.
© 2017 Blackwell Verlag GmbH |
Palabras claves : |
ACCURAY; BAYES B; SNP WEIGHTING; VARIABLE SELECTION; WEIGTED SSGBLUP. |
Asunto categoría : |
-- |
Marc : |
LEADER 02612naa a2200277 a 4500 001 1057902 005 2019-10-15 008 2017 bl uuuu u00u1 u #d 024 7 $a10.1111/jbg.12288$2DOI 100 1 $aLOURENCO, D.A.L. 245 $aImplications of SNP weighting on single-step genomic predictions for different reference population sizes.$h[electronic resource] 260 $c2017 500 $aArticle history: Received: 28 February 2017 / Accepted: 19 July 2017. This study was partially funded by the American Angus Association (St. Joseph, MO), Zoetis (Kalamazoo, MI) and by Agriculture and Food Research Initiative Competitive Grants no. 2015-67015-22936 from the US Department of Agriculture's National Institute of Food and Agriculture. We gratefully acknowledge the very helpful comments by the two anonymous reviewers, and we thank Andra H. Nelson for assisting with data analysis. 520 $aABSTRACT. We investigated the importance of SNP weighting in populations with 2,000 to 25,000 genotyped animals. Populations were simulated with two effective sizes (20 or 100) and three numbers of QTL (10, 50 or 500). Pedigree information was available for six generations; phenotypes were recorded for the four middle generations. Animals from the last three generations were genotyped for 45,000 SNP. Single-step genomic BLUP (ssGBLUP) and weighted ssGBLUP (WssGBLUP) were used to estimate genomic EBV using a genomic relationship matrix (G). The WssGBLUP performed better in small genotyped populations; however, any advantage for WssGBLUP was reduced or eliminated when more animals were genotyped. WssGBLUP had greater resolution for genome-wide association (GWA) as did increasing the number of genotyped animals. For few QTL, accuracy was greater for WssGBLUP than ssGBLUP; however, for many QTL, accuracy was the same for both methods. The largest genotyped set was used to assess the dimensionality of genomic information (number of effective SNP). The number of effective SNP was considerably less in weighted G than in unweighted G. Once the number of independent SNP is well represented in the genotyped population, the impact of SNP weighting becomes less important. © 2017 Blackwell Verlag GmbH 653 $aACCURAY 653 $aBAYES B 653 $aSNP WEIGHTING 653 $aVARIABLE SELECTION 653 $aWEIGTED SSGBLUP 700 1 $aFRAGOMENI, B.O. 700 1 $aBRADFORD, H.L. 700 1 $aMENEZES I.R. 700 1 $aFERRAZ, J.B.S. 700 1 $aAGUILAR, I. 700 1 $aMISZTAL, I. 773 $tJournal of Animal Breeding and Genetics, 2017$gv. 134 (6), p. 463-471.
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INIA Las Brujas (LB) |
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Registro completo
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Biblioteca (s) : |
INIA La Estanzuela. |
Fecha actual : |
07/08/2018 |
Actualizado : |
07/08/2018 |
Tipo de producción científica : |
Capítulo en Libro Técnico-Científico |
Autor : |
LUIZZI, D.; PEREYRA, S.; ABADIE, T.; GATTI, I.; QUINCKE, M.; VÁZQUEZ, D.; CONDON, F.; DÍAZ DE ACKERMANN, M.; GERMAN, S. |
Afiliación : |
DOMINGO LUIZZI, ex CIAAB (Centro de Investigaciones Agrícolas "Alberto Boerger"); SILVIA ANTONIA PEREYRA CORREA, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; TABARÉ ABADIE, DuPont Pioneer, 7300 NW 62nd Av, Johnston, Iowa 50131, EUA; IRENE GATTI, Dow AgroSciences, 9330 Zionsville Rd, Indianapolis, Indianapolis 46268, EUA.; MARTIN CONRADO QUINCKE WALDEN, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; DANIEL VÁZQUEZ PEYRONEL, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; FEDERICO CONDON PRIANO, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; MARTHA DÍAZ DE ACKERMANN, ex INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay.; SILVIA ELISA GERMAN FAEDO, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay. |
Título : |
Introducción. |
Fecha de publicación : |
2018 |
Fuente / Imprenta : |
In: GERMAN, S.; LUIZZI, D. (Ed.). 100 años de mejoramiento de trigo en INIA La Estanzuela. Montevideo (UY): INIA, 2018. |
Páginas : |
p. 5-6. |
Idioma : |
Español |
Palabras claves : |
BOERGER, ALBERTO; HISTORIA ENSAYOS TRIGO URUGUAY. |
Thesagro : |
MEJORAMIENTO GENETICO; TRIGO. |
Asunto categoría : |
F01 Cultivo |
URL : |
http://www.ainfo.inia.uy/digital/bitstream/item/10965/1/INIA-100-anos-de-mejoramiento-de-trigo-en-INIA-La-Estanzuela.Introduccion.p.5-6.pdf
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Marc : |
LEADER 00756naa a2200265 a 4500 001 1058872 005 2018-08-07 008 2018 bl uuuu u00u1 u #d 100 1 $aLUIZZI, D. 245 $aIntroducción.$h[electronic resource] 260 $c2018 300 $ap. 5-6. 650 $aMEJORAMIENTO GENETICO 650 $aTRIGO 653 $aBOERGER, ALBERTO 653 $aHISTORIA ENSAYOS TRIGO URUGUAY 700 1 $aPEREYRA, S. 700 1 $aABADIE, T. 700 1 $aGATTI, I. 700 1 $aQUINCKE, M. 700 1 $aVÁZQUEZ, D. 700 1 $aCONDON, F. 700 1 $aDÍAZ DE ACKERMANN, M. 700 1 $aGERMAN, S. 773 $tIn: GERMAN, S.; LUIZZI, D. (Ed.). 100 años de mejoramiento de trigo en INIA La Estanzuela. Montevideo (UY): INIA, 2018.
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