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| 6. |  | BAIETTO, A.; HIRIGOYEN, A.; MAÑANA, M.; RIZZO-MARTÍN, I.; GONZÁLEZ, A.; NAVARRO CERRILLO, R. Modeling forest structural variables of Eucalyptus dunnii Maiden stands under short-rotation management using SAR, multispectral, soil-derived, and field-based data. Forest Ecology and Management, 15 July 2025, Volume 588, 122759. https://doi.org/10.1016/j.foreco.2025.122759 Article history: Received 3 March 2025, Revised 21 April 2025, Accepted 22 April 2025, Available online 9 May 2025, Version of Record 9 May 2025. -- Corresponding author at: Forest Department, Faculty of Agronomy, University of the...| Biblioteca(s): INIA Las Brujas. |
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| 7. | | HIRIGOYEN, A.; NAVARRO-CERRILLO, R.; BAGNARA, M.; FRANCO, J.; RESQUÍN, F.; RACHID, C. Modelling taper and stem volume considering stand density in Eucalyptus grandis and Eucalyptus dunnii. i Forest - Biogeosciences and Forestry, 2021, Volume 14, Issue 2, Pages 127-136.OPEN ACCESS. DOI: https://doi.org/10.3832/ifor3604-014 Article history: Received: Jul 31, 2020 - Accepted: Jan 15, 2021. Acknowledgments: The authors thank the Instituto Nacional de Investigaciones Agropecuarias (INIAUruguay) for supporting fieldwork and the INIA Scholarship for PhD studies....| Biblioteca(s): INIA Tacuarembó. |
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| 10. | | RESQUÍN, F.; BENTANCOR, L.; CARRASCO-LETELIER, L.; RACHID, C.; NAVARRO-CERRILLO, R.M. Rotation length of intensive Eucalyptus plantations: how it impacts on productive and energy sustainability. Biomass and Bioenergy, 2022, Volume 166, article 106607. doi: https://doi.org/10.1016/j.biombioe.2022.106607 Article history: Received 11 April 2022; Received in revised form 31 August 2022; Accepted 18 September 2022; To be published November 2022.
Corresponding author: Fernando Resquin, Route 5 km 368, CP45000, INIA Tacuarembó, Uruguay. E-mail...| Biblioteca(s): INIA Las Brujas. |
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| 11. | | RIZZO-MARTÍN, I.; HIRIGOYEN, A.; ARTHUS-BACOVICH, R.; VARO-MARTÍNEZ, M.A.; NAVARRO-CERRILLO, R. Site index estimation using airborne laser scanner data in Eucalyptus dunnii Maide stands in Uruguay. Forests, 2023, Volume 14, Issue 5, article 933. https://doi.org/10.3390/f14050933 -- OPEN ACCESS. Article history: Received 16 March 2023; Revised 23 April 2023; Accepted 27 April 2023; Published 1 May 2023. -- Correspondence: Rizzo-Martín, I.; Department of Forest Production and Wood Technology, Faculty of Agronomy, University of the...| Biblioteca(s): INIA Las Brujas. |
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| 12. | | HIRIGOYEN, A.; ACUNA. M.; RACHID, C.; FRANCO, J.; NAVARRO-CERRILLO, R. Use of optimization modeling to assess the effect of timber and carbon pricing on harvest scheduling, carbon sequestration, and net present value of eucalyptus plantations. Forests, 2021, Volume 12, Issue 6, Article number 651. OPEN ACCESS. Doi: https://doi.org/10.3390/f12060651 Article history: Received 21 March 2021; Revised 10 May 2021; Accepted 12 May 2021; Published: 21 May 2021.
Academic Editor: Luis Diaz-Balteiro.
The authors thank the Instituto Nacional de Investigaciones Agropecuarias (INIA-Uruguay) for...| Biblioteca(s): INIA Las Brujas. |
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| 13. | | HIRIGOYEN, A.; VARO-MARTINEZ, M.A.; RACHID, C.; FRANCO, J.; NAVARRO-CERRILLO, R.M. Stand characterization of eucalyptus spp. Plantations in uruguay using airborne lidar scanner technology. Remote Sensing, 1 December 2020, Volume 12, Issue 23, Article number 3947, Pages 1-19. Open Access. Doi: https://doi.org/10.3390/rs12233947 Article history: Received: 16 October 2020 / Revised: 5 November 2020 / Accepted: 21 November 2020 / Published: 2 December 2020. Acknowledgments: The authors thank the Instituto Nacional de Investigaciones Agropecuarias (INIA-Uruguay) for...| Biblioteca(s): INIA Tacuarembó. |
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| 14. | | RESQUÍN, F.; DUQUE-LAZO, J.; ACOSTA-MUÑÓZ, C.; RACHID, C.; CARRASCO-LETELIER, L.; NAVARRO-CERRILLO, R.M. Modelling Current and Future Potential Habitats for Plantations of Eucalyptus grandis Hill ex Maiden and E. dunnii Maiden in Uruguay. Forests, 2020, vol. 11, Issue 9, Article 948. OPEN ACCESS. Doi: https://doi.org/10.3390/f11090948 Article history: Received: 6 July 2020; Accepted: 24 August 2020; Published: 29 August 2020.
Supplementary material.
This article belongs to the Special Issue Modeling of Species Distribution and Biodiversity in Forests -...| Biblioteca(s): INIA Las Brujas; INIA Tacuarembó. |
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| 15. | | HIRIGOYEN, A.; ACOSTA-MUÑOZ, C.; SALAMANCA, A.J.A.; VARO-MARTINEZ, M.Á.; RACHID, C.; FRANCO, J.; NAVARRO-CERRILLO, R. A machine learning approach to model leaf area index in Eucalyptus plantations using high-resolution satellite imagery and airborne laser scanner data. Annals of Forest Research, 2021, Volume 64, Issue 2, Pages 165-183. OPEN ACCESS. doi: https://doi.org/10.15287/afr.2021.2073 Article history: Received October 27, 2020; Revised December 14, 2021; Accepted December 21, 2021.
Corresponding author: Hirigoyen, A.; National Institute of Agricultural Research (INIA), Tacuarembó, Uruguay; email:ahirigoyen@inia.org.uy...| Biblioteca(s): INIA Las Brujas. |
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| Registros recuperados : 15 | |
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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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Registro completo
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Biblioteca (s) : |
INIA Las Brujas. |
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Fecha actual : |
07/11/2018 |
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Actualizado : |
07/11/2018 |
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Tipo de producción científica : |
Artículos en Revistas Indexadas Internacionales |
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Circulación / Nivel : |
Internacional - -- |
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Autor : |
CHIAIA, H.L.J.; PERIPOLLI, E.; DE OLIVEIRA SILVA, R.M.; FEITOSA, F.L.B.; DE LEMOS, M.V.A.; BERTON, M.P.; OLIVIERI, B.F.; ESPIGOLAN, R.; TONUSSI, R.L.; GORDO, D.G.M.; DE ALBUQUERQUE, L.G.; DE OLIVEIRA, H.N.; FERRINHO, A.M.; MUELLER, L.F.; KLUSKA, S.; TONHATI, H.; PEREIRA, A.S.C.; AGUILAR, I.; BALDI, F. |
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Afiliación : |
HERMENEGILDO LUCAS JUSTINO CHIAIA, Faculdade de Ciências Agrárias e Veterinárias, UNESP, Brazil.; ELISA PERIPOLLI, Faculdade de Ciências Agrárias e Veterinárias, UNESP, Brazil.; RAFAEL MEDEIROS DE OLIVEIRA SILVA, Faculdade de Ciências Agrárias e Veterinárias, UNESP, Brazil.; FABIELE LOISE BRAGA FEITOSA, Faculdade de Ciências Agrárias e Veterinárias, UNESP, Brazil.; MARCOS VINÍCIUS ANTUNES DE LEMOS, Faculdade de Ciências Agrárias e Veterinárias, UNESP, Brazil.; MARIANA PIATTO BERTON, Faculdade de Ciências Agrárias e Veterinárias, UNESP, Brazil.; BIANCA FERREIRA OLIVIERI, Faculdade de Ciências Agrárias e Veterinárias, UNESP, Brazil.; RAFAEL ESPIGOLAN, Faculdade de Ciências Agrárias e Veterinárias, UNESP, Brazil.; RAFAEL LARA TONUSSI, Faculdade de Ciências Agrárias e Veterinárias, UNESP, Brazil.; DANIEL GUSTAVO MANSAN GORDO, Faculdade de Ciências Agrárias e Veterinárias, UNESP, Brazil.; LUCIA GALVÃO DE ALBUQUERQUE, Faculdade de Ciências Agrárias e Veterinárias, UNESP, Brazil.; HENRIQUE NUNES DE OLIVEIRA, Faculdade de Ciências Agrárias e Veterinárias, UNESP, Brazil.; ADRIELLE MATHIAS FERRINHO, Faculdade de Medicina Veterinária e Zootecnia, USP, Brazil.; LENISE FREITAS MUELLER, Faculdade de Zootecnia e Engenharia de Alimentos, USP, Brazil.; SABRINA KLUSKA, Faculdade de Ciências Agrárias e Veterinárias, UNESP, Brazil.; HUMBERTO TONHATI, Faculdade de Ciências Agrárias e Veterinárias, UNESP, Brazil.; ANGÉLICA SIMONE CRAVO PEREIRA, Faculdade de Medicina Veterinária e Zootecnia, USP, Brazil.; IGNACIO AGUILAR GARCIA, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; FERNANDO BALDI, Faculdade de Ciências Agrárias e Veterinárias, UNESP, Brazil. |
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Título : |
Genomic prediction ability for beef fatty acid profile in Nelore cattle using different pseudo-phenotypes. |
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Fecha de publicación : |
2018 |
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Fuente / Imprenta : |
Journal of Applied Genetics, 1 November 2018, volume 59, Issue 4, pages 493-501. |
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DOI : |
10.1007/s13353-018-0470-5 |
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Idioma : |
Inglés |
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Notas : |
Article history: Received: 15 May 2018 // Revised: 28 August 2018 // Accepted: 17 September 2018. |
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Contenido : |
ABSTRACT.
The aim of the present study was to compare the predictive ability of SNP-BLUP model using different pseudo-phenotypes such as phenotype adjusted for fixed effects, estimated breeding value, and genomic estimated breeding value, using simulated and real data for beef FA profile of Nelore cattle finished in feedlot. A pedigree with phenotypes and genotypes of 10,000 animals were simulated, considering 50% of multiple sires in the pedigree. Regarding to phenotypes, two traits were simulated, one with high heritability (0.58), another with low heritability (0.13). Ten replicates were performed for each trait and results were averaged among replicates. A historical population was created from generation zero to 2020, with a constant size of 2000 animals (from generation zero to 1000) to produce different levels of linkage disequilibrium (LD). Therefore, there was a gradual reduction in the number of animals (from 2000 to 600), producing a ?bottleneck effect? and consequently, genetic drift and LD starting in the generation 1001 to 2020. A total of 335,000 markers (with MAF greater or equal to 0.02) and 1000 QTL were randomly selected from the last generation of the historical population to generate genotypic data for the test population. The phenotypes were computed as the sum of the QTL effects and an error term sampled from a normal distribution with zero mean and variance equal to 0.88. For simulated data, 4000 animals of the generations 7, 8, and 9 (with genotype and phenotype) were used as training population, and 1000 animals of the last generation (10) were used as validation population. A total of 937 Nelore bulls with phenotype for fatty acid profiles (Sum of saturated, monounsaturated, omega 3, omega 6, ratio of polyunsaturated and saturated and polyunsaturated fatty acid profile) were genotyped using the Illumina BovineHD BeadChip (Illumina, San Diego, CA) with 777,962 SNP. To compare the accuracy and bias of direct genomic value (DGV) for different pseudo-phenotypes, the correlation between true breeding value (TBV) or DGV with pseudo-phenotypes and linear regression coefficient of the pseudo-phenotypes on TBV for simulated data or DGV for real data, respectively. For simulated data, the correlations between DGV and TBV for high heritability traits were higher than obtained with low heritability traits. For simulated and real data, the prediction ability was higher for GEBV than for Yc and EBV. For simulated data, the regression coefficient estimates (b(Yc,DGV)), were on average lower than 1 for high and low heritability traits, being inflated. The results were more biased for Yc and EBV than for GEBV. For real data, the GEBV displayed less biased results compared to Yc and EBV for SFA, MUFA, n-3, n-6, and PUFA/SFA. Despite the less biased results for PUFA using the EBV as pseudo-phenotype, the b(Yi,DGV estimates obtained for the different pseudo-phenotypes (Yc, EBV and GEBV) were very close. Genomic information can assist in improving beef fatty acid profile in Zebu cattle, since the use of genomic information yielded genomic values for fatty acid profile with accuracies ranging from low to moderate. Considering both simulated and real data, the ssGBLUP model is an appropriate alternative to obtain more reliable and less biased GEBVs as pseudo-phenotype in situations of missing pedigree, due to high proportion of multiple sires, being more adequate than EBV and Yc to predict direct genomic value for beef fatty acid profile.
© 2018, Institute of Plant Genetics, Polish Academy of Sciences, Poznan. MenosABSTRACT.
The aim of the present study was to compare the predictive ability of SNP-BLUP model using different pseudo-phenotypes such as phenotype adjusted for fixed effects, estimated breeding value, and genomic estimated breeding value, using simulated and real data for beef FA profile of Nelore cattle finished in feedlot. A pedigree with phenotypes and genotypes of 10,000 animals were simulated, considering 50% of multiple sires in the pedigree. Regarding to phenotypes, two traits were simulated, one with high heritability (0.58), another with low heritability (0.13). Ten replicates were performed for each trait and results were averaged among replicates. A historical population was created from generation zero to 2020, with a constant size of 2000 animals (from generation zero to 1000) to produce different levels of linkage disequilibrium (LD). Therefore, there was a gradual reduction in the number of animals (from 2000 to 600), producing a ?bottleneck effect? and consequently, genetic drift and LD starting in the generation 1001 to 2020. A total of 335,000 markers (with MAF greater or equal to 0.02) and 1000 QTL were randomly selected from the last generation of the historical population to generate genotypic data for the test population. The phenotypes were computed as the sum of the QTL effects and an error term sampled from a normal distribution with zero mean and variance equal to 0.88. For simulated data, 4000 animals of the generations 7, 8, and 9 (with genotype a... Presentar Todo |
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Palabras claves : |
BOS INDICUS; GENOMIC PREDICTION; LIPID PROFILE; SINGLE-STEP; SNP-BLUP. |
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Asunto categoría : |
-- |
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Marc : |
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024 7 $a10.1007/s13353-018-0470-5$2DOI
100 1 $aCHIAIA, H.L.J.
245 $aGenomic prediction ability for beef fatty acid profile in Nelore cattle using different pseudo-phenotypes.$h[electronic resource]
260 $c2018
500 $aArticle history: Received: 15 May 2018 // Revised: 28 August 2018 // Accepted: 17 September 2018.
520 $aABSTRACT. The aim of the present study was to compare the predictive ability of SNP-BLUP model using different pseudo-phenotypes such as phenotype adjusted for fixed effects, estimated breeding value, and genomic estimated breeding value, using simulated and real data for beef FA profile of Nelore cattle finished in feedlot. A pedigree with phenotypes and genotypes of 10,000 animals were simulated, considering 50% of multiple sires in the pedigree. Regarding to phenotypes, two traits were simulated, one with high heritability (0.58), another with low heritability (0.13). Ten replicates were performed for each trait and results were averaged among replicates. A historical population was created from generation zero to 2020, with a constant size of 2000 animals (from generation zero to 1000) to produce different levels of linkage disequilibrium (LD). Therefore, there was a gradual reduction in the number of animals (from 2000 to 600), producing a ?bottleneck effect? and consequently, genetic drift and LD starting in the generation 1001 to 2020. A total of 335,000 markers (with MAF greater or equal to 0.02) and 1000 QTL were randomly selected from the last generation of the historical population to generate genotypic data for the test population. The phenotypes were computed as the sum of the QTL effects and an error term sampled from a normal distribution with zero mean and variance equal to 0.88. For simulated data, 4000 animals of the generations 7, 8, and 9 (with genotype and phenotype) were used as training population, and 1000 animals of the last generation (10) were used as validation population. A total of 937 Nelore bulls with phenotype for fatty acid profiles (Sum of saturated, monounsaturated, omega 3, omega 6, ratio of polyunsaturated and saturated and polyunsaturated fatty acid profile) were genotyped using the Illumina BovineHD BeadChip (Illumina, San Diego, CA) with 777,962 SNP. To compare the accuracy and bias of direct genomic value (DGV) for different pseudo-phenotypes, the correlation between true breeding value (TBV) or DGV with pseudo-phenotypes and linear regression coefficient of the pseudo-phenotypes on TBV for simulated data or DGV for real data, respectively. For simulated data, the correlations between DGV and TBV for high heritability traits were higher than obtained with low heritability traits. For simulated and real data, the prediction ability was higher for GEBV than for Yc and EBV. For simulated data, the regression coefficient estimates (b(Yc,DGV)), were on average lower than 1 for high and low heritability traits, being inflated. The results were more biased for Yc and EBV than for GEBV. For real data, the GEBV displayed less biased results compared to Yc and EBV for SFA, MUFA, n-3, n-6, and PUFA/SFA. Despite the less biased results for PUFA using the EBV as pseudo-phenotype, the b(Yi,DGV estimates obtained for the different pseudo-phenotypes (Yc, EBV and GEBV) were very close. Genomic information can assist in improving beef fatty acid profile in Zebu cattle, since the use of genomic information yielded genomic values for fatty acid profile with accuracies ranging from low to moderate. Considering both simulated and real data, the ssGBLUP model is an appropriate alternative to obtain more reliable and less biased GEBVs as pseudo-phenotype in situations of missing pedigree, due to high proportion of multiple sires, being more adequate than EBV and Yc to predict direct genomic value for beef fatty acid profile. © 2018, Institute of Plant Genetics, Polish Academy of Sciences, Poznan.
653 $aBOS INDICUS
653 $aGENOMIC PREDICTION
653 $aLIPID PROFILE
653 $aSINGLE-STEP
653 $aSNP-BLUP
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700 1 $aDE OLIVEIRA SILVA, R.M.
700 1 $aFEITOSA, F.L.B.
700 1 $aDE LEMOS, M.V.A.
700 1 $aBERTON, M.P.
700 1 $aOLIVIERI, B.F.
700 1 $aESPIGOLAN, R.
700 1 $aTONUSSI, R.L.
700 1 $aGORDO, D.G.M.
700 1 $aDE ALBUQUERQUE, L.G.
700 1 $aDE OLIVEIRA, H.N.
700 1 $aFERRINHO, A.M.
700 1 $aMUELLER, L.F.
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700 1 $aTONHATI, H.
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700 1 $aAGUILAR, I.
700 1 $aBALDI, F.
773 $tJournal of Applied Genetics, 1 November 2018, volume 59, Issue 4, pages 493-501.
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