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Registro Completo |
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Biblioteca(s): |
Embrapa Florestas. |
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Data corrente: |
24/08/2015 |
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Data da última atualização: |
25/02/2016 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
AZEVEDO, C. F.; RESENDE, M. D. V. de; SILVA, F. F. e; VIANA, J. M. S.; VALENTE, M. S. F.; RESENDE JUNIOR, M. F. R.; MUÑOZ, P. |
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Afiliação: |
Camila Ferreira Azevedo, UFV; MARCOS DEON VILELA DE RESENDE, CNPF; Fabyano Fonseca e Silva, UFV; José Marcelo Soriano Viana, UFV; Magno Sávio Ferreira Valente, UFV; Márcio Fernando Ribeiro Resende Jr, Florida Innovation Hub; Patricio Muñoz, University of Florida. |
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Título: |
Ridge, Lasso and Bayesian additive dominance genomic models. |
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Ano de publicação: |
2015 |
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Fonte/Imprenta: |
BMC Genetics, v. 16, art. 105, Aug. 2015. 13 p. |
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DOI: |
10.1186/s12863-015-0264-2 |
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Idioma: |
Inglês |
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Conteúdo: |
Background: A complete approach for genome-wide selection (GWS) involves reliable statistical genetics models and methods. Reports on this topic are common for additive genetic models but not for additive-dominance models. The objective of this paper was (i) to compare the performance of 10 additive-dominance predictive models (including current models and proposed modifications), fitted using Bayesian, Lasso and Ridge regression approaches; and (ii) to decompose genomic heritability and accuracy in terms of three quantitative genetic information sources, namely, linkage disequilibrium (LD), co-segregation (CS) and pedigree relationships or family structure (PR). The simulation study considered two broad sense heritability levels (0.30 and 0.50, associated with narrow sense heritabilities of 0.20 and 0.35, respectively) and two genetic architectures for traits (the first consisting of small gene effects and the second consisting of a mixed inheritance model with five major genes). Results: G-REML/G-BLUP and a modified Bayesian/Lasso (called BayesA*B* or t-BLASSO) method performed best in the prediction of genomic breeding as well as the total genotypic values of individuals in all four scenarios (two heritabilities x two genetic architectures). The BayesA*B*-type method showed a better ability to recover the dominance variance/additive variance ratio. Decomposition of genomic heritability and accuracy revealed the following descending importance order of information: LD, CS and PR not captured by markers, the last two being very close. Conclusions: Amongst the 10 models/methods evaluated, the G-BLUP, BAYESA*B* (−2,8) and BAYESA*B* (4,6) methods presented the best results and were found to be adequate for accurately predicting genomic breeding and total genotypic values as well as for estimating additive and dominance in additive-dominance genomic models. MenosBackground: A complete approach for genome-wide selection (GWS) involves reliable statistical genetics models and methods. Reports on this topic are common for additive genetic models but not for additive-dominance models. The objective of this paper was (i) to compare the performance of 10 additive-dominance predictive models (including current models and proposed modifications), fitted using Bayesian, Lasso and Ridge regression approaches; and (ii) to decompose genomic heritability and accuracy in terms of three quantitative genetic information sources, namely, linkage disequilibrium (LD), co-segregation (CS) and pedigree relationships or family structure (PR). The simulation study considered two broad sense heritability levels (0.30 and 0.50, associated with narrow sense heritabilities of 0.20 and 0.35, respectively) and two genetic architectures for traits (the first consisting of small gene effects and the second consisting of a mixed inheritance model with five major genes). Results: G-REML/G-BLUP and a modified Bayesian/Lasso (called BayesA*B* or t-BLASSO) method performed best in the prediction of genomic breeding as well as the total genotypic values of individuals in all four scenarios (two heritabilities x two genetic architectures). The BayesA*B*-type method showed a better ability to recover the dominance variance/additive variance ratio. Decomposition of genomic heritability and accuracy revealed the following descending importance order of information: LD, CS ... Mostrar Tudo |
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Palavras-Chave: |
Bayesian methods; Dominance genomic models; Genética quantitativa; Lasso methods; Melhoramento genético; Modelo Bayesiano; Selection accuracy. |
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Thesagro: |
Parâmetro Genético. |
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Categoria do assunto: |
-- |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/128510/1/2015-API-Deon-Ridge.pdf
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Marc: |
LEADER 02783naa a2200301 a 4500
001 2022575
005 2016-02-25
008 2015 bl uuuu u00u1 u #d
024 7 $a10.1186/s12863-015-0264-2$2DOI
100 1 $aAZEVEDO, C. F.
245 $aRidge, Lasso and Bayesian additive dominance genomic models.$h[electronic resource]
260 $c2015
520 $aBackground: A complete approach for genome-wide selection (GWS) involves reliable statistical genetics models and methods. Reports on this topic are common for additive genetic models but not for additive-dominance models. The objective of this paper was (i) to compare the performance of 10 additive-dominance predictive models (including current models and proposed modifications), fitted using Bayesian, Lasso and Ridge regression approaches; and (ii) to decompose genomic heritability and accuracy in terms of three quantitative genetic information sources, namely, linkage disequilibrium (LD), co-segregation (CS) and pedigree relationships or family structure (PR). The simulation study considered two broad sense heritability levels (0.30 and 0.50, associated with narrow sense heritabilities of 0.20 and 0.35, respectively) and two genetic architectures for traits (the first consisting of small gene effects and the second consisting of a mixed inheritance model with five major genes). Results: G-REML/G-BLUP and a modified Bayesian/Lasso (called BayesA*B* or t-BLASSO) method performed best in the prediction of genomic breeding as well as the total genotypic values of individuals in all four scenarios (two heritabilities x two genetic architectures). The BayesA*B*-type method showed a better ability to recover the dominance variance/additive variance ratio. Decomposition of genomic heritability and accuracy revealed the following descending importance order of information: LD, CS and PR not captured by markers, the last two being very close. Conclusions: Amongst the 10 models/methods evaluated, the G-BLUP, BAYESA*B* (−2,8) and BAYESA*B* (4,6) methods presented the best results and were found to be adequate for accurately predicting genomic breeding and total genotypic values as well as for estimating additive and dominance in additive-dominance genomic models.
650 $aParâmetro Genético
653 $aBayesian methods
653 $aDominance genomic models
653 $aGenética quantitativa
653 $aLasso methods
653 $aMelhoramento genético
653 $aModelo Bayesiano
653 $aSelection accuracy
700 1 $aRESENDE, M. D. V. de
700 1 $aSILVA, F. F. e
700 1 $aVIANA, J. M. S.
700 1 $aVALENTE, M. S. F.
700 1 $aRESENDE JUNIOR, M. F. R.
700 1 $aMUÑOZ, P.
773 $tBMC Genetics$gv. 16, art. 105, Aug. 2015. 13 p.
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Registro original: |
Embrapa Florestas (CNPF) |
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| Registros recuperados : 10 | |
| 1. |  | SANDE, M. T. van der; POORTER, L.; BALVANERA, P.; KOOISTRA, L.; THONICKE, K.; BOIT, A.; DUTRIEUX, L. P.; EQUIHUA, J.; GERARD, F.; HEROLD, M.; KOLB, M.; SIMÕES, M.; PEÑA-CLAROS, M. The integration of empirical, remote sensing and modelling approaches enhances insight in the role of biodiversity in climate change mitigation by tropical forests. Current Opinion in Environmental Sustainability, v. 26/27, p. 69-76, Jun. 2017.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Solos. |
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| 2. | | PÉREZ-SOBA, M.; PARR, T.; WINOGARD, M.; CLAROS, M. P.; VARELA-ORTEGA, C.; ASCARRUNZ, N.; BALVANERA, P.; BHOLANATH, P.; EQUIHUA, M.; MARTORANO, L. G.; JONES, L.; MAASS, M.; THONICKE, K. Framework for multi-scale integrated impact analyses of climate change mitigation options. In: INTERNATIONAL CONFERENCE ON CLIMATE CHANGE EFECTS, 2013, Potsdam. Impacts world 2013. [Potsdam: Potsdam Institute for Climate Impact Research], 2013.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Amazônia Oriental. |
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| 3. | | QUIJAS, S.; BOIT, B.; THONICKE, K.; MURRAY-TORTAROLO, G.; MWAMPAMBA, T.; SKUTSCH, M.; SIMÕES, M.; ASCARRUNZ, N.; PEÑA-CLAROS, M.; JONES, L.; ARETS, E.; JARAMILLO, V. J.; LAZOS, E.; TOLEDO, M.; MARTORANO, L. G.; FERRAZ, R. P. D.; BALVANERA, P. Modelling carbon stock and carbon sequestration ecosystem services for policy design: a comprehensive approach using a dynamic vegetation model. Ecosystems and People, v. 15, n. 1, p. 42-60, 2018.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: C - 0 |
| Biblioteca(s): Embrapa Amazônia Oriental; Embrapa Solos. |
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| 4. | | VERBOOM, J.; KRUIJT, B.; SOBA, M. P.; BAVECO, H.; EUPEN, M. van; RANDOW, C. von; PARR, T.; THONICKE, K.; JONES, L.; BOIT, A.; BALVANERA, P.; ABARCA, E. L.; HUNTINGFORD, C.; BLYTH, E.; CISOWSKA, I.; MARTORANO, L.; TOLEDO, M.; PURSE, B.; MASANTE, D.; PENA CLAROS, M. Exploring causes, risks, and consequences for ecosystem services of tipping points in Latin American forests - the role of biodiversity. In: INTERNATIONAL SCIENTIFIC CONFERENCE "OUR COMMON FUTURE UNDER CLIMATE CHANGE", 2015, Paris. Abstract book. [S.l.: s.n.], 2015. p. 432.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Amazônia Oriental. |
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| 5. | | BALVANERA, P.; QUIJAS, S.; JONES, L.; MASANTE, D.; EQUIHUA, M.; LAZOS, E.; GERRITSEN, P.; PÉREZ-MAQUEO, O.; PURSE, B.; SIMÕES, M.; VARELA-ORTEGA, C.; ASCARRUNZ, N.; BLANCO, I.; BOIT, A.; ESTEVE, P.; FERRAZ, R.; MARTORANO, L.; MURRAY-TORTAROLO, G.; PEÑA-CLAROS, M.; POORTER, L.; TOLEDO, M.; THONICKE, K.; EUPEN, M. van. D2.3.3. Assessment of main trade-offs between biodiversity, climate change mitigation measures and other ecosystem services and human well-being at national scale and in local case study areas. [S.l.]: ROBIN consortium, 2015. 100 p. Project name (GA number): ROBIN (283093).| Biblioteca(s): Embrapa Amazônia Oriental. |
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| 6. | | BALVANERA, P.; JONES, L.; SIMÕES, M.; QUIJAS, S.; MASANTE, D.; EQUIHUA, M.; VARELA, C.; LAZOS, E.; PÉREZ-MAQUEO, O.; EQUIHUA, J.; KOLB, M.; ALANIS, N. G.; THONICKE, K.; PURSE, B.; MARTORANO, L.; AZCARRUNZ, N.; BELTRAO, N.; MAASS, M.; GERRITSEN, P.; VERBOOM, J.; BLANCO, I.; BOIT, A.; DAY, J.; DÍAZ, J.; DÍAS, P.; ESTEVE, P.; FERRAZ, R.; IBAÑEZ-BERNAL, S.; JARAMILLO, V.; MURRAY-TORTAROLO, G.; PÉREZ-SOBA, M.; BRAAT, L.; MWAMPAMBA, T.; NASCIMIENTO, N.; PEÑA-CLAROS, M.; PEREIRA, S.; POORTER, L.; SCHMIDT, M.; SKUTSCH, M.; SMITH, R.; THOMPSON, J.; TOLEDO, M.; EUPEN, M. van. Present and future tradeoffs between biodiversity, ecosystem services and human well-being in tropical Latin America. In: INTERNATIONAL ECOSYSTEM SERVICES PARTNERSHIP CONFERENCE, 8., 2015, Stellenbosch. Ecosystem services for nature, people, and prosperity: book abstract. [S.l.: s.n.], 2015. p. 367-368.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Solos. |
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| 7. | | BALVANERA, P.; JONES, L.; SIMOES, M.; QUIJS, S.; MASANTE, D.; EQUIHUA, M.; VARELA, C.; LAZOS, E.; PÉREZ-MAQUEO, O.; EQUIHUA, J.; KOLB, M.; ALANIS, N. G.; THONICKE, K.; PURSE, B.; MARTORANO, L.; AZCARRUNZ, N.; BELTRAO, N.; MAASS, M.; GERRITSEN, P.; VERBOOM, J.; BLANCO, I.; BOIT, A.; DAY, J.; DÍAZ, J.; DÍAS, P.; ESTEVE, P.; FERRAZ, R.; IBAÑEZ-BERNAL, S.; JARAMILLO, V.; MURRAY-TORTAROLO, G.; PÉREZ-SOBA, M.; BRAAT, L.; MWAMPAMBA, T.; NASCIMIENTO, N.; PEÑA-CLAROS, M.; PEREIRA, S.; POORTER, L.; SCHMIDT, M.; SKUTSCH, M.; SMITH, R.; THOMPSON, J.; TOLEDO, M.; EUPEN, M. van. Present and future tradeoffs between biodiversity, ecosystem services and human well-being in tropical Latin America. In: INTERNATIONAL ECOSYSTEM SERVICES PARTNERSHIP CONFERENCE, 8., 2015, Stellenbosch. Ecosystem Services for Nature, People, and Prosperity: book abstract. [S.l.: s.n.], 2015. p. 367-368.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Amazônia Oriental. |
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| 8. | | ARROYO-RODRÍGUEZ, V.; RITO, K. F.; FARFÁN, M.; NAVÍA, I. C.; MORA, F.; ARREOLA-VILLA, F.; BALVANERA, P.; BONGERS, F.; CASTELLANOS-CASTRO, C.; CATHARINO, E. L. M.; CHAZDON, R. L.; DUPUY-RADA, J. M.; FERGUSON, B. G.; FOSTER, P. F.; GONZÁLEZ-VALDIVIA, N.; GRIFFITH, D. M.; HERNÁNDEZ-STEFANONI, J. L.; JAKOVAC, C. C.; JUNQUEIRA, A. B.; JONG, B. H. J.; LETCHER, S. G.; MAY-PAT, F.; MEAVE, J. A.; OCHOA-GAONA, S.; MEIRELLES, G. S.; MUÑIZ-CASTRO, M. A.; MUÑOZ, R.; POWERS, J. S.; ROCHA, G. P. E.; ROSÁRIO, R. P. G.; SANTOS, B. A.; SIMON, M. F.; TABARELLI, M.; TUN-DZUL, F.; BERG, E. van den; VIEIRA, D. L. M.; WILLIAMS-LINERA, G.; MARTÍNEZ-RAMOS, M. Landscape-scale forest cover drives the predictability of forest regeneration across the Neotropics. Proceedings of the Royal Societt B, v. 290, n. 1990, 2023. 2022220.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 9. | | POORTER, L.; SANDE, M. T. van der; THOMPSON, J.; ARETS, E. J. M. M.; ALARCÓN, A.; ÁLVAREZ-SÁNCHEZ, J.; ASCARRUNZ, N.; BALVANERA, P.; BARAJAS-GUZMÁN, G.; BOIT, A.; BONGERS, F.; CARVALHO, F. A.; CASANOVES, F.; CORNEJO-TENORIO, G.; COSTA, F. R. C.; CASTILHO, C. V. de; DUIVENVOORDEN, J. F.; DUTRIEUX, L. P.; ENQUIST, J. P.; FERNÁNDEZ-MÉNDEZ, F.; FINEGAN, B.; GORMLEY, L. H. L.; HEALEY, J. R.; HOOSBEEK, M. R.; IBARRA-MANRÍQUEZ, G.; JUNQUEIRA, A. B.; LEVIS, C.; LICONA, J. C.; LISBOA, L. S.; MAGNUSSON, W. E.; MARTÍNEZ-RAMOS, M.; MARTÍNEZ-YRIZAR, A.; MARTORANO, L. G.; MASKELL, L. C.; MAZZEI, L.; MEAVE, J. A.; MORA, F.; MUÑOZ, R.; NYTCH, C.; PANSONATO, M. P.; PARR, T. W.; PAZ, H.; PÉREZ-GARCIA, E. A.; RENTERÍA, L. Y.; RODRÍGUEZ-VELÁZQUEZ, J.; ROZENDAAL, D. M. A.; RUSCHEL, A. R.; SAKSCHEWSKI, B.; SALGADO-NEGRET, B.; SCHIETT, J.; SIMÕES, M.; SINCLAIR, F. L.; SOUZA, P. F.; SOUZA, F. C.; STROPP, J.; STEEGE, H. ter; SWENSON, N. G.; THONICKE, K.; TOLEDO, M.; URIARTE, M.; HOUT, P. van der; WALKER, P.; ZAMORA, N.; PEÑA-CLAROS, M. Diversity enhances carbon storage in tropical forests. Global Ecology and Biogeography, v. 24, n. 11, p. 1314-1328, Nov. 2015.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Amazônia Oriental; Embrapa Roraima; Embrapa Solos. |
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| 10. | | JAKOVAC, C. C.; MEAVE, J. A.; BONGERS, F.; LETCHER, S. G.; DUPUY, J. M.; PIOTTO, D.; ROZENDAAL, D. M. A.; PEÑA-CLAROS, M.; CRAVEN, D.; SANTOS, B. A.; SIMINSKI, A.; FANTINI, A. C.; RODRIGUES, A. C.; HERNÁNDEZ-JARAMILLO, A.; IDÁRRAGA, A.; JUNQUEIRA, A. B.; ZAMBRANO, A. M. A.; JONG, B. H. J. de; PINHO, B. X.; FINEGAN, B.; CASTELLANO-CASTRO, C.; ZAMBIAZI, D. C.; DENT, D. H.; GARCÍA, D. H.; KENNARD, D.; DELGADO, D.; BROADBENT, E. N.; ORTIZ-MALAVASSI, E.; PÉREZ-GARCÍA, E. A.; LEBRIJA-TREJOS, E.; BERENGUER, E.; MARÍN-SPIOTTA, E.; ALVAREZ-DAVILA, E.; SAMPAIO, E. V. de S.; MELO, F.; ELIAS, F.; FRANÇA, F.; OBERLEITNER, F.; MORA, F.; WILLIAMSON, G. B.; COLLETTA, G. D.; CABRAL, G. A. L.; DERROIRE, G.; FERNANDES, G. W.; WAL, H. van der; TEIXEIRA, H. M.; VESTER, H. F. M.; GARCÍA, H.; VIEIRA, I. C. G.; JIMÉNEZ-MONTOYA, J.; ALMEIDA-CORTEZ, J. S. de; HALL, J. S.; CHAVE, J.; ZIMMERMAN, J. K.; EDISON NIETO, J.; FERREIRA, J. N.; RODRÍGUEZ-VELÁZQUEZ, J.; RUÍZ, J.; BARLOW, J.; AGUILAR-CANO, J.; HERNÁNDEZ-STEFANONI, J. L.; ENGEL, J.; BECKNELL, J. M.; ZANINI, K.; LOHBECK, M.; TABARELLI, M.; ROMERO-ROMERO, M. A.; URIARTE, M.; VELOSO, M. D. M.; ESPÍRITO-SANTO, M. M.; SANDE, M. T. van der; BREUGEL, M. van; MARTÍNEZ-RAMOS, M.; SCHWARTZ, N. B.; NORDEN, N.; PÉREZ-CÁRDENAS, N.; GONZÁLEZ-VALDIVIA, N.; PETRONELLI, P.; BALVANERA, P.; MASSOCA, P.; BRANCALION, P. H. S.; VILLA, P. M.; HIETZ, P.; OSTERTAG, R.; LÓPEZ-CAMACHO, R.; CÉSAR, R. G.; MESQUITA, R.; CHAZDON, R. L.; MUÑOZ, R.; DeWALT, S. J.; MÜLLER, S. C.; DURÁN, S. M.; MARTINS, S. V.; OCHOA-GAONA, S.; RODRÍGUEZ-BURITICA, S.; AIDE, T. M.; BENTOS, T. V.; MORENO, V. de S.; GRANDA, V.; THOMAS, W.; SILVER, W. L.; NUNES, Y. R. F.; POORTER, L. Strong floristic distinctiveness across Neotropical successional forests. Science Advances, v. 8, eabn1767, July 2022.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Amazônia Oriental. |
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| Registros recuperados : 10 | |
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| Nenhum registro encontrado para a expressão de busca informada. |
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