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2016
F. R. F. Teixeira, Nascimento, M., Nascimento, A. C. C., Silva, F. Fe, Cruz, C. D., Azevedo, C. F., Paixão, D. M., Barroso, L. M. A., Verardo, L. L., de Resende, M. D. V., Guimarães, S. E. F., Lopes, P. S., Teixeira, F. R. F., Nascimento, M., Nascimento, A. C. C., Silva, F. Fe, Cruz, C. D., Azevedo, C. F., Paixão, D. M., Barroso, L. M. A., Verardo, L. L., de Resende, M. D. V., Guimarães, S. E. F., and Lopes, P. S., Factor analysis applied to genome prediction for high-dimensional phenotypes in pigs, vol. 15, p. -, 2016.
F. R. F. Teixeira, Nascimento, M., Nascimento, A. C. C., Silva, F. Fe, Cruz, C. D., Azevedo, C. F., Paixão, D. M., Barroso, L. M. A., Verardo, L. L., de Resende, M. D. V., Guimarães, S. E. F., Lopes, P. S., Teixeira, F. R. F., Nascimento, M., Nascimento, A. C. C., Silva, F. Fe, Cruz, C. D., Azevedo, C. F., Paixão, D. M., Barroso, L. M. A., Verardo, L. L., de Resende, M. D. V., Guimarães, S. E. F., and Lopes, P. S., Factor analysis applied to genome prediction for high-dimensional phenotypes in pigs, vol. 15, p. -, 2016.
I. B. Gois, Borém, A., Cristofani-Yaly, M., de Resende, M. D. V., Azevedo, C. F., Bastianel, M., Novelli, V. M., Machado, M. A., Gois, I. B., Borém, A., Cristofani-Yaly, M., de Resende, M. D. V., Azevedo, C. F., Bastianel, M., Novelli, V. M., Machado, M. A., Gois, I. B., Borém, A., Cristofani-Yaly, M., de Resende, M. D. V., Azevedo, C. F., Bastianel, M., Novelli, V. M., and Machado, M. A., Genome wide selection in Citrus breeding, vol. 15, no. 4, p. -, 2016.
Conflicts of interest The authors declare no conflict of interest. ACKNOWLEDGMENTS CNPq (Conselho Nacional de Desenvolvimento Científico e Tecnológico) and Capes (Coordenação de Aperfeiçoamento de Pessoal de Nível Superior) for the research fellowship of the first author. Research supported by Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP) (Processes #2007/08435-5 and #2011/18605-0) and Instituto Nacional de Ciência e Tecnologia (INCT) de Genômica para Melhoramento de Citros (Process #573848/2008-4). REFERENCES Asins MJ, Fernandez-Ribacoba J, Bernet GP, Gadea J, et al (2012). The position of the major QTL for Citrus tristeza virus resistance is conserved among Citrus grandis, C. aurantium and Poncirus trifoliata. Mol. Breed. 29: 575-587. http://dx.doi.org/10.1007/s11032-011-9574-x Cavalcanti JJV, Resende MDV, Santos FHC, Pinheiro CR, et al (2012). Predição simultânea dos efeitos de marcadores moleculares e seleção genômica ampla em cajueiro. Rev. Bras. Frutic. 34: 840-846. http://dx.doi.org/10.1590/S0100-29452012000300025 Daetwyler HD, Pong-Wong R, Villanueva B, Woolliams JA, et al (2010). The impact of genetic architecture on genome-wide evaluation methods. Genetics 185: 1021-1031. http://dx.doi.org/10.1534/genetics.110.116855 Daetwyler HD, Calus MPL, Pong-Wong R, de Los Campos G, et al (2013). Genomic prediction in animals and plants: simulation of data, validation, reporting, and benchmarking. Genetics 193: 347-365. http://dx.doi.org/10.1534/genetics.112.147983 Endelman JB, et al (2011). Ridge regression and other kernels for genomic selection with R package rrBLUP. Plant Genome 4: 250-255. http://dx.doi.org/10.3835/plantgenome2011.08.0024 Gmitter Junior FG, Chen C, Machado MA, Souza AA, et al (2012). Citrus genomics. Tree Genet. Genomes 8: 611-626. http://dx.doi.org/10.1007/s11295-012-0499-2 Goddard ME, Hayes BJ, Meuwissen THE, et al (2011). Using the genomic relationship matrix to predict the accuracy of genomic selection. J. Anim. Breed. Genet. 128: 409-421. http://dx.doi.org/10.1111/j.1439-0388.2011.00964.x Grattapaglia D, Resende MDV, et al (2011). Genomic selection in forest tree breeding. Tree Genet. Genomes 7: 241-255. http://dx.doi.org/10.1007/s11295-010-0328-4 Gussen O, Uzun A, Seday U, Kafa G, et al (2011). QTL analysis and regression model for estimating fruit setting in young Citrus trees based on molecular markers. Sci. Hortic. (Amsterdam) 130: 418-424. http://dx.doi.org/10.1016/j.scienta.2011.07.010 Hayes BJ, Bowman PJ, Chamberlain AJ, Goddard ME, et al (2009). Invited review: Genomic selection in dairy cattle: progress and challenges. J. Dairy Sci. 92: 433-443. http://dx.doi.org/10.3168/jds.2008-1646 Heffner EL, Sorrells ME, Jannink JL, et al (2009). Genomic selection for crop improvement. Crop Sci. 49: 1-12. http://dx.doi.org/10.2135/cropsci2008.08.0512 Henderson CR (1973). Maximum likelihood estimation of variance components. Unpublished manuscripts, Animal Science Dept., Cornell University. Ito TM, Polido PB, Rampim MC, Kaschuk G, et al (2014). Genome-wide identification and phylogenetic analysis of the AP2/ERF gene superfamily in sweet orange (Citrus sinensis). Genet. Mol. Res. 13: 7839-7851. http://dx.doi.org/10.4238/2014.September.26.22 Iwata H, Hayashi T, Terakami S, Takada N, et al (2013). Potential assessment of genome-wide association study and genomic selection in Japanese pear Pyrus pyrifolia. Breed. Sci. 63: 125-140. http://dx.doi.org/10.1270/jsbbs.63.125 Jaccoud D, Peng K, Feinstein D, Kilian A, et al (2001). Diversity arrays: a solid state technology for sequence information independent genotyping. Nucleic Acids Res. 29: E25. http://dx.doi.org/10.1093/nar/29.4.e25 Jarrell DC, Roose ML, Traugh SN, Kupper RS, et al (1992). A genetic map of citrus based on the segregation of isozymes and RFLPs in an intergeneric cross. Theor. Appl. Genet. 84: 49-56. http://dx.doi.org/10.1007/BF00223980 Kemper KE, Goddard ME, et al (2012). Understanding and predicting complex traits: knowledge from cattle. Hum. Mol. Genet. 21 (R1): R45-R51. http://dx.doi.org/10.1093/hmg/dds332 Kumar S, Bink MCAM, Volz RK, Bus VGM, et al (2012). Towards genomic selection in apple (Malus × domestica Borkh.) breeding programmes: Prospects, challenges and strategies. Tree Genet. Genomes 8: 1-14. http://dx.doi.org/10.1007/s11295-011-0425-z Lande R, Thompson R, et al (1990). Efficiency of marker-assisted selection in the improvement of quantitative traits. Genetics 124: 743-756. Legarra A, Robert-Granié C, Manfredi E, Elsen JM, et al (2008). Performance of genomic selection in mice. Genetics 180: 611-618. http://dx.doi.org/10.1534/genetics.108.088575 Machado MA, Cristofani-Yaly M, Bastianel M, et al (2011). Breeding, genetic and genomic of citrus for disease resistance. Rev. Bras. Frutic. 33: 158-172. http://dx.doi.org/10.1590/S0100-29452011000500019 Meuwissen THE, Hayes BJ, Goddard ME, et al (2001). Prediction of total genetic value using genome-wide dense marker maps. Genetics 157: 1819-1829. Misztal I, Legarra A, Aguilar I, et al (2009). Computing procedures for genetic evaluation including phenotypic, full pedigree, and genomic information. J. Dairy Sci. 92: 4648-4655. http://dx.doi.org/10.3168/jds.2009-2064 Patterson HD, Thompson R, et al (1971). Recovery of inter-block information when block sizes are unequal. Biometrika 58: 545-554. http://dx.doi.org/10.1093/biomet/58.3.545 R Development Core Team (2012). R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna, Austria. Resende MDV (2002). Genética Biométrica e estatística no melhoramento de plantas perenes. Brasília: Embrapa Informação tecnológica. Resende MDV, Duarte JB, et al (2007). Precisão e controle de qualidade em experimentos de avaliação de cultivares. Pesqui. Agropecu. Trop. 37: 182-194. Resende MDV, Lopes OS, Silva RL, Pires IE, et al (2008). Seleção genômica ampla (GWS) e maximização da eficiência do melhoramento genético. Pesq. Flor. Bra. 56: 63-77. Resende MDV, Resende MFRJrSansaloniCP, Petroli CD, et al (2012). Genomic selection for growth and wood quality in Eucalyptus: capturing the missing heritability and accelerating breeding for complex traits in forest trees. New Phytol. 194: 116-128. http://dx.doi.org/10.1111/j.1469-8137.2011.04038.x Resende MDV, Silva FF, Resende MFR, Junior. and Azevedo CF (2014). Genome-wide selection. In: Biotechnology and Plant Breeding (Borem A and Fritsche-Neto R, eds.). Elsevier. Resende MFJrMuñozP, Resende MDV, Garrick DJ, et al (2012). Accuracy of genomic selection methods in a standard data set of loblolly pine (Pinus taeda L.). Genetics 190: 1503-1510. http://dx.doi.org/10.1534/genetics.111.137026 Siviero A, Cristofani M, Boava LP, Machado MA, et al (2002). Mapeamento de QTLs associados à produção de frutos e sementes em híbridos de Citrus sunki vs Poncirus trifoliata. Rev. Bras. Frutic. 24: 741-743. http://dx.doi.org/10.1590/S0100-29452002000300045 Siviero A, Cristofani M, Furtado EL, Garcia AAF, et al (2006). Identification of QTLs associated with citrus resistance to Phytophthora gummosis. J. Appl. Genet. 47: 23-28. http://dx.doi.org/10.1007/BF03194595 Talon M and Gmitter Junior FG (2008). Citrus genomics. Intern. J. Plant Genomics: 1-17. Viana AP and Resende MDV (2014). Seleção Genômica Ampla (GWS). In: Genética Quantitativa no Melhoramento de Fruteiras (Viana AP, Resende MDV, eds.). Interciência, Rio de Janeiro. Viana AP, Resende MDV, Riaz S, Walker MA, et al (2016). Genome selection in fruit breeding: application to table grapes. Sci. Agric. 73: 142-149. http://dx.doi.org/10.1590/0103-9016-2014-0323 Wong CK, Bernardo R, et al (2008). Genomewide selection in oil palm: increasing selection gain per unit time and cost with small populations. Theor. Appl. Genet. 116: 815-824. http://dx.doi.org/10.1007/s00122-008-0715-5 Zapata-Velenzuela J, Whetten RW, Neale D, Mckeand S, et al (2013). Genomic estimated breeding values using genomic relationship matrices in a cloned population of Loblolly Pine. Genes Genom. Genet 3: 909-916. Zhao Y, Gowda M, Liu W, Wurschum T, et al (2013). Choice of shrinkage parameter and prediction of genomic breeding values in elite maize breeding populations. Plant Breed. 132: 99-106. http://dx.doi.org/10.1111/pbr.12008 Zhong S, Dekkers JCM, Fernando RL, Jannink JL, et al (2009). Factors affecting accuracy from genomic selection in populations derived from multiple inbred lines: a Barley case study. Genetics 182: 355-364. http://dx.doi.org/10.1534/genetics.108.098277
I. B. Gois, Borém, A., Cristofani-Yaly, M., de Resende, M. D. V., Azevedo, C. F., Bastianel, M., Novelli, V. M., Machado, M. A., Gois, I. B., Borém, A., Cristofani-Yaly, M., de Resende, M. D. V., Azevedo, C. F., Bastianel, M., Novelli, V. M., Machado, M. A., Gois, I. B., Borém, A., Cristofani-Yaly, M., de Resende, M. D. V., Azevedo, C. F., Bastianel, M., Novelli, V. M., and Machado, M. A., Genome wide selection in Citrus breeding, vol. 15, no. 4, p. -, 2016.
Conflicts of interest The authors declare no conflict of interest. ACKNOWLEDGMENTS CNPq (Conselho Nacional de Desenvolvimento Científico e Tecnológico) and Capes (Coordenação de Aperfeiçoamento de Pessoal de Nível Superior) for the research fellowship of the first author. Research supported by Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP) (Processes #2007/08435-5 and #2011/18605-0) and Instituto Nacional de Ciência e Tecnologia (INCT) de Genômica para Melhoramento de Citros (Process #573848/2008-4). REFERENCES Asins MJ, Fernandez-Ribacoba J, Bernet GP, Gadea J, et al (2012). The position of the major QTL for Citrus tristeza virus resistance is conserved among Citrus grandis, C. aurantium and Poncirus trifoliata. Mol. Breed. 29: 575-587. http://dx.doi.org/10.1007/s11032-011-9574-x Cavalcanti JJV, Resende MDV, Santos FHC, Pinheiro CR, et al (2012). Predição simultânea dos efeitos de marcadores moleculares e seleção genômica ampla em cajueiro. Rev. Bras. Frutic. 34: 840-846. http://dx.doi.org/10.1590/S0100-29452012000300025 Daetwyler HD, Pong-Wong R, Villanueva B, Woolliams JA, et al (2010). The impact of genetic architecture on genome-wide evaluation methods. Genetics 185: 1021-1031. http://dx.doi.org/10.1534/genetics.110.116855 Daetwyler HD, Calus MPL, Pong-Wong R, de Los Campos G, et al (2013). Genomic prediction in animals and plants: simulation of data, validation, reporting, and benchmarking. Genetics 193: 347-365. http://dx.doi.org/10.1534/genetics.112.147983 Endelman JB, et al (2011). Ridge regression and other kernels for genomic selection with R package rrBLUP. Plant Genome 4: 250-255. http://dx.doi.org/10.3835/plantgenome2011.08.0024 Gmitter Junior FG, Chen C, Machado MA, Souza AA, et al (2012). Citrus genomics. Tree Genet. Genomes 8: 611-626. http://dx.doi.org/10.1007/s11295-012-0499-2 Goddard ME, Hayes BJ, Meuwissen THE, et al (2011). Using the genomic relationship matrix to predict the accuracy of genomic selection. J. Anim. Breed. Genet. 128: 409-421. http://dx.doi.org/10.1111/j.1439-0388.2011.00964.x Grattapaglia D, Resende MDV, et al (2011). Genomic selection in forest tree breeding. Tree Genet. Genomes 7: 241-255. http://dx.doi.org/10.1007/s11295-010-0328-4 Gussen O, Uzun A, Seday U, Kafa G, et al (2011). QTL analysis and regression model for estimating fruit setting in young Citrus trees based on molecular markers. Sci. Hortic. (Amsterdam) 130: 418-424. http://dx.doi.org/10.1016/j.scienta.2011.07.010 Hayes BJ, Bowman PJ, Chamberlain AJ, Goddard ME, et al (2009). Invited review: Genomic selection in dairy cattle: progress and challenges. J. Dairy Sci. 92: 433-443. http://dx.doi.org/10.3168/jds.2008-1646 Heffner EL, Sorrells ME, Jannink JL, et al (2009). Genomic selection for crop improvement. Crop Sci. 49: 1-12. http://dx.doi.org/10.2135/cropsci2008.08.0512 Henderson CR (1973). Maximum likelihood estimation of variance components. Unpublished manuscripts, Animal Science Dept., Cornell University. Ito TM, Polido PB, Rampim MC, Kaschuk G, et al (2014). Genome-wide identification and phylogenetic analysis of the AP2/ERF gene superfamily in sweet orange (Citrus sinensis). Genet. Mol. Res. 13: 7839-7851. http://dx.doi.org/10.4238/2014.September.26.22 Iwata H, Hayashi T, Terakami S, Takada N, et al (2013). Potential assessment of genome-wide association study and genomic selection in Japanese pear Pyrus pyrifolia. Breed. Sci. 63: 125-140. http://dx.doi.org/10.1270/jsbbs.63.125 Jaccoud D, Peng K, Feinstein D, Kilian A, et al (2001). Diversity arrays: a solid state technology for sequence information independent genotyping. Nucleic Acids Res. 29: E25. http://dx.doi.org/10.1093/nar/29.4.e25 Jarrell DC, Roose ML, Traugh SN, Kupper RS, et al (1992). A genetic map of citrus based on the segregation of isozymes and RFLPs in an intergeneric cross. Theor. Appl. Genet. 84: 49-56. http://dx.doi.org/10.1007/BF00223980 Kemper KE, Goddard ME, et al (2012). Understanding and predicting complex traits: knowledge from cattle. Hum. Mol. Genet. 21 (R1): R45-R51. http://dx.doi.org/10.1093/hmg/dds332 Kumar S, Bink MCAM, Volz RK, Bus VGM, et al (2012). Towards genomic selection in apple (Malus × domestica Borkh.) breeding programmes: Prospects, challenges and strategies. Tree Genet. Genomes 8: 1-14. http://dx.doi.org/10.1007/s11295-011-0425-z Lande R, Thompson R, et al (1990). Efficiency of marker-assisted selection in the improvement of quantitative traits. Genetics 124: 743-756. Legarra A, Robert-Granié C, Manfredi E, Elsen JM, et al (2008). Performance of genomic selection in mice. Genetics 180: 611-618. http://dx.doi.org/10.1534/genetics.108.088575 Machado MA, Cristofani-Yaly M, Bastianel M, et al (2011). Breeding, genetic and genomic of citrus for disease resistance. Rev. Bras. Frutic. 33: 158-172. http://dx.doi.org/10.1590/S0100-29452011000500019 Meuwissen THE, Hayes BJ, Goddard ME, et al (2001). Prediction of total genetic value using genome-wide dense marker maps. Genetics 157: 1819-1829. Misztal I, Legarra A, Aguilar I, et al (2009). Computing procedures for genetic evaluation including phenotypic, full pedigree, and genomic information. J. Dairy Sci. 92: 4648-4655. http://dx.doi.org/10.3168/jds.2009-2064 Patterson HD, Thompson R, et al (1971). Recovery of inter-block information when block sizes are unequal. Biometrika 58: 545-554. http://dx.doi.org/10.1093/biomet/58.3.545 R Development Core Team (2012). R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna, Austria. Resende MDV (2002). Genética Biométrica e estatística no melhoramento de plantas perenes. Brasília: Embrapa Informação tecnológica. Resende MDV, Duarte JB, et al (2007). Precisão e controle de qualidade em experimentos de avaliação de cultivares. Pesqui. Agropecu. Trop. 37: 182-194. Resende MDV, Lopes OS, Silva RL, Pires IE, et al (2008). Seleção genômica ampla (GWS) e maximização da eficiência do melhoramento genético. Pesq. Flor. Bra. 56: 63-77. Resende MDV, Resende MFRJrSansaloniCP, Petroli CD, et al (2012). Genomic selection for growth and wood quality in Eucalyptus: capturing the missing heritability and accelerating breeding for complex traits in forest trees. New Phytol. 194: 116-128. http://dx.doi.org/10.1111/j.1469-8137.2011.04038.x Resende MDV, Silva FF, Resende MFR, Junior. and Azevedo CF (2014). Genome-wide selection. In: Biotechnology and Plant Breeding (Borem A and Fritsche-Neto R, eds.). Elsevier. Resende MFJrMuñozP, Resende MDV, Garrick DJ, et al (2012). Accuracy of genomic selection methods in a standard data set of loblolly pine (Pinus taeda L.). Genetics 190: 1503-1510. http://dx.doi.org/10.1534/genetics.111.137026 Siviero A, Cristofani M, Boava LP, Machado MA, et al (2002). Mapeamento de QTLs associados à produção de frutos e sementes em híbridos de Citrus sunki vs Poncirus trifoliata. Rev. Bras. Frutic. 24: 741-743. http://dx.doi.org/10.1590/S0100-29452002000300045 Siviero A, Cristofani M, Furtado EL, Garcia AAF, et al (2006). Identification of QTLs associated with citrus resistance to Phytophthora gummosis. J. Appl. Genet. 47: 23-28. http://dx.doi.org/10.1007/BF03194595 Talon M and Gmitter Junior FG (2008). Citrus genomics. Intern. J. Plant Genomics: 1-17. Viana AP and Resende MDV (2014). Seleção Genômica Ampla (GWS). In: Genética Quantitativa no Melhoramento de Fruteiras (Viana AP, Resende MDV, eds.). Interciência, Rio de Janeiro. Viana AP, Resende MDV, Riaz S, Walker MA, et al (2016). Genome selection in fruit breeding: application to table grapes. Sci. Agric. 73: 142-149. http://dx.doi.org/10.1590/0103-9016-2014-0323 Wong CK, Bernardo R, et al (2008). Genomewide selection in oil palm: increasing selection gain per unit time and cost with small populations. Theor. Appl. Genet. 116: 815-824. http://dx.doi.org/10.1007/s00122-008-0715-5 Zapata-Velenzuela J, Whetten RW, Neale D, Mckeand S, et al (2013). Genomic estimated breeding values using genomic relationship matrices in a cloned population of Loblolly Pine. Genes Genom. Genet 3: 909-916. Zhao Y, Gowda M, Liu W, Wurschum T, et al (2013). Choice of shrinkage parameter and prediction of genomic breeding values in elite maize breeding populations. Plant Breed. 132: 99-106. http://dx.doi.org/10.1111/pbr.12008 Zhong S, Dekkers JCM, Fernando RL, Jannink JL, et al (2009). Factors affecting accuracy from genomic selection in populations derived from multiple inbred lines: a Barley case study. Genetics 182: 355-364. http://dx.doi.org/10.1534/genetics.108.098277
I. B. Gois, Borém, A., Cristofani-Yaly, M., de Resende, M. D. V., Azevedo, C. F., Bastianel, M., Novelli, V. M., Machado, M. A., Gois, I. B., Borém, A., Cristofani-Yaly, M., de Resende, M. D. V., Azevedo, C. F., Bastianel, M., Novelli, V. M., Machado, M. A., Gois, I. B., Borém, A., Cristofani-Yaly, M., de Resende, M. D. V., Azevedo, C. F., Bastianel, M., Novelli, V. M., and Machado, M. A., Genome wide selection in Citrus breeding, vol. 15, no. 4, p. -, 2016.
Conflicts of interest The authors declare no conflict of interest. ACKNOWLEDGMENTS CNPq (Conselho Nacional de Desenvolvimento Científico e Tecnológico) and Capes (Coordenação de Aperfeiçoamento de Pessoal de Nível Superior) for the research fellowship of the first author. Research supported by Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP) (Processes #2007/08435-5 and #2011/18605-0) and Instituto Nacional de Ciência e Tecnologia (INCT) de Genômica para Melhoramento de Citros (Process #573848/2008-4). REFERENCES Asins MJ, Fernandez-Ribacoba J, Bernet GP, Gadea J, et al (2012). The position of the major QTL for Citrus tristeza virus resistance is conserved among Citrus grandis, C. aurantium and Poncirus trifoliata. Mol. Breed. 29: 575-587. http://dx.doi.org/10.1007/s11032-011-9574-x Cavalcanti JJV, Resende MDV, Santos FHC, Pinheiro CR, et al (2012). Predição simultânea dos efeitos de marcadores moleculares e seleção genômica ampla em cajueiro. Rev. Bras. Frutic. 34: 840-846. http://dx.doi.org/10.1590/S0100-29452012000300025 Daetwyler HD, Pong-Wong R, Villanueva B, Woolliams JA, et al (2010). The impact of genetic architecture on genome-wide evaluation methods. Genetics 185: 1021-1031. http://dx.doi.org/10.1534/genetics.110.116855 Daetwyler HD, Calus MPL, Pong-Wong R, de Los Campos G, et al (2013). Genomic prediction in animals and plants: simulation of data, validation, reporting, and benchmarking. Genetics 193: 347-365. http://dx.doi.org/10.1534/genetics.112.147983 Endelman JB, et al (2011). Ridge regression and other kernels for genomic selection with R package rrBLUP. Plant Genome 4: 250-255. http://dx.doi.org/10.3835/plantgenome2011.08.0024 Gmitter Junior FG, Chen C, Machado MA, Souza AA, et al (2012). Citrus genomics. Tree Genet. Genomes 8: 611-626. http://dx.doi.org/10.1007/s11295-012-0499-2 Goddard ME, Hayes BJ, Meuwissen THE, et al (2011). Using the genomic relationship matrix to predict the accuracy of genomic selection. J. Anim. Breed. Genet. 128: 409-421. http://dx.doi.org/10.1111/j.1439-0388.2011.00964.x Grattapaglia D, Resende MDV, et al (2011). Genomic selection in forest tree breeding. Tree Genet. Genomes 7: 241-255. http://dx.doi.org/10.1007/s11295-010-0328-4 Gussen O, Uzun A, Seday U, Kafa G, et al (2011). QTL analysis and regression model for estimating fruit setting in young Citrus trees based on molecular markers. Sci. Hortic. (Amsterdam) 130: 418-424. http://dx.doi.org/10.1016/j.scienta.2011.07.010 Hayes BJ, Bowman PJ, Chamberlain AJ, Goddard ME, et al (2009). Invited review: Genomic selection in dairy cattle: progress and challenges. J. Dairy Sci. 92: 433-443. http://dx.doi.org/10.3168/jds.2008-1646 Heffner EL, Sorrells ME, Jannink JL, et al (2009). Genomic selection for crop improvement. Crop Sci. 49: 1-12. http://dx.doi.org/10.2135/cropsci2008.08.0512 Henderson CR (1973). Maximum likelihood estimation of variance components. Unpublished manuscripts, Animal Science Dept., Cornell University. Ito TM, Polido PB, Rampim MC, Kaschuk G, et al (2014). Genome-wide identification and phylogenetic analysis of the AP2/ERF gene superfamily in sweet orange (Citrus sinensis). Genet. Mol. Res. 13: 7839-7851. http://dx.doi.org/10.4238/2014.September.26.22 Iwata H, Hayashi T, Terakami S, Takada N, et al (2013). Potential assessment of genome-wide association study and genomic selection in Japanese pear Pyrus pyrifolia. Breed. Sci. 63: 125-140. http://dx.doi.org/10.1270/jsbbs.63.125 Jaccoud D, Peng K, Feinstein D, Kilian A, et al (2001). Diversity arrays: a solid state technology for sequence information independent genotyping. Nucleic Acids Res. 29: E25. http://dx.doi.org/10.1093/nar/29.4.e25 Jarrell DC, Roose ML, Traugh SN, Kupper RS, et al (1992). A genetic map of citrus based on the segregation of isozymes and RFLPs in an intergeneric cross. Theor. Appl. 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