Nonparametric methods for incorporating genomic information into genetic evaluations: an application to mortality in broilers.

Genetics
Oscar González-RecioSantiago Avendaño

Abstract

Four approaches using single-nucleotide polymorphism (SNP) information (F(infinity)-metric model, kernel regression, reproducing kernel Hilbert spaces (RKHS) regression, and a Bayesian regression) were compared with a standard procedure of genetic evaluation (E-BLUP) of sires using mortality rates in broilers as a response variable, working in a Bayesian framework. Late mortality (14-42 days of age) records on 12,167 progeny of 200 sires were precorrected for fixed and random (nongenetic) effects used in the model for genetic evaluation and for the mate effect. The average of the corrected records was computed for each sire. Twenty-four SNPs seemingly associated with late mortality were included in three methods used for genomic assisted evaluations. One thousand SNPs were included in the Bayesian regression, to account for markers along the whole genome. The posterior mean of heritability of mortality was 0.02 in the E-BLUP approach, suggesting that genetic evaluation could be improved if suitable molecular markers were available. Estimates of posterior means and standard deviations of the residual variance were 24.38 (3.88), 29.97 (3.22), 17.07 (3.02), and 20.74 (2.87) for E-BLUP, the linear model on SNPs, RKHS regression, an...Continue Reading

References

Mar 1, 1970·Journal of Molecular Biology·S B Needleman, C D Wunsch
Sep 14, 2000·Journal of Animal Science·L L Janss, N M Bolder
Apr 6, 2001·Genetics·T H MeuwissenM E Goddard
Jul 24, 2001·Journal of Animal Science·K H de GreefC L Gerritsen
Feb 15, 2003·Genetics·Daniel GianolaMiguel A Toro
Dec 14, 2004·Nature·Gane Ka-Shu WongUNKNOWN International Chicken Polymorphism Map Consortium
Dec 21, 2004·Nucleic Acids Research·Jing WangJun Wang
Jan 18, 2005·Genetics·Zhao-Bang ZengWei Zou
Jun 28, 2005·Nucleic Acids Research·Stefan RoepckeMartin Vingron
May 2, 2006·Genetics·Daniel GianolaAlessandra Stella
Aug 3, 2006·Journal of Animal Breeding and Genetics = Zeitschrift Für Tierzüchtung Und Züchtungsbiologie·L R Schaeffer
Dec 14, 2007·Journal of Animal Breeding and Genetics = Zeitschrift Für Tierzüchtung Und Züchtungsbiologie·N LongS Avendaño

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Citations

Jan 7, 2009·Genetics Research·Daniel Gianola, Gustavo de los Campos
Mar 12, 2011·Genetics Research·Ye YangDaniel Sorensen
Feb 1, 2010·Animal : an International Journal of Animal Bioscience·M P L Calus
Jul 25, 2013·Animal : an International Journal of Animal Bioscience·L TusellD Gianola
Nov 4, 2010·Nature Reviews. Genetics·Gustavo de los CamposDavid B Allison
Feb 2, 2002·Nature Reviews. Genetics·Jack C M Dekkers, Frédéric Hospital
Jan 2, 2010·Genetics, Selection, Evolution : GSE·Gerhard MoserHerman W Raadsma
Mar 13, 2009·BMC Proceedings·Nicolò P P MacciottaCorrado Dimauro
Apr 13, 2010·BMC Proceedings·John W M BastiaansenMario P L Calus
Jan 15, 2014·PloS One·Motohide Nishio, Masahiro Satoh
Jul 22, 2009·Genetics·Daniel GianolaRohan Fernando
Jun 30, 2012·Genetics·Gustavo de Los CamposMario P L Calus
May 9, 2012·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·J M González-CamachoJ Crossa
Feb 17, 2010·Briefings in Functional Genomics·Jean-Luc JanninkHiroyoshi Iwata
Nov 27, 2015·Animal Genetics·Y L Bernal RubioJ P Steibel
Sep 6, 2015·Theoretical Population Biology·Andres Legarra
Jan 11, 2011·Osteoarthritis and Cartilage·G GuoZ Zhang
Aug 15, 2015·BioMed Research International·Ronald de Vlaming, Patrick J F Groenen
Jun 28, 2011·Journal of Dairy Science·Z ZhangD-J de Koning
Oct 30, 2012·Journal of Dairy Science·J A Jiménez-MonteroR Alenda
Nov 12, 2014·Annual Review of Animal Biosciences·Daniel Gianola, Guilherme J M Rosa
Nov 2, 2014·Frontiers in Genetics·Gota Morota, Daniel Gianola
Oct 25, 2014·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Akio OnogiHiroyoshi Iwata
Jun 13, 2015·PloS One·Mathieu BlondelNaonori Ueda
Oct 19, 2016·Genetic Epidemiology·Evangelina López de MaturanaNúria Malats
Aug 25, 2009·Journal of Dairy Science·A LegarraI Misztal
Nov 4, 2016·Journal of Bioinformatics and Computational Biology·Kento Kodama, Hiroto Saigo

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