Genotyping dead animals improves post-weaning survival of pigs in breeding programs

M Sharif-Islam; J H J Van Der Werf; M Henryon; T T Chu; B J Wood; S Hermesch

doi:10.3920/978-90-8686-940-4_779

Genotyping dead animals improves post-weaning survival of pigs in breeding programs

M Sharif-Islam, J H J Van Der Werf, M Henryon, T T Chu, B J Wood, S Hermesch

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

Abstract

A premise was tested that genotyping both surviving and dead pigs will realise more genetic gain in post-weaning survival (PWS) than genotyping only surviving animals. Stochastic simulation was used to estimate the rate of true genetic gain in different genotyping scenarios that differed in varying proportions of genotyping dead animals. Selection was for only PWS that had heritability of 0.02. Mortality was assumed 10%. The trait was controlled by 7,702 biallelic quantitative trait loci distributed across a 30 Morgan genome. We used 54,218 biallelic single nucleotide polymorphisms (SNPs) that were used in genomic prediction. Genotyping both surviving and dead animals realised 12 to 24% more genetic gain than genotyping only surviving animals. The power of detecting SNP effects increased when animals of extreme phenotypes are genotyped. Therefore, genotyping both surviving and dead pigs realised more genetic gain than genotyping only surviving animals.

Original language	English
Title of host publication	Proceedings of the 12th World Congress on Genetics Applied to Livestock Production
Editors	Veerkamp, R F , de Haas,Y
Place of Publication	Netherlands
Publisher	Wageningen Academic Publishers
Pages	3208-3211
Volume	12
ISBN (Print)	978-90-8686-940-4
DOIs	https://doi.org/10.3920/978-90-8686-940-4_779
Publication status	Published - 31 Dec 2022
Event	12th World Congress on Genetics Applied to Livestock Production - De Doelen International Conference Center Rotterdam Schouwburgplein 50 Rotterdam, The Netherlands, Rotterdam, Netherlands Duration: 3 Jul 2022 → 8 Jul 2022

Conference

Conference	12th World Congress on Genetics Applied to Livestock Production
City	Rotterdam, Netherlands
Period	3/07/22 → 8/07/22

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10.3920/978-90-8686-940-4_779

https://hdl.handle.net/1959.11/56158

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Sharif-Islam, M., Van Der Werf, J. H. J., Henryon, M., Chu, T. T., Wood, B. J., & Hermesch, S. (2022). Genotyping dead animals improves post-weaning survival of pigs in breeding programs. In Veerkamp, R. F., & D. Haas,Y (Eds.), Proceedings of the 12th World Congress on Genetics Applied to Livestock Production (Vol. 12, pp. 3208-3211). Article 779 Wageningen Academic Publishers. https://doi.org/10.3920/978-90-8686-940-4_779

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title = "Genotyping dead animals improves post-weaning survival of pigs in breeding programs",

abstract = "A premise was tested that genotyping both surviving and dead pigs will realise more genetic gain in post-weaning survival (PWS) than genotyping only surviving animals. Stochastic simulation was used to estimate the rate of true genetic gain in different genotyping scenarios that differed in varying proportions of genotyping dead animals. Selection was for only PWS that had heritability of 0.02. Mortality was assumed 10\%. The trait was controlled by 7,702 biallelic quantitative trait loci distributed across a 30 Morgan genome. We used 54,218 biallelic single nucleotide polymorphisms (SNPs) that were used in genomic prediction. Genotyping both surviving and dead animals realised 12 to 24\% more genetic gain than genotyping only surviving animals. The power of detecting SNP effects increased when animals of extreme phenotypes are genotyped. Therefore, genotyping both surviving and dead pigs realised more genetic gain than genotyping only surviving animals.",

author = "M Sharif-Islam and \{Van Der Werf\}, \{J H J\} and M Henryon and Chu, \{T T\} and Wood, \{B J\} and S Hermesch",

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publisher = "Wageningen Academic Publishers",

note = "12th World Congress on Genetics Applied to Livestock Production ; Conference date: 03-07-2022 Through 08-07-2022",

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Sharif-Islam, M, Van Der Werf, JHJ, Henryon, M, Chu, TT, Wood, BJ & Hermesch, S 2022, Genotyping dead animals improves post-weaning survival of pigs in breeding programs. in Veerkamp, RF & D Haas,Y (eds), Proceedings of the 12th World Congress on Genetics Applied to Livestock Production. vol. 12, 779, Wageningen Academic Publishers, Netherlands, pp. 3208-3211, 12th World Congress on Genetics Applied to Livestock Production, Rotterdam, Netherlands, 3/07/22. https://doi.org/10.3920/978-90-8686-940-4_779

Genotyping dead animals improves post-weaning survival of pigs in breeding programs. / Sharif-Islam, M; Van Der Werf, J H J; Henryon, M et al.
Proceedings of the 12th World Congress on Genetics Applied to Livestock Production. ed. / Veerkamp; R F; de Haas,Y. Vol. 12 Netherlands: Wageningen Academic Publishers, 2022. p. 3208-3211 779.

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

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N2 - A premise was tested that genotyping both surviving and dead pigs will realise more genetic gain in post-weaning survival (PWS) than genotyping only surviving animals. Stochastic simulation was used to estimate the rate of true genetic gain in different genotyping scenarios that differed in varying proportions of genotyping dead animals. Selection was for only PWS that had heritability of 0.02. Mortality was assumed 10%. The trait was controlled by 7,702 biallelic quantitative trait loci distributed across a 30 Morgan genome. We used 54,218 biallelic single nucleotide polymorphisms (SNPs) that were used in genomic prediction. Genotyping both surviving and dead animals realised 12 to 24% more genetic gain than genotyping only surviving animals. The power of detecting SNP effects increased when animals of extreme phenotypes are genotyped. Therefore, genotyping both surviving and dead pigs realised more genetic gain than genotyping only surviving animals.

AB - A premise was tested that genotyping both surviving and dead pigs will realise more genetic gain in post-weaning survival (PWS) than genotyping only surviving animals. Stochastic simulation was used to estimate the rate of true genetic gain in different genotyping scenarios that differed in varying proportions of genotyping dead animals. Selection was for only PWS that had heritability of 0.02. Mortality was assumed 10%. The trait was controlled by 7,702 biallelic quantitative trait loci distributed across a 30 Morgan genome. We used 54,218 biallelic single nucleotide polymorphisms (SNPs) that were used in genomic prediction. Genotyping both surviving and dead animals realised 12 to 24% more genetic gain than genotyping only surviving animals. The power of detecting SNP effects increased when animals of extreme phenotypes are genotyped. Therefore, genotyping both surviving and dead pigs realised more genetic gain than genotyping only surviving animals.

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Sharif-Islam M, Van Der Werf JHJ, Henryon M, Chu TT, Wood BJ, Hermesch S. Genotyping dead animals improves post-weaning survival of pigs in breeding programs. In Veerkamp, RF, Haas,Y D, editors, Proceedings of the 12th World Congress on Genetics Applied to Livestock Production. Vol. 12. Netherlands: Wageningen Academic Publishers. 2022. p. 3208-3211. 779 doi: 10.3920/978-90-8686-940-4_779

Genotyping dead animals improves post-weaning survival of pigs in breeding programs

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