200f9ab082f6865de115f34cb603e428 GEN_a2022v13.pdf 65c9d434fde0424c9e4952ccfb3a4b09f885d522 GEN_a2022v13.pdf 8b6aa176e78284b030fe25d17e4155590893517d4254b3138e9f063a1f50f1e9 GEN_a2022v13.pdf Title: Additive and Dominance Genomic Analysis for Litter Size in Purebred and Crossbred Iberian Pigs Subject: INGA FOOD S. A., as a Spanish company that produces and commercializes fattened pigs, has produced a hybrid Iberian sow called CASTÚA by crossing the Retinto and Entrepelado varieties. The selection of the parental populations is based on selection criteria calculated from purebred information, under the assumption that the genetic correlation between purebred and crossbred performance is high; however, these correlations can be less than one because of a GxE interaction or the presence of non-additive genetic effects. This study estimated the additive and dominance variances of the purebred and crossbred populations for litter size, and calculated the additive genetic correlations between the purebred and crossbred performances. The dataset consisted of 2030 litters from the Entrepelado population, 1977 litters from the Retinto population, and 1958 litters from the crossbred population. The individuals were genotyped with a GeneSeek® GGP Porcine70K HDchip. The model of analysis was a ‘biological’ multivariate mixed model that included additive and dominance SNP effects. The estimates of the additive genotypic variance for the total number born (TNB) were 0.248, 0.282 and 0.546 for the Entrepelado, Retinto and Crossbred populations, respectively. The estimates of the dominance genotypic variances were 0.177, 0.172 and 0.262 for the Entrepelado, Retinto and Crossbred populations. The results for the number born alive (NBA) were similar. The genetic correlations between the purebred and crossbred performance for TNB and NBA—between the brackets—were 0.663 in the Entrepelado and 0.881 in Retinto poplulations. After backsolving to obtain estimates of the SNP effects, the additive genetic variance associated with genomic regions containing 30 SNPs was estimated, and we identified four genomic regions that each explained >2% of the additive genetic variance in chromosomes (SSC) 6, 8 and 12: one region in SSC6, two regions in SSC8, and one region in SSC12. Keywords: pig; Iberian; additive; dominance; genetic correlation; crossbreeding; genomic selection Author: Houssemeddine Srihi, José Luis Noguera, Victoria Topayan, Melani Martín de Hijas, Noelia Ibañez-Escriche, Joaquim Casellas, Marta Vázquez-Gómez, María Martínez-Castillero, Juan Pablo Rosas and Luis Varona Creator: LaTeX with hyperref Producer: pdfTeX-1.40.21 CreationDate: Wed Dec 22 14:21:44 2021 CET ModDate: Wed Dec 22 14:32:28 2021 CET Tagged: no UserProperties: no Suspects: no Form: none JavaScript: no Pages: 10 Encrypted: no Page size: 595.276 x 841.89 pts (A4) Page rot: 0 File size: 483096 bytes Optimized: no PDF version: 1.7 name type encoding emb sub uni object ID ------------------------------------ ----------------- ---------------- --- --- --- --------- XHLUQN+URWPalladioL-Bold Type 1 Custom yes yes no 10 0 ZJZIAC+URWPalladioL-Roma Type 1 Custom yes yes no 15 0 FGFGDB+URWPalladioL-Ital Type 1 Custom yes yes no 19 0 FVLORB+VnURWPalladioL Type 1 Custom yes yes no 23 0 JYPLJJ+VnURWPalladioL-Bold Type 1 Custom yes yes no 28 0 MCBCCI+SourceSansRoman-Regular Type 1C Custom yes yes no 36 0 MCBCCM+SourceSansRoman.613wght Type 1C Custom yes yes no 40 0 MCBCCO+SourceSansRoman-Bold Type 1C Custom yes yes no 44 0 KONDUX+EuphemiaUCAS-Bold Type 1C WinAnsi yes yes no 56 0 HIZBRM+TimesNewRomanPS-BoldItalicMT Type 1C WinAnsi yes yes no 59 0 LVSUPJ+CMSY10 Type 1 Builtin yes yes no 81 0 KRZZTJ+URWPalladioL-BoldItal Type 1 Custom yes yes no 85 0 OSGQEY+CMEX10 Type 1 Builtin yes yes no 92 0 QQXUPP+PazoMath Type 1 Builtin yes yes no 96 0 SOSTRQ+CMR10 Type 1 Builtin yes yes no 100 0 PPVFMK+PazoMath-Italic Type 1 Builtin yes yes no 104 0 NAHOEE+PalatinoLinotype,Bold TrueType WinAnsi yes yes no 125 0 NAHOEG+PalatinoLinotype TrueType WinAnsi yes yes no 128 0 NAHOEI+PalatinoLinotype,Italic TrueType WinAnsi yes yes no 131 0 JBTTSN+VnURWPalladioL-Italic Type 1 Custom yes yes no 141 0 LWLIVD+EURM10 Type 1 Builtin yes yes no 148 0 Jhove (Rel. 1.22.1, 2019-04-17) Date: 2023-05-27 03:28:28 CEST RepresentationInformation: GEN_a2022v13.pdf ReportingModule: PDF-hul, Rel. 1.12.1 (2019-04-17) LastModified: 2023-03-31 11:58:27 CEST Size: 483096 Format: PDF Version: 1.7 Status: Well-Formed and valid SignatureMatches: PDF-hul MIMEtype: application/pdf PDFMetadata: Objects: 260 FreeObjects: 1 IncrementalUpdates: 0 DocumentCatalog: PageLayout: SinglePage PageMode: UseNone Outlines: Item: Title: Introduction Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@44c8afef Item: Title: Materials and Methods Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@7b69c6ba Item: Title: Results and Discussion Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@46daef40 Item: Title: Conclusions Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@12f41634 Item: Title: References Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@13c27452 Info: Title: Additive and Dominance Genomic Analysis for Litter Size in Purebred and Crossbred Iberian Pigs Author: Houssemeddine Srihi, José Luis Noguera, Victoria Topayan, Melani Martín de Hijas, Noelia Ibañez-Escriche, Joaquim Casellas, Marta Vázquez-Gómez, María Martínez-Castillero, Juan Pablo Rosas and Luis Varona Subject: INGA FOOD S. A., as a Spanish company that produces and commercializes fattened pigs, has produced a hybrid Iberian sow called CASTÚA by crossing the Retinto and Entrepelado varieties. The selection of the parental populations is based on selection criteria calculated from purebred information, under the assumption that the genetic correlation between purebred and crossbred performance is high; however, these correlations can be less than one because of a GxE interaction or the presence of non-additive genetic effects. This study estimated the additive and dominance variances of the purebred and crossbred populations for litter size, and calculated the additive genetic correlations between the purebred and crossbred performances. The dataset consisted of 2030 litters from the Entrepelado population, 1977 litters from the Retinto population, and 1958 litters from the crossbred population. The individuals were genotyped with a GeneSeek® GGP Porcine70K HDchip. The model of analysis was a ‘biological’ multivariate mixed model that included additive and dominance SNP effects. The estimates of the additive genotypic variance for the total number born (TNB) were 0.248, 0.282 and 0.546 for the Entrepelado, Retinto and Crossbred populations, respectively. The estimates of the dominance genotypic variances were 0.177, 0.172 and 0.262 for the Entrepelado, Retinto and Crossbred populations. The results for the number born alive (NBA) were similar. The genetic correlations between the purebred and crossbred performance for TNB and NBA between the brackets were 0.663 in the Entrepelado and 0.881 in Retinto poplulations. After backsolving to obtain estimates of the SNP effects, the additive genetic variance associated with genomic regions containing 30 SNPs was estimated, and we identified four genomic regions that each explained >2% of the additive genetic variance in chromosomes (SSC) 6, 8 and 12: one region in SSC6, two regions in SSC8, and one region in SSC12. 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