Using haplotype probabilities in categorical survival analysis A case study with three candidate genes in an Iberian × Meishan F2 population of newborn piglets
Haplotype probabilities have been implemented in association analyses performed between three candidate genes and the preweaning survival of F 2 Iberian × Meishan piglets, under a categorical proportional hazard model. The additive effect of substitution of each haplotype was estimated using information of parental genotypes for non-genotyped piglets. Analysed loci were the bone morphogenetic protein type 1B receptor (BMPR1B) gene at 8q25 (three SNPs; haplotypes BMPR1BA, BMPR1BB, BMPR1BC and BMPR1BD), the dopamine β-hydroxylase (DBH) gene at 1q2.13 (two SNPs; haplotypes DBHX, DBHY and DBHZ), and the prolactin receptor (PRLR) gene at 16q1.4-q2.3 (six SNPs; haplotypes PRLRA, PRLRB, PRLRC, PRLR D and PRLRE). The number of analysed records were 899 (BMPR1B), 850 (DBH) and 822 (PRLR) with a censoring percentage ranged between 87 and 89%. Associations with preweaning survival were suggested for BMPR1B (p < 0.10) and associations were clearly significant for DBH haplotypes (p < 0.05), whereas the PRLR locus did not reach statistical significance (p > 0.10). The BMPR1BA haplotype could increase piglet survivability in relation to the BMPR1BB haplotype with a hazard ratio of 0.751 and a confidence interval (CI) between 0.550 and 1.025 (p < 0.10). The two remaining haplotypes did not differ significantly from the BMPR1BB haplotype, with a hazard ratio higher than 0.90 (p > 0.10). For the DBH locus, the DBHX and the DBHZ haplotypes were associated with an improved preweaning survival in relation to the DBHY haplotype. The advantage for DBHX in terms of hazard ratio was 0.789 (CI = 0.625 to 0.994; p < 0.05) and differences between DBHY and DBHZ reached a hazard ratio of 0.770 (CI = 0.606 to 0.977; p < 0.05). Although further researches are required, BMPR1B and DBH genes could be a useful tool to improve piglet survival under a marker assisted selection strategy. © 2008 Blackwell Verlag.
| Main Authors: | , , , , , |
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| Format: | journal article biblioteca |
| Language: | eng |
| Published: |
2008
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| Online Access: | http://hdl.handle.net/20.500.12792/5780 |
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| Summary: | Haplotype probabilities have been implemented in association analyses performed between three candidate genes and the preweaning survival of F 2 Iberian × Meishan piglets, under a categorical proportional hazard model. The additive effect of substitution of each haplotype was estimated using information of parental genotypes for non-genotyped piglets. Analysed loci were the bone morphogenetic protein type 1B receptor (BMPR1B) gene at 8q25 (three SNPs; haplotypes BMPR1BA, BMPR1BB, BMPR1BC and BMPR1BD), the dopamine β-hydroxylase (DBH) gene at 1q2.13 (two SNPs; haplotypes DBHX, DBHY and DBHZ), and the prolactin receptor (PRLR) gene at 16q1.4-q2.3 (six SNPs; haplotypes PRLRA, PRLRB, PRLRC, PRLR D and PRLRE). The number of analysed records were 899 (BMPR1B), 850 (DBH) and 822 (PRLR) with a censoring percentage ranged between 87 and 89%. Associations with preweaning survival were suggested for BMPR1B (p < 0.10) and associations were clearly significant for DBH haplotypes (p < 0.05), whereas the PRLR locus did not reach statistical significance (p > 0.10). The BMPR1BA haplotype could increase piglet survivability in relation to the BMPR1BB haplotype with a hazard ratio of 0.751 and a confidence interval (CI) between 0.550 and 1.025 (p < 0.10). The two remaining haplotypes did not differ significantly from the BMPR1BB haplotype, with a hazard ratio higher than 0.90 (p > 0.10). For the DBH locus, the DBHX and the DBHZ haplotypes were associated with an improved preweaning survival in relation to the DBHY haplotype. The advantage for DBHX in terms of hazard ratio was 0.789 (CI = 0.625 to 0.994; p < 0.05) and differences between DBHY and DBHZ reached a hazard ratio of 0.770 (CI = 0.606 to 0.977; p < 0.05). Although further researches are required, BMPR1B and DBH genes could be a useful tool to improve piglet survival under a marker assisted selection strategy. © 2008 Blackwell Verlag. |
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