Whole-genome association analyses for lifetime reproductive traits in the pig

Journal of Animal Science

Volumn 89, Issue 4, 2011, Pages 988-995

  Onteru, S K ^a   Fan, B ^a,b   Nikkila M T ^a   Garrick, D J ^a   Stalder, K J ^a   Rothschild, M F ^a  

^a IOWA STATE UNIVERSITY   (United States)

^b HUAZHONG AGRICULTURAL UNIVERSITY   (China)

Author keywords

Ratio between lifetime nonproductive days and herd life; Removal parity; Sow lifetime litter size; Whole genome association

Indexed keywords

MUS; SUIDAE;

ANIMAL; ARTICLE; FEMALE; GENETIC ASSOCIATION; GENETICS; PHYSIOLOGY; QUANTITATIVE TRAIT LOCUS; REPRODUCTION; SWINE; UNITED STATES;

ANIMALS; FEMALE; GENOME-WIDE ASSOCIATION STUDY; IOWA; QUANTITATIVE TRAIT LOCI; REPRODUCTION; SUS SCROFA;

EID: 79961014480     PISSN: 00218812     EISSN: 15253163     Source Type: Journal    
DOI: 10.2527/jas.2010-3236     Document Type: Article

References (26)

1. Engblom, L., K. Stalder, M. Nikkila, J. Holl, S. Tsuruta, W. Herring, M. Culbertson, and J. Mabry. 2010. Sire re-ranking and analysis methods for sow lifetime reproductive traits. Paper 438 in 9th World Congr. Genet. Appl. Livest. Prod., Leipzig, Germany.
2. Fan, B., S. K. Onteru, B. E. Mote, T. Serenius, K. J. Stalder, and M. F. Rothschild. 2009. Large-scale association study for structural soundness and leg locomotion traits in the pig. Genet. Sel. Evol. 41:14.
3. Fernando, R. L., and D. J. Garrick. 2008. GenSel-User Manual for a Portfolio of Genomic Selection Related Analyses. Animal Breeding and Genetics, Iowa State Univ., Ames.
4. Fernando, R. L., D. Nettleton, B. R. Southey, J. C. M. Dekkers, M. F. Rothschild, and M. Soller. 2004. Controlling the proportion of false positives in multiple dependent tests. Genetics 166:611-619.
5. Goldberg, E. M., S. Watanabe, S. Y. Chang, R. H. Joho, Z. J. Huang, C. S. Leonard, and B. Rudy. 2005. Specific functions of synaptically localized potassium channels in synaptic transmission at the neocortical GABAergic fast-spiking cell synapse. J. Neurosci. 25:5230-5235.
6. Guo, S.-F., D. Gianola, R. Rekaya, and T. Short. 2001. Bayesian analysis of lifetime performance and prolificacy in Landrace sows using a linear mixed model with censoring. Livest. Prod. Sci. 72:243-252.
7. Herath, S., E. J. Williams, S. T. Lilly, R. O. Gilbert, H. Dodson, C. E. Bryant, and I. M. Sheldon. 2007. Ovarian follicular cells have innate immune capabilities that modulate their endocrine functions. Reproduction 134:683-693.
8. Holl, J. W., J. P. Cassady, D. Pomp, and R. K. Johnson. 2004. A genome scan for quantitative trait loci and imprinted regions affecting reproduction in pigs. J. Anim. Sci. 82:3421-3429.
9. Johnson, Z. B., and R. A. Nugent. 2008. Estimates of heritability for lifetime productivity traits and longevity in four breeds of swine. AAES Res. Ser. 563:119-121.
10. Kizilkaya, K., R. L. Fernando, and D. J. Garrick. 2010. Genomic prediction of simulated multi breed and purebred performance using observed fifty thousand single nucleotide polymorphism genotypes. J. Anim. Sci. 88:544-551.
11. Liu, Z., M. Shimada, and J. S. Richards. 2008. The involvement of the Toll-like receptor family in ovulation. J. Assist. Reprod. Genet. 25:223-228.
12. Mashima, R., K. Saeki, D. Aki, Y. Minoda, H. Takaki, T. Sanada, T. Kobayashi, H. Aburatani, Y. Yamanashi, and A. Yoshimura. 2005. FLN29, a novel interferon- and LPS-inducible gene acting as a negative regulator of Toll-like receptor signaling. J. Biol. Chem. 280:41289-41297.
13. Meszaros, G., J. Palos, V. Ducrocq, and J. Solkner. 2010. Heritability of longevity in Large White and Landrace sows using continuous time and grouped data models. Genet. Sel. Evol. 42:13.
14. Meuwissen, T. H. E., B. J. Hayes, and M. E. Garrod. 2001. Prediction of total genetic value using genome-wide dense marker maps. Genetics 157:1819-1829.
15. Mote, B. E., K. J. Koehler, J. W. Mabry, K. J. Stalder, and M. F. Rothschild. 2009. Identification of genetic markers for productive life in commercial sows. J. Anim. Sci. 87:2187-2195.
16. Nikkila, M., K. Stalder, B. Mote, T. Serenius, M. Rothschild, and A. Johnson. 2010. Associations of gilt body composition, growth, and structural soundness traits with sow lifetime reproduction performance. Anim. Ind. Rep., A.S. Leaflet R2541. Iowa State Univ., Ames.
17. Purcell, S., B. Neale, K. Todd-Brown, L. Thomas, M. A. R. Ferreira, D. Bender, J. Maller, P. I. W. Bakker, M. J. Daly, and P. C. Sham. 2007. PLINK: A toolset for 9 whole-genome association and population-based linkage analysis. Am. J. Hum. Genet. 81:559-575.
18. Ramos, A. M., R. P. M. A. Crooijmans, N. A. Affara, A. J. Amaral, A. L. Archibald, J. E. Beever, C. Bendixen, C. Churcher, R. Clark, P. Dehais, M. S. Hansen, J. Hedegaard, Z. Hu, H. H. Kerstens, A. S. Law, H. Megens, D. Milan, D. J. Nonneman, G. A. Rohrer, M. F. Rothschild, T. P. L. Smith, R. D. Schnabel, C. P. Van Tassell, J. F. Taylor, R. T. Wiedmann, L. B. Schook, and M. A. M. Groenen. 2009. Design of a high density SNP genotyping assay in the pig using SNPs identified and characterized by next generation sequencing technology. PLoS ONE 4:e6524.
19. Salas, M., R. John, A. Saxena, S. Barton, D. Frank, G. Fitzpatrick, M. J. Higgins, and B. Tycko. 2004. Placental growth retardation due to loss of imprinting of Phlda2. Mech. Dev. 121:1199-1210.
20. Serenius, T., and K. J. Stalder. 2004. Genetics of length of productive life and lifetime prolificacy in the Finnish Landrace and Large White pig populations. J. Anim. Sci. 82:3111-3117.
21. Serenius, T., and K. J. Stalder. 2006. Selection for sow longevity. J. Anim. Sci. 84:E166-E171.
22. Shimada, M., Y. Yanai, T. Okazaki, N. Noma, I. Kawashima, T. Mori, and J. S. Richard. 2008. Activation of TLR2 and TLR4 in cumulus cells of ovulated COCs stimulates production of cytokines/chemokines that induce sperm capacitation and enhance fertilization. Development 135:2001-2011.
23. Stalder, K. J., M. Knauer, T. J. Baas, M. F. Rothschild, and J. W. Mabry. 2004. Sow longevity. Pig News Inf. 25:53N-74N.
24. Stalder, K. J., A. M. Saxton, G. E. Conatser, and T. V. Serenius. 2005. Effect of growth and compositional traits on first parity and lifetime reproductive performance in U.S. Landrace swine. Livest. Prod. Sci. 97:151-159.
25. Sun, X., D. Habier, R. L. Fernando, D. J. Garrick, and J.C.M. Dekkers. 2011. Genomic breeding value prediction and QTL mapping of QTLMAS2010 data using Bayesian methods. BMC Proc. (in press). BioMed Central Ltd., London, UK.
26. Zhang, C., M. A. Bosch, O. K. Ronnekleiv, and M. J. Kelly. 2009. γ-Aminobutyric acid B receptor mediated inhibition of gonadotropin- releasing hormone neurons is suppressed by kisspeptin-G protein coupled receptor 54 signaling. Endocrinology 150:2388-2394.