Association of twelve immune-related genes with performance of three broiler lines in two different hygiene environments

Poultry Science

Volumn 85, Issue 9, 2006, Pages 1555-1569

  Ye, X ^a   Avendano, S ^b   Dekkers, J C M ^a   Lamont, S J ^a  

^a IOWA STATE UNIVERSITY   (United States)

^b Aviagen   (United States)

Author keywords

Broiler chicken; Environment; Immune related gene; Single nucleotide polymorphism; Trait

Indexed keywords

ANIMALIA; INFECTIOUS BURSAL DISEASE VIRUS;

EID: 33748563559     PISSN: 00325791     EISSN: 15253171     Source Type: Journal    
DOI: 10.1093/ps/85.9.1555     Document Type: Article

References (41)

1. Ali, K. O., A. M. Katule, and O. Syrstad. 2001. Genotype × environment interaction in growing chickens: Comparison of four genetic groups on two rearing systems under tropical conditions. Acta Agric. Scand. Sec. Anim. Sci. 50:65-71.
2. Boldogkoi, Z. 2004. Gene network polymorphism is the raw material of natural selection: The selfish gene network hypothesis. J. Mol. Evol. 59:340-357.
3. Deeb, N., and A. Cahaner. 2001a. Genotype-by-environment interaction with broiler genotypes differing in growth rate 1. The effects of high ambient temperature and naked-neck genotype on stocks differing in genetic background. Poult. Sci. 80:695-702.
4. Deeb, N., and A. Cahaner. 2001b. Genotype-by-environment interaction with broiler genotypes differing in growth rate 2. The effects of high ambient temperature on dwarf versus normal broilers. Poult. Sci. 80:541-548.
5. Deeb, N., and A. Cahaner. 2002. Genotype-by-environment interaction with broiler genotypes differing in growth rate 3. Growth rate and water consumption of broiler progeny from weight-selected vs. non-selected parents under normal and high ambient temperatures. Poult. Sci. 81:293-301.
6. Doetschman, T. 1999. Interpretation of phenotype in genetically engineered mice. Lab. Anim. Sci. 49:137-143.
7. Dunnington, E. A., and P. B. Siegel. 1996. Long-term divergent selection for eight-week body weight in White Plymouth Rock chickens. Poult. Sci. 75:1168-1179.
8. Feder, J. N., A. Gnirke, W. Thomas, Z. Tsuchihashi, D. A. Ruddy, A. Basava, F. Dormishian, R. Domingo Jr., M. C. Ellis, A. Fullan, L. M. Hinton, N. L. Jones, B. E. Kimmel, G. S. Kronmal, P. Lauer, V. K. Lee, D. B. Loeb, F. A. Mapa, E. McClelland, N. C. Meyer, G. A. Mintier, N. Moeller, T. Moore, E. Morikang, C. E. Prass, L. Quintana, S. M. Starnes, R. C. Schatzman, K. J. Brunke, D. T. Drayna, N. J. Risch, B. R. Bacon, and R. K. Wolff. 1996. A novel MHC class I-like gene is mutated in patients with hereditary haemochromatosis. Nat. Genet. 13:399-408.
9. 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.
10. Fulton, J. E. 2004. Selection for avian immune response: A commercial breeding company challenge. Poult. Sci. 83:658-661.
11. Futuyma, D. J. 1986. Evolutionary Biology. 2nd ed. Sinauer Assoc. Inc., Sunderland, MA.
12. Hill, W. G., and A. Robertson. 1968. Linkage disequilibrium in finite populations. Theor. Appl. Genet. 33:54-78.
13. Hillier, L. W., W. Miller, E. Birney, W. Warren, R. C. Hardison, C. P. Ponting, P. Bork, D. W. Burt, M. A. Groenen, M. E. Delany, J. B. Dodgson, A. T. Chinwalla, P. F. Cliften, S. W. Clifton, K. D. Delehaunty, C. Fronick, R. S. Fulton, T. A. Graves, C. Kremitzki, D. Layman, V. Magrini, J. D. McPherson, T. L. Miner, P. Minx, W. E. Nash, M. N. Nhan, J. O. Nelson, L. G. Oddy, C. S. Pohl, J. Randall-Maher, S. M. Smith, J. W. Wallis, S. P. Yang, M. N. Romanov, C. M. Rondelli, B. Paton, J. Smith, D. Morrice, L. Daniels, H. G. Tempest, L. Robertson, J. S. Masabanda, D. K. Griffin, A. Vignal, V. Fillon, L. Jacobbson, S. Kerje, L. Andersson, R. P. Crooijmans, J. Aerts, J. J. van der Poel, H. Ellegren, R. B. Caldwell, S. J. Hubbard, D. V. Grafham, A. M. Kierzek, S. R. McLaren, I. M. Overton, H. Arakawa, K. J. Beattie, Y. Bezzubov, P. E. Boardman, J. K. Bonfield, M. D. Croning, R. M. Davies, M. D. Francis, S. J. Humphray, C. E. Scott, R. G. Taylor, C. Tickle, W. R. Brown, J. Rogers, J. M. Buerstedde, S. A. Wilson, L. Stubbs, I. Ovcharenko, L. Gordon, S. Lucas, M. M. Miller, H. Inoko, T. Shiina, J. Kaufman, J. Salomonsen, K. Skjoedt, G. K. Wong, J. Wang, B. Liu, J. Wang, J. Yu, H. Yang, M. Nefedov, M. Koriabine, P. J. Dejong, L. Goodstadt, C. Webber, N. J. Dickens, I. Letunic, M. Suyama, D. Torrents, C. von Mering, E. M. Zdobnov, K. Makova, A. Nekrutenko, L. Elnitski, P. Eswara, D. C. King, S. Yang, S. Tyekucheva, A. Radakrishnan, R. S. Harris, F. Chiaromonte, J. Taylor, J. He, M. Rijnkels, S. Griffiths-Jones, A. Ureta-Vidal, M. M. Hoffman, J. Severin, S. M. Searle, A. S. Law, D. Speed, D. Waddington, Z. Cheng, E. Tuzun, E. Eichler, Z. Bao, P. Flicek, D. D. Shteynberg, M. R. Brent, J. M. Bye, E. J. Huckle, S. Chatterji, C. Dewey, L. Pachter, A. Kouranov, Z. Mourelatos, A. G. Hatzigeorgiou, A. H. Paterson, R. Ivarie, M. Brandstrom, E. Axelsson, N. Backstrom, S. Berlin, M. T. Webster, O. Pourquie, A. Reymond, C. Ucla, S. E. Antonarakis, M. Long, J. J. Emerson, E. Betran, I. Dupanloup, H. Kaessmann, A. S. Hinrichs, G. Bejerano, T. S. Furey, R. A. Harte, B. Raney, A. Siepel, W. J. Kent, D. Haussler, E. Eyras, R. Castelo, J. F. Abril, S. Castellano, F. Camara, G. Parra, R. Guigo, G. Bourque, G. Tesler, P. A. Pevzner, A. Smit, L. A. Fulton, E. R. Mardis, and R. K. Wilson; International Chicken Genome Sequencing Consortium. 2004. Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution. Nature 432:695-716.
14. Klasing, K. C. 1998. Nutritional modulation of resistance to infectious disease. Poult. Sci. 77:1119-1125.
15. Kolmodin, R., and P. Bijma. 2004. Response to mass selection when the genotype by environment interaction is modeled as a linear reaction norm. Genet. Sel. Evol. 36:435-454.
16. Kramer, J., M. Malek, and S. J. Lamont. 2003. Association of twelve candidate gene polymorphisms and response to challenge with Salmonella enteritidis in poultry. Anim. Genet. 34:339-348.
17. Lamont, S. J., M. G. Kaiser, and W. Liu. 2002. Candidate genes for resistance to Salmonella enteriditidis colonization in chickens as detected in a novel genetic cross. Vet. Immunol. Immunopathol. 87:423-428.
18. Lee, W.-C. 2003. Searching for disease-susceptibility loci by testing for Hardy-Weinberg disequilibrium in a gene bank of affected individuals. Am. J. Epidemiol. 158:397-400.
19. Leenstra, F., and A. Cahaner. 1991. Genotype by environment interactions using fast- growing, lean or fat broiler chickens, originating from The Netherlands and Israel, raised at normal or low temperature. Poult. Sci. 70:2028-2039.
20. Liu, W., M. G. Kaiser, and S. J. Lamont. 2003. Natural resistance-associated macrophage protein 1 gene polymorphisms and response to vaccine against or challenge with Salmonella enteritidis in young chicks. Poult. Sci. 82:259-266.
21. Liu, W., and S. J. Lamont. 2003. Candidate gene approach potential association of caspase-1, inhibitor of apoptosis Protein-1, and prosaposin gene polymorphisms with response to Salmonella enteritidis challenge or vaccination in young chicks. Anim. Biotechnol. 14:61-75.
22. Malek, M., J. R. Hasenstein, and S. J. Lamont. 2004. Analysis of chicken TLR4, CD28, MIF, MO-2, and LITAF genes in a Salmonella enteritidis resource population. Poult. Sci. 83:544-549.
23. Malek, M., and S. J. Lamont. 2003. Association of iNOS, TRAIL, TGF-β2, TGF-β3, and IgL genes with response to Salmonella enteritidis in poultry. Genet. Sel. Evol. 35:S99-S111.
24. Mathur, P. K. 2003. Genotype-environment interactions: Problems associated with selection for increased production. Pages 83-99 in Poultry Genetics, Breeding and Biotechnology. W. M. Muir and S. E. Aggrey, ed. CABI Publ., Cambridge, MA.
25. Mosig, M., E. Lipkin, G. Khutoreskaya, E. Tchourzyna, M. Soller, and A. Friedmann. 2001. A whole genome scan for QTL affecting milk protein percentage in Israel-Holstein cattle by means of selective milk pooling in a daughter design, using an adjusted false discovery rate criterion. Genetics 157:1683-1698.
26. Mulder, H. A., and P. Bijma. 2005. Effects of genotype × environment interaction on genetic gain in breeding programs. J. Anim. Sci. 83:49-61.
27. Muller, U. 1999. Ten years of gene targeting: Targeted mouse mutants from vector design to phenotype analysis. Mech. Dev. 82:3-21.
28. Nettleton, D., and J. Hwang. 2003. Estimating the number of false null hypotheses when conducting many tests. Preprint Series 2003-09, Technical Report, Dept. Stat, Iowa State Univ., Ames, IA.
29. Nielsen, D. M., M. B. Ehm, and B. S. Weir. 1999. Detecting marker-disease association by testing for Hardy-Weinberg disequilibrium at a marker locus. Am. J. Hum. Genet. 63:1531-1540.
30. Qu, W., R. A. Rippe, J. Ma, P. Scarborough, C. Biagini, F. T. Fiedorek, G. S. Travlos, C. Parker, and D. C. Zeldin. 1998. Nutritional status modulates rat liver cytochrome P450 arachidonic acid metabolism. Mol. Pharmacol. 54:504-513.
31. Rauw, W. M., P. W. Knap, L. Gómez Raya, L. Varona, and J. L. Noguera. 2003. Reallocation of body resources in lactating mice highly selected for litter size. J. Anim. Sci. 81:939-944.
32. SAS Institute Inc. 2002-2004. Proc GLM in SAS 9.1.3 Help and Documentation, SAS Inst. Inc., Cary, NC.
33. Schneider, S., D. Roesseli, and L. Excoffier. 2000. Arlequin ver. 2.000: A Software for Population Genetics Data Analysis. Genet. Biometry Lab., Univ. of Geneva, Switzerland.
34. Settar, P., S. Yalcin, L. Turkmut, S. Ozkan, and A. Cahanar. 1999. Season by genotype interaction related to broiler growth rate and heat tolerance. Poult. Sci. 78:1353-1358.
35. Sheridan, A. K. 1990. Genotype × environment interactions. Pages 897-912 in Poultry Breeding and Genetics. R. D. Crawford, ed. Elsevier Science Publ. B.V., Amsterdam, The Netherlands.
36. Tixier-Boichard, M. 2002. From phenotype to genotype: Major genes in chickens. World's Poult. Sci. J. 58:65-75.
37. van der Waaij, E. H. 2004. A resource allocation model describing consequences of artificial selection under metabolic stress. J. Anim. Sci. 82:973-981.
38. Wong, G. K., B. Liu, J. Wang, Y. Zhang, X. Yang, Z. Zhang, Q. Meng, J. Zhou, D. Li, J. Zhang, P. Ni, S. Li, L. Ran, H. Li, J. Zhang, R. Li, S. Li, H. Zheng, W. Lin, G. Li, X. Wang, W. Zhao, J. Li, C. Ye, M. Dai, J. Ruan, Y. Zhou, Y. Li, X. He, Y. Zhang, J. Wang, X. Huang, W. Tong, J. Chen, J. Ye, C. Chen, N. Wei, G. Li, L. Dong, F. Lan, Y. Sun, Z. Zhang, Z. Yang, Y. Yu, Y. Huang, D. He, Y. Xi, D. Wei, Q. Qi, W. Li, J. Shi, M. Wang, F. Xie, J. Wang, X. Zhang, P. Wang, Y. Zhao, N. Li, N. Yang, W. Dong, S. Hu, C. Zeng, W. Zheng, B. Hao, L. W. Hillier, S. P. Yang, W. C. Warren, R. K. Wilson, M. Brandstrom, H. Ellegren, R. P. Crooijmans, J. J. van der Poel, H. Bovenhuis, M. A. Groenen, I. Ovcharenko, L. Gordon, L. Stubbs, S. Lucas, T. Glavina, A. Aerts, P. Kaiser, L. Rothwell, J. R. Young, S. Rogers, B. A. Walker, A. van Hateren, J. Kaufman, N. Bumstead, S. J. Lamont, H. Zhou, P. M. Hocking, D. Morrice, D. J. de Koning, A. Law, N. Bartley, D. W. Burt, H. Hunt, H. H. Cheng, U. Gunnarsson, P. Wahlberg, L. Andersson, E. Kindlund, M. T. Tammi, B. Andersson, C. Webber, C. P. Ponting, I. M. Overton, P. E. Boardman, H. Tang, S. J. Hubbard, S. A. Wilson, J. Yu, J. Wang, and H. Yang. 2004. A genetic variation map for chicken with 2.8 million single-nucleotide polymorphisms. Nature 432:717-722.
39. Zhou, H., A. J. Buitenhuis, S. Weigend, and S. J. Lamont. 2001. Candidate gene promoter polymorphisms and antibody response kinetics in chickens: Interferon-γ, interleukin-2, and immunoglobulin light chain. Poult. Sci. 80:1679-1689.
40. Zhou, H., and S. J. Lamont. 2003a. Association of transforming growth factor β genes with quantitative trait loci for antibody response kinetics in hens. Anim. Genet. 34:275-282.
41. Zhou, H., and S. J. Lamont. 2003b. Associations of six candidate genes with antibody response kinetics in hens. Poult. Sci. 82:1118-1126.