A Genome-Wide Association Study of Survival to Unexpected Acute Heat Stress in a F2 Chicken Population

Document Type : Original Research

Authors
H. Asadollahi
R. Vaez Torshizi
A. Ehsani
A. Masoudi
Department of Animal Science, Faculty of Agriculture, Tarbiat Modares University, Tehran, Islamic Republic of Iran.
Abstract
Heat stress, or hyperthermia, can have a serious effect on chicken performance in poultry industry in many parts of the world. Both genetics and environment play key role in the performance of a chicken and, therefore, it is important to consider both factors in addressing heat stress. On genetics level, genome-wide association studies have become a popular method for studying heat stress in recent years. A population of 202 F2 chickens was reared for 84 days to find genes and genomic regions affecting growth traits and immune system. But, due to unexpected acute increase in temperature at day 83, 182 birds died (case) and 20 birds remained alive (control). At the age of 70 days, blood sample of all birds was collected to extract their DNA, using modified salting out method. All samples were genotyped by a 60 K Single Nucleotide Polymorphism (SNP) chip. Genome-wide association study was carried out by GCTA to identify gene and genomic regions associated with heat stress tolerance. Results indicated a close relationship between 28 SNPs, located on chromosomes 2, 3, 5, 6, 7, 12, 19, 20, and 21 and heat stress tolerance at the level of suggestive significance. Two suggestively significant markers on chromosome 5, namely, GGaluGA273356 and Gga_rs16479429, were located within and 52 Kb downstream of two genes, including MAPKBP1and SPON1, respectively. Gene ontology analysis indicated that the resistance of chickens to acute increase of temperature might be linked to the function of MAPKBP1 and SPON1 genes and their biological pathways. These results will be useful for understanding the molecular mechanisms of SNPs and candidate genes for heat stress tolerance in chickens and provide a basis for increasing genetic resistance in breeding programs.

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1. Ahmad, T. and Sarwar, M. 2006. Dietary electrolyte balance: Implications in heat stressed broilers. World's Poult. Sci. J., 62(04): 638-653.
2. Bogoyevitch, M.A., Ngoei, K.R., Zhao, T.T., Yeap, Y.Y. and Ng, D.C., 2010. c-Jun N-terminal kinase (JNK) signaling: recent advances and challenges. Biochimica et Biophysica Acta (BBA)-Proteins and Proteomics, 1804(3): pp.463-475.
3. Chu, B., Soncin, F., Price, B.D., Stevenson, M.A. and Calderwood, S.K. 1996. Sequential phosphorylation by mitogen-activated protein kinase and glycogen synthase kinase 3 represses transcriptional activation by heat shock factor-1. J. Biol. Chem., 271(48): 30847-30857.
4. Coble, D., Fleming, D., Persia, M., Ashwell, C., Rothschild, M., Schmidt, C. and Lamont, S. 2013. RNA-SEQ ANALYSIS OF BROILER LIVER Transcriptome reveals novel responses to heat stress. The Effects of Biotic and Abiotic Stressors on Gene Expression in Chickens, 94.
5. Dikmen, S., Cole, J.B., Null, D.J. and Hansen, P.J., 2013. Genome-wide association mapping for identification of quantitative trait loci for rectal temperature during heat stress in Holstein cattle. PloS one, 8(7): p.e69202.
6. Fan, Q., Huang, L.-Z., Zhu, X.-J., Zhang, K.-K., Ye, H.-F., Luo, Y., Sun, X.-H., Zhou, P. and Lu, Y. 2014. Identification of proteins that interact with alpha A-crystallin using a human proteome microarray. Molecular vision, 20: p.117.
7. Goddard, M. E., Wray, N. R., Verbyla, K. and Visscher, P.M. 2009. Estimating Effects and Making Predictions from Genome-Wide Marker Data. J. Stat. Sci., 24(4):517-529.
8. Gu, X., Feng, C., Ma, L., Song, C., Wang, Y., Da, Y., Li, H., Chen, K., Ye, S. and Ge, C. 2011. Genome-wide association study of body weight in chicken F2 resource population. PloS one, 6(7): e21872.
9. Hamzić, E., Buitenhuis, B., Hérault, F., Hawken, R., Abrahamsen, M.S., Servin, B., Elsen, J.M., Pinard-van Der Laan, M.H. and Bed’Hom, B., 2015. Genome-wide association study and biological pathway analysis of the Eimeria maxima response in broilers. Genetics Selection Evolution, 47(1): p.91.
10. He, B., Meng, Y.H. and Mivechi, N.F. 1998. Glycogen synthase kinase 3β and extracellular signal-regulated kinase inactivate heat shock transcription factor 1 by facilitating the disappearance of transcriptionally active granules after heat shock. Mol Cell Biol, 18(11): 6624-6633.
11. Hocking, P., Maxwell, M. and Mitchell, M. 1994. Haematology and blood composition at two ambient temperatures in genetically fat and lean adult broiler breeder females fed ad libitum or restricted throughout life. Br Poult. Sci., 35(5): 799-807.
12. Kim, S.A., Yoon, J.H., Lee, S.H. and Ahn, S.G. 2005. Polo-like kinase 1 phosphorylates heat shock transcription factor 1 and mediates its nuclear translocation during heat stress. J. Biol. Chem., 280(13): 12653-12657.
13. Koul, H.K., Pal, M. and Koul, S. 2013. Role of p38 MAP kinase signal transduction in solid tumors. Genes and cancer: 1947601913507951.
14. Lara, L.J. and Rostagno, M.H., 2013. Impact of heat stress on poultry production. Animals, 3(2): pp.356-369.
15. Lamont, S. Genomics of heat stress in chickens. 10th World Congress on Genetics Applied to Livestock Production, 2014. Asas.
16. Lao, O., van Duijn, K., Kersbergen, P., de Knijff, P. and Kayser, M. 2006. Proportioning whole-genome single-nucleotide–polymorphism diversity for the identification of geographic population structure and genetic ancestry. Am. J. Hum. Genet. 78(4): 680-690.
17. Lin, H., Jiao, H., Buyse, J. and Decuypere, E. 2006. Strategies for preventing heat stress in poultry. World's Poult. Sci. J., 62(01): 71-86.
18. Lindquist, S. 1986. The heat-shock response. Annu. Rev. Biochem., 55(1): 1151-1191.
19. Lu, Q., Wen, J. and Zhang, H. 2007. Effect of chronic heat exposure on fat deposition and meat quality in two genetic types of chicken. Poult. Sci., 86(6): 1059-1064.
20. Mack, L.A., Felver-Gant, J.N., Dennis, R.L. and Cheng, H.W., 2013. Genetic variations alter production and behavioral responses following heat stress in 2 strains of laying hens. Poultry science, 92(2): pp.285-294.
21. National Center for Biotechnology Information. Rockville Pike: US National Library of Medicine; 2005. http://www.ncbi.nlm.nih.gov. Accessed 1 Feb 2015.
22. Purcell, S., Neale, B., Todd-Brown, K., Thomas, L., Ferreira, M.A., Bender, D., Maller, J., Sklar, P., De Bakker, P.I. and Daly, M.J. 2007. PLINK: a tool set for whole-genome association and population-based linkage analyses. Am. J. Hum. Genet, 81(3): 559-575.
23. Sandercock, D., Hunter, R., Nute, G., Mitchell, M. and Hocking, P. 2001. Acute heat stress-induced alterations in blood acid-base status and skeletal muscle membrane integrity in broiler chickens at two ages: Implications for meat quality. Poult. Sci., 80(4): 418-425.
24. Shamovsky, I. and Nudler, E. 2008. New insights into the mechanism of heat shock response activation. Cell. Mol. Life Sci., 65(6): 855-861.
25. Soleimani, A.F., Zulkifli, I., Omar, A.R. and Raha, A.R., 2011. Physiological responses of 3 chicken breeds to acute heat stress. Poultry science, 90(7): pp.1435-1440.
26. Sorger, P.K., 1991. Heat shock factor and the heat shock response. Cell, 65(3): pp.363-366.
27. Stocks, J.M., Taylor, N.A., Tipton, M.J. and Greenleaf, J.E. 2004. Human physiological responses to cold exposure. Aviat. Space Environ. Med, 75: 444–457.
28. Tibbles, L. and Woodgett, J. 1999. The stress-activated protein kinase pathways. Cell. Mol. Life Sci, 55(10): 1230-1254.
29. Turner, S.D. 2014. qqman: an R package for visualizing GWAS results using QQ and manhattan plots. bioRxiv: 005165.
30. Vassalli, G., Milano, G. and Moccetti, T. 2012. Role of mitogen-activated protein kinases in myocardial ischemia-reperfusion injury during heart transplantation, J. transplant.
31. Van Goor, A., Bolek, K.J., Ashwell, C.M., Persia, M.E., Rothschild, M.F., Schmidt, C.J. and Lamont, S.J., 2015. Identification of quantitative trait loci for body temperature, body weight, breast yield, and digestibility in an advanced intercross line of chickens under heat stress. Genetics Selection Evolution, 47(1): p.96.
32. Xue, Q., Zhang, G., Li, T., Ling, J., Zhang, X. and Wang, J., 2017. Transcriptomic profile of leg muscle during early growth in chicken. PloS one, 12(3): p.e0173824.
33. Yang, J., Lee, S.H., Goddard, M.E. and Visscher, P.M. 2011. GCTA: a tool for genome-wide complex trait analysis. Am. J. Hum. Genet, 88: 76-82.
34. Zahoor, I., Mitchell, M.A., Hall, S., Beard, P.M., Gous, R.M., De Koning, D.J. and Hocking, P.M., 2016. Predicted optimum ambient temperatures for broiler chickens to dissipate metabolic heat do not affect performance or improve breast muscle quality. British poultry science, 57(1): pp.134-141.
35. Zhang, X., Beuron, F. and Freemont, P.S. 2002. Machinery of protein folding and unfolding. Curr. opin. Struc. Biol, 12(2): 231-238.
36. Zhou, T., Liu, S., Geng, X., Jin, Y., Jiang, C., Bao, L., Yao, J., Zhang, Y., Zhang, J., Sun, L. and Wang, X., 2017. GWAS analysis of QTL for enteric septicemia of catfish and their involved genes suggest evolutionary conservation of a molecular mechanism of disease resistance. Molecular genetics and genomics, 292(1): pp.231-242.
Journal of Agricultural Science and Technology
Volume 23, Issue 2
March and April 2021
Pages 283-292