Association of SNP markers in different candidate genes with growth performance of Landrace × Ghurrah crossbred pigs

B C NAHA; G K GAUR; B L SAINI; N R SAHOO; S PANDA

doi:10.56093/ijans.v92i8.115103

Authors

B C NAHA Ph.D. Scholar, Division of Animal Genetics, ICAR-IVRI, Izatnagar-243122, India
G K GAUR Principal Scientist, Incahrge LPM, ICAR-Indian Veterinary Research Institute,Izatnagar, Bareilly, (U. P.) -243122, India
B L SAINI Ph.D. Scholar, Division of Animal Genetics, ICAR-IVRI, Izatnagar-243122, India
N R SAHOO Senior Scientist, ICAR- Directorate of Foot and Mouth Disease, Khordha, Odisha, India-752050, India
S PANDA Ph.D. Scholar, Division of Animal Genetics, ICAR-IVRI, Izatnagar-243122, India

https://doi.org/10.56093/ijans.v92i8.115103

Keywords:

Growth performance, Landlly crossbred pig, PCR-RFLP, SNP marker, Candidate genes.

Abstract

The objective of this study was to assess the polymorphic dispersion of SNP markers in candidate growth genes and their impact on growth performance of Landlly (Landrace × Ghurrah crossbred) pigs. PCR-RFLP procedure was utilized to differentiate the genotypes at marker loci. Most of the SNP loci [MC4R (AA, AG and GG); PGK2 (GG, GT and TT); CTSD (AA, AG and GG); CTSK (AA, AG and GG); SLC27A4 (AA, AG and GG); MYC (CC, CT and TT); and LEP (CC, CT and TT)] had 3 genotypes with varying frequency. Only 2 genotypes [AA (59%) and AG (41%)] were noticed for GHRL. IGF-1 and CTSZ SNPs were monomorphic for AA genotype. Allelic frequencies for these SNPs (MC4R, PGK2, CTSD, CTSK, CTSZ, SLC27A4, GHRL, MYC, IGF-1and LEP) were 0.51 and 0.49 (A/G), 0.66 and 0.34 (G/T), 0.55 and 0.45 (A/G), 0.48 and 0.52 (A/G), 1.00 (A), 0.69 and 0.31(A/G), 0.80 and 0.20 (A/G), 0.22 and 0.78 (C/T), 1.00 (A) and 0.47 and 0.53 (C/T), respectively. Impact of PGK2, CTSK, GHRL and LEP SNP was meaningful on the body weight at birth. MC4R had significant impact on body weight at 6 weeks. SLC27A4 and LEP SNP significantly affected body weight at 32 weeks. This investigation suggested MC4R, PGK2, CTSK, SLC27A4, GHRL and LEP SNPs as potential markers for improving growth performance in Landlly pigs.

Downloads

Download data is not yet available.

Author Biographies

B C NAHA, Ph.D. Scholar, Division of Animal Genetics, ICAR-IVRI, Izatnagar-243122, India

PhD scholar, AGB
G K GAUR, Principal Scientist, Incahrge LPM, ICAR-Indian Veterinary Research Institute,Izatnagar, Bareilly, (U. P.) -243122, India

LPM, Principal Scientist
B L SAINI, Ph.D. Scholar, Division of Animal Genetics, ICAR-IVRI, Izatnagar-243122, India

PhD scholar, AGB
N R SAHOO, Senior Scientist, ICAR- Directorate of Foot and Mouth Disease, Khordha, Odisha, India-752050, India

Senior Scientist
S PANDA, Ph.D. Scholar, Division of Animal Genetics, ICAR-IVRI, Izatnagar-243122, India

PhD scholar, AGB

References

Deoliveira-Peixoto J, Facioniguimaraes S E, Savio Lopes P, Soares M, Vieira Pires A, Barbosa G and De Almeidae Silva M. 2006. Associations of leptin gene polymorphisms with production traits in pigs. Journal of Animal Breeding and Genetics 123(6): 37–83. DOI: https://doi.org/10.1111/j.1439-0388.2006.00611.x

Dvořáková V, Stupka R, Šprysl M, Čítek J, Okrouhlá M, Kluzáková E and Kratochvílová H. 2011. Effect of the missense mutation Asp298Asn in MC4R on growth and fatness traits in commercial pig crosses in the Czech Republic. Czech Journal of Animal Science 56(4): 176–80. DOI: https://doi.org/10.17221/1305-CJAS

Fontanesi L, Scotti E, Buttazzoni L, Dall’Olio S, Davoli R and Russo V. 2010. A single nucleotide polymorphism in the porcine cathepsin K (CTSK) gene is associated with back fat thickness and production traits in Italian Duroc pigs. Molecular Biology Reports 37(1): 491–95. DOI: https://doi.org/10.1007/s11033-009-9678-0

Hao L L, Yu H, Zhang Y, Sun S C, Liu S C, Zeng Y Z and JiangH Z. 2011. Single nucleotide polymorphism analysis of exons 3 and 4 of IGF-1 gene in pigs. Genetics and Molecular Research 10: 1689–95. DOI: https://doi.org/10.4238/vol10-3gmr1328

Jang H C, Kim S W, Lim D J, Kim J Y, Cho K H, Kim M J, Lee J W, Choi B H and Kim T H. 2011. Association of single nucleotide polymorphism (SNP) in the PGK 2 gene with growth traits in pigs. Journal of Animal Science and Technology 53(1): 15–22. DOI: https://doi.org/10.5187/JAST.2011.53.1.15

Kim J, Lee J, Singh N, Choi S, Kim H, Park S and Lee S. 2015. Effects of 7 SNPs on growth and meat quality traits in F1 Landly of Korean native pig × Duroc. Indian Journal of Animal Sciences 85(4): 211–13.

Leite-Moreira A F, Rocha-Sousa A and Henriques-Coelho T. 2007. Cardiac, skeletal, andsmooth muscle regulation by ghrelin. Vitamins and Hormones 77: 207–38. DOI: https://doi.org/10.1016/S0083-6729(06)77009-1

Muñoz G, Alcázar E, Fernández A, Barragán C, Carrasco A, De Pedro E and Rodríguez M C. 2011. Effects of porcine MC4R and LEPR polymorphisms, gender and Duroc sire line on economic traits in Duroc × Iberian Landly pigs. Meat Science 88(1): 169–73. DOI: https://doi.org/10.1016/j.meatsci.2010.12.018

Octura J E R, Yambao R R C S, Santiago R C, Cho B W and Vega R S. 2014. Polymorphism in the melanocortin-4 receptor (MC4R) gene and its effect on fatness and weight performance of Philippine native pigs: A preliminary study. International Journal of Basic and Applied Sciences 15(1): 464–74.

Oh J D, Song K D, Caccho R G, Seong J, Choi E J, Yu M, Kim K, Kim T H, Kim S H, Kim E S and Lee H K. 2014. Association of a single nucleotide polymorphism (SNP) in porcine MYC gene with economic traits in pigs. Journal of Agriculture and Life Science 48(2): 111–21. DOI: https://doi.org/10.14397/jals.2014.48.2.111

Ropka-Molik K, Oczkowicz M, Piórkowska K, Różycki M, Romanek J and Natonek- Wiśniewska M. 2011. New polymorphisms and expression of the porcine ghrelin (GHRL) gene in different pig breeds. Journal of Animal and Feed Sciences 20(2). DOI: https://doi.org/10.22358/jafs/66170/2011

Russo V, Fontanesi L, Scotti E, Beretti F, Davoli R, Nanni Costa L, Virgili R and Buttazzoni L. 2008. Single nucleotide polymorphisms in several porcine cathepsin genes are associated with growth, carcass, and production traits in Italian Large White pigs. Journal of Animal Science 86(12): 3300–14. DOI: https://doi.org/10.2527/jas.2008-0920

Saini B L, Gaur G K, Sahoo N R, Mendiratta S K, Kumar A, Naha B C, Baranwal A, Yadav V and Jaiswal R K. 2018. Polymorphism distribution of RYR1, PRKAG3, HFABP, MYF-5 and MC4R genes in Landly pigs. Molecular Biology Reports 45(6): 1575–85. DOI: https://doi.org/10.1007/s11033-018-4263-z

Salajpal K, Dikic M, Karolyi D, Janjecic Z and Juric I. 2009. The effect of MC4R polymorphism on carcass composition and meat quality traits in pigs slaughter at different live weights. Italian Journal of Animal Science 8: 98–100. DOI: https://doi.org/10.4081/ijas.2009.s3.98

Sambrook J, Russell D and Russell D W. 2001. Molecular Cloning: A Laboratory Manual. Cold Spring Harbor Laboratory Press, New York.

Wang W, Xue W, Zhou X, Zhang L, Wu J, Qu L, Jin B, Zhang X, Ma F and Xu X. 2012. Effects of candidate gene’s polymorphisms on meat quality traits in pigs. Acta Agriculturae Scandinavica, Section A–Animal Science 62(3): 120–26. DOI: https://doi.org/10.1080/09064702.2013.765907

Xu Z Y, Xiong Y Z, Lei M G, Li F E and Zuo B. 2009. Genetic polymorphisms and preliminary association analysis with production traits of the porcine SLC27A4 gene. Molecular Biology Reports 36(6): 1427–32. DOI: https://doi.org/10.1007/s11033-008-9332-2