Identification and association analysis of PELP1, RFC2 and ABHD11 polymorphisms with bodyweight and backfat thickness in large white Yorkshire pigs
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DOI:
https://doi.org/10.56093/ijans.v96i5.168950Keywords:
ABHD11, HRM analysis, LWY pigs, PELP1, RFC2, SNPAbstract
Genetic markers play a crucial role in enhancing selective breeding strategies for economically important traits in livestock. This study aimed to investigate the genetic variability and functional significance of single nucleotide polymorphisms (SNPs) in three candidate genes—PELP1 RFC2, and ABHD11 and their association with growth performance traits in the Large White Yorkshire (LWY) pig population of Kerala. High-resolution melting (HRM) analysis followed by Sanger sequencing was employed to detect SNPs in the coding regions of the selected genes. Identified SNPs were evaluated for their potential impact on protein function and genotypic variation. Association analysis was performed using multinomial logistic regression to assess the relationship between gene polymorphisms and phenotypic traits such as body weight and backfat thickness. Three non-synonymous SNPs were identified: c.3514G>A in PELP1, c.905G>A in RFC2, and c.953A>G in ABHD11. Association analysis revealed significant correlations between the RFC2 GA and ABHD11 AA genotypes and higher body weight, suggesting a potential role in growth performance. No significant association was observed between PELP1 polymorphism and either body weight or backfat thickness. These findings suggested that RFC2 and ABHD11 polymorphisms may serve as valuable molecular markers for selection in pig breeding programs.
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Arya M, Srinivasan M and Rajasekharan R. 2017. Human alpha beta hydrolase domain containing protein 11 and its yeast homolog are lipid hydrolases. Biochemical and Biophysical Research Communications 487: 875–880. DOI: https://doi.org/10.1016/j.bbrc.2017.04.145
Bahmad H F, Daouk R, Azar J, Sapudom J, Teo J C, Abou-Kheir W and AlSayegh M. 2020. Modeling adipogenesis: current and future perspective. Cells 9: 2326. DOI: https://doi.org/10.3390/cells9102326
BAHS. 2024. Basic Animal Husbandry and Fisheries Statistics. India. Ministry of Agricultural and Farmers Welfare, Department of Animal Husbandry, Dairying and Fisheries, New Delhi.
Bailey P S, Ortmann B M, Martinelli AW, Houghton J W, Costa A S, Burr S P, Antrobus R, Frezza C and Nathan J A. 2020. ABHD11 maintains 2-oxoglutarate metabolism by preserving functional lipoylation of the 2-oxoglutarate dehydrogenase complex. Nature Communications 11: 4046. DOI: https://doi.org/10.1038/s41467-020-17862-6
Ballester M, Jove-Junca T, Pascual A, López-Serrano S, Crespo- Piazuelo D, Hernández-Banqué C, González-Rodríguez O, Ramayo-Caldas Y, Quintanilla R. 2023. Genetic architecture of innate and adaptive immune cells in pigs. Frontiers in Immunology 14: 1058346. DOI: https://doi.org/10.3389/fimmu.2023.1058346
Bharati J, De K, Paul S, Kumar S, Yadav A K, Doley J, Mohan N H, Das B C. 2022. Mobilizing pig resources for capacity development and livelihood security. In Agriculture, Livestock Production and Aquaculture: Advances for Smallholder Farming Systems. Springer International Publishing. DOI: https://doi.org/10.1007/978-3-030-93262-6_12
Brown J M, Martinez K, Betters J, Shores N, Rudel L L, McIntosh M K and Thomas G. 2012. Regulation of the alpha beta hydrolase domain (ABHD) protein family in murine and human obesity. Experimental Biology 26: 597.4–597.4. DOI: https://doi.org/10.1096/fasebj.26.1_supplement.597.4
Chen C W, Wang H L, Huang C W, Huang C Y, Lim W K, Tu I C, Koorapati A, Hsieh S T, Kan H W, Tzeng S R and Liao J C. 2019. Two separate functions of NME3 critical for cell survival underlie a neurodegenerative disorder. Proceedings of the National Academy of Sciences of the United States of America 116: 566–574. DOI: https://doi.org/10.1073/pnas.1818629116
Escoubet J, Kenigsberg M, Derock M, Yaligara V, Bock M D, Roche S, Massey F, de Foucauld H, Bettembourg C, Olivier A and Berthemy A. 2020. ABHD11, a new diacylglycerol lipase involved in weight gain regulation. PLoS One 15: e0234780. DOI: https://doi.org/10.1371/journal.pone.0234780
Fontanesi L, Galimberti G, Calo D G, Fronza R, Martelli P L, Scotti E, Colombo M, Schiavo G, Casadio R, Buttazzoni L and Russo V. 2012. Identification and association analysis of several hundred single nucleotide polymorphisms within candidate genes for back fat thickness in Italian Large White pigs using a selective genotyping approach. Journal of Animal Science 90: 2450–2464. DOI: https://doi.org/10.2527/jas.2011-4797
Gray F C, Whitehead K A and MacNeill S A. 2009. Inactivating pentapeptide insertions in the fission yeast replication factor C subunit Rfc2 cluster near the ATP-binding site and arginine finger motif. FEBS Journal 276: 4803–4813. DOI: https://doi.org/10.1111/j.1742-4658.2009.07181.x
Junghans P, Beyer M, Metges C C, Kaehne T and Schwerin M. 2004. Dietary protein-related changes in hepatic transcription correspond to modifications in hepatic protein expression in growing pigs. Journal of Nutrition 134: 43–47. DOI: https://doi.org/10.1093/jn/134.1.43
Liu G, Ruan Y, Zhang J, Wang X, Wu W, He P, Wang J, Xiong J, Cheng Y, Liu L and Yang Y. 2020. ABHD11 is critical for embryonic stem cell expansion, differentiation, and lipid metabolic homeostasis. Frontiers in Cell and Developmental Biology 8: 570. DOI: https://doi.org/10.3389/fcell.2020.00570
Moseti D, Regassa A and Kim W K. 2016. Molecular regulation of adipogenesis and potential anti-adipogenic bioactive molecules. International Journal of Molecular Sciences 17: 124. DOI: https://doi.org/10.3390/ijms17010124
Rajak SK, Kumar S, Bharati J, Kumar A, Sharnam K S, Rani D. 2024. Pig production and livelihood security. In: Good Practices and Principles in Pig Farming. Springer Nature Singapore. DOI: https://doi.org/10.1007/978-981-97-4665-1_5
Ruan D, Zhuang Z, Ding R, Qiu Y, Zhou S, Wu J, Xu C, Hong L, Huang S, Zheng E and Cai G. 2021. Weighted single-step GWAS identified candidate genes associated with growth traits in a Duroc pig population. Genes 12:117. DOI: https://doi.org/10.3390/genes12010117
Tang Z, Xu J, Yin L, Yin D, Zhu M, Yu M, Li X, Zhao S and Liu X. 2019. Genome-wide association study reveals candidate genes for growth relevant traits in pigs. Frontiers in Genetics 10:302. DOI: https://doi.org/10.3389/fgene.2019.00302
Tummaruk P, Tantasuparuk W, Techakumphu M and Kunavongkrit A. 2009. The association between growth rate, body weight, backfat thickness, and age at first observed oestrus in crossbred Landrace × Yorkshire gilts. Animal Reproduction Science 110: 108–122. DOI: https://doi.org/10.1016/j.anireprosci.2008.01.004
Sadan T. 2025. Comparative transcriptome analysis of skeletal muscle of large white yorkshire, desi and wild pigs in Kerala. PhD thesis, Kerala Veterinary and Animal Sciences University, Pookode, Kerala, India.
Sambrook J, Russell D W. 2006. Rapid isolation of mammalian DNA. Cold Spring Harbor Protocols. DOI: https://doi.org/10.1101/pdb.prot3514
Uemoto Y, Ichinoseki K, Matsumoto T, Oka N, Takamori H, Kadowaki H, Kojima-Shibata C, Suzuki E, Okamura T, Aso H and Kitazawa H.2021. Genome-wide association studies for production, respiratory disease, and immune-related traits in Landrace pigs. Scientific Reports 11: 15823. DOI: https://doi.org/10.1038/s41598-021-95339-2
Wei X, Shu Z, Wang L, Zhang T, Zhang L, Hou X, Yan H and Wang L. 2022. Copy number variations contribute to intramuscular fat content differences by affecting the expression of PELP1 alternative splices in pigs. Animals 12: 1382. DOI: https://doi.org/10.3390/ani12111382
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