Hostname: page-component-848d4c4894-tn8tq Total loading time: 0 Render date: 2024-06-23T00:59:03.811Z Has data issue: false hasContentIssue false
  • English
  • Français

Association study highlights the influence of ELOVL fatty acid elongase 6 gene region on backfat fatty acid composition in Large White pig breed

Published online by Cambridge University Press:  27 March 2018

M. Zappaterra ,
R. Ros-Freixedes ,
J. Estany  and
R. Davoli
M. Zappaterra
Affiliation:
Department of Agricultural and Food Sciences (DISTAL), University of Bologna, Viale Fanin 46, 40127, Bologna,Italy
R. Ros-Freixedes
Affiliation:
Department of Animal Science, University of Lleida,Alcalde Rovira Roure Ave 191, E-25198, Lleida, Catalonia, Spain
J. Estany
Affiliation:
Department of Animal Science, University of Lleida,Alcalde Rovira Roure Ave 191, E-25198, Lleida, Catalonia, Spain
R. Davoli*
Affiliation:
Department of Agricultural and Food Sciences (DISTAL), University of Bologna, Viale Fanin 46, 40127, Bologna,Italy
*
†E-mail: roberta.davoli@unibo.it
Get access

Abstract

Dietary fatty acid (FA) composition has an impact on human health. There is an increasing request from consumers for healthier food and pork industry must respond to it without worsening performance and the technological properties of pork products. The inclusion of genetic markers for carcass FA composition in pig selection schemes could be a useful tool to reach the right balance between unsaturated and saturated FAs to satisfy market demands. With the aim of finding genomic regions associated with porcine backfat FA composition, a genome-wide association study was performed on 798 Italian Large White pigs genotyped using Illumina PorcineSNP60 k. The strongest associations with backfat contents of palmitic, palmitoleic, oleic, medium-chain and long-chain FAs were found for the Sus scrofa chromosome (SSC) 8 region located at 119 to 122 Mb, where the gene ELOVL FA elongase 6 is mapped. Palmitic, palmitoleic, stearic and oleic acid contents were also found associated with SSC14, in particular with the genomic region at 121 to 124 Mb, where stearoyl-CoA desaturase Δ9 gene lies. On the other hand, the genomic regions associated with backfat contents of arachidic, arachidonic, n-6 and n-3 FAs showed to harbour mainly genes involved in dietary lipids and carbohydrates digestion, absorption and utilisation. To our knowledge, this is the first study performed in Large White pigs identifying markers and genomic regions associated with backfat FA composition. The results validate in Large White some associations previously detected in other pig breeds and indicate the involvement of distinct metabolic pathways in the deposition pattern of essential and non-essential FAs.

Keywords

genetic markersgenome-wide association studyBayesian approachstearoyl-CoA desaturasesubcutaneous fat
Type
Research Article
Information
animal , Volume 12 , Issue 12 , December 2018 , pp. 2443 - 2452
Copyright
© The Animal Consortium 2018 

Access options

Get access to the full version of this content by using one of the access options below. (Log in options will check for institutional or personal access. Content may require purchase if you do not have access.)

Footnotes

a

Present address: The Roslin Institute and Royal (Dick) School of Veterinary Studies, The University of Edinburgh, Easter Bush, Midlothian, EH25 9RG, Scotland, UK.

References

Aulchenko, YS, De Koning, DJ and Haley, C 2007. Genomewide rapid association using mixed model and regression: a fast and simple method for genomewide pedigree-based quantitative trait loci association analysis. Genetics 177, 577–585.Google Scholar
Behar, DM, Basel-Vanagaite, L, Glaser, F, Kaplan, M, Tzur, S, Magal, N, Eidlitz-Markus, T, Haimi-Cohen, Y, Sarig, G, Bormans, C, Shohat, M and Zeharia, A 2014. Identification of a novel mutation in the PNLIP gene in two brothers with congenital pancreatic lipase deficiency. Journal of Lipid Research 55, 307–312.Google Scholar
Berton, A, Sebban-Kreuzer, C, Rouvellac, S, Lopez, C and Crenon, I 2009. Individual and combined action of pancreatic lipase and pancreatic lipase-related proteins 1 and 2 on native versus homogenized milk fat globules. Molecular Nutrition & Food Research 53, 1592–1602.Google Scholar
Blasco, A 2012. The program “Rabbit”. Retrieved on 13 January 2017 from http://www.dcam.upv.es/dcia/ablasco/Programas/THE%20PROGRAM%20Rabbit.pdf.Google Scholar
Bosi, P, Cacciavillani, JA, Casini, L, Lo Fiego, DP, Marchetti, M and Mattuzzi, S 2000. Effects of dietary high-oleic acid sunflower oil, copper and vitamin E levels on the fatty acid composition and the quality of dry cured Parma ham. Meat Science 54, 119–126.Google Scholar
Browning, BL and Browning, SR 2009. A unified approach to genotype imputation and haplotype-phase inference for large data sets of trios and unrelated individuals. American Journal of Human Genetics 84, 210–223.Google Scholar
Corominas, J, Marchesi, JA, Puig-Oliveras, A, Revilla, M, Estellé, J, Alves, E, Folch, JM and Ballester, M 2015. Epigenetic regulation of the ELOVL6 gene is associated with a major QTL effect on fatty acid composition in pigs. Genetics Selection Evolution 47, 20.Google Scholar
Corominas, J, Ramayo-Caldas, Y, Puig-Oliveras, A, Pérez-Montarelo, D, Noguera, JL, Folch, JM and Ballester, M 2013. Polymorphism in the ELOVL6 gene is associated with a major QTL effect on fatty acid composition in pigs. PLoS ONE 8, e53687.Google Scholar
Davoli, R, Gaffo, E, Zappaterra, M, Bortoluzzi, S and Zambonelli, P 2018. Identification of differentially expressed small RNAs and prediction of target genes in Italian Large White pigs with divergent backfat deposition. Animal Genetics, https://doi.org/10.1111/age.12646, Published online by Wiley Online Library 10 January 2018.Google Scholar
Fabregat, A, Sidiropoulos, K, Garapati, P, Gillespie, M, Hausmann, K, Haw, R, Jassal, B, Jupe, S, Korninger, F, McKay, S, Matthews, L, May, B, Milacic, M, Rothfels, K, Shamovsky, V, Webber, M, Weiser, J, Williams, M, Wu, G, Stein, L, Hermjakob, H and D’Eustachio, P 2016. The Reactome pathway Knowledgebase. Nucleic Acids Research 44, D481–D487.Google Scholar
Fernando, RL and Garrick, DJ 2008. GenSel—user manual for a portfolio of genomic selection related analyses. Retrieved on 15 May 2015 from https://github.com/austin-putz/GenSel.Google Scholar
Fernando, RL, Toosi, A, Wolc, A, Garrick, DJ and Dekkers, J 2017. Application of whole-genome prediction methods for genome-wide association studies: a Bayesian approach. Journal of Agricultural, Biological, and Environmental Statistics 22, 172–193.Google Scholar
Galesloot, TE, van Steen, K, Kiemeney, LA, Janss, LL and Vermeulen, SH 2014. A comparison of multivariate genome-wide association methods. PLoS ONE 9, e95923.Google Scholar
Guo, X, Su, G, Christensen, OF, Janss, L and Lund, MS 2016. Genome-wide association analyses using a Bayesian approach for litter size and piglet mortality in Danish Landrace and Yorkshire pigs. BMC Genomics 17, 468.Google Scholar
Hu, ZL, Park, CA and Reecy, JM 2016. Developmental progress and current status of the Animal QTLdb. Nucleic Acids Research 44, D827–D833.Google Scholar
Kanehisa, M, Sato, Y, Kawashima, M, Furumichi, M and Tanabe, M 2016. KEGG as a reference resource for gene and protein annotation. Nucleic Acids Research 44, D457–D462.Google Scholar
Kass, RE and Raftery, AE 1995. Bayes factors. Journal of the American Statistical Association 90, 773–795.Google Scholar
Kuleshov, MV, Jones, MR, Rouillard, AD, Fernandez, NF, Duan, Q, Wang, Z, Koplev, S, Jenkins, SL, Jagodnik, KM, Lachmann, A, McDermott, MG, Monteiro, CD, Gundersen, GW and Ma’ayan, A 2016. Enrichr: a comprehensive gene set enrichment analysis web server 2016 update. Nucleic Acids Research 44, W90–W97.Google Scholar
Legarra, A, Varona, L and Lopez de Maturana, E 2011. TM. Retrieved on 26 February 2017 from http://genoweb.toulouse.inra.fr/~alegarra/tm_folder/manualtm.pdf.Google Scholar
Muñoz, M, Rodríguez, MC, Alves, E, Folch, JM, Ibañez-Escriche, N, Silió, L and Fernández, AI 2013. Genome-wide analysis of porcine backfat and intramuscular fat fatty acid composition using high-density genotyping and expression data. BMC Genomics 14, 845.Google Scholar
Murrieta, CM, Hess, BW and Rule, DC 2003. Comparison of acidic and alkaline catalysts for preparation of fatty acid methyl esters from ovine muscle with emphasis on conjugated linoleic acid. Meat Science 65, 523–529.Google Scholar
Purcell, S, Neale, B, Todd-Brown, K, Thomas, L, Ferreira, MAR, Bender, D, Maller, J, Sklar, P, de Bakker, PIW, Daly, MJ and Sham, PC 2007. PLINK: a tool set for whole-genome association and population-based linkage analyses. American Journal of Human Genetics 81, 559–575.Google Scholar
Reyer, H, Hawken, R, Murani, E, Ponsuksili, S and Wimmers, K 2015. The genetics of feed conversion efficiency traits in a commercial broiler line. Scientific Reports 5, 16387.Google Scholar
Revilla, M, Ramayo-Caldas, Y, Castelló, A, Corominas, J, Puig-Oliveras, A, Ibáñez-Escriche, N, Muñoz, M, Ballester, M and Folch, JM 2014. New insight into the SSC8 genetic determination of fatty acid composition in pigs. Genetics, Selection, Evolution 46, 28.Google Scholar
Ros-Freixedes, R, Gol, S, Pena, RN, Tor, M, Ibáñez-Escriche, N, Dekkers, JCM and Estany, J 2016. Genome-wide association study singles out SCD and LEPR as the two main loci influencing intramuscular fat content and fatty acid composition in Duroc pigs. PLoS ONE 11, e0152496.Google Scholar
Schwingshackl, L and Hoffmann, G 2012. Monounsaturated fatty acids and risk of cardiovascular disease: synopsis of the evidence available from systematic reviews and meta-analyses. Nutrients 4, 1989–2007.Google Scholar
Shackelford, SD, Miller, MF, Haydon, KD, Lovegren, NV, Lyon, CE and Reagan, JO 1990. Acceptability of bacon as influenced by the feeding of elevated levels of monounsaturated fats to growing-finishing swine. Journal of Food Science 55, 621–624.Google Scholar
Uemoto, Y, Nakano, H, Kikuchi, T, Sato, S, Ishida, M, Shibata, T, Kadowaki, H, Kobayashi, E and Suzuki, K 2011. Fine mapping of porcine SSC14 QTL and SCD gene effects on fatty acid composition and melting point of fat in a Duroc purebred population. Animal Genetics 43, 225–228.Google Scholar
van Son, M, Enger, EG, Grove, H, Ros-Freixedes, R, Kent, MP, Lien, S and Grindflek, E 2017. Genome-wide association study confirm major QTL for backfat fatty acid composition on SSC14 in Duroc pigs. BMC Genomics 18, 369.Google Scholar
Wang, Q, Li, YC, Wang, J, Kong, J, Qi, Y, Quigg, RJ and Li, X 2008. miR-17-92 cluster accelerates adipocyte differentiation by negatively regulating tumor-suppressor Rb2/p130. Proceedings of the National Academy of Sciences of the United States of America 105, 2889–2894.Google Scholar
WHO 2003. Diet, nutrition and the prevention of chronic diseases. Report of a joint WHO/FAO Expert Consultation. WHO Technical Report Series 916, Geneva, Switzerland.Google Scholar
Wood, JD, Enser, M, Fisher, AV, Nute, GR, Sheard, PR, Richardson, RI, Hughes, SI and Whittington, FM 2008. Fat deposition, fatty acid composition and meat quality: a review. Meat Science 78, 343–358.Google Scholar
Yang, B, Zhang, W, Zhang, Z, Fan, Y, Xie, X, Ai, H, Ma, J, Xiao, S, Huang, L and Ren, J 2013. Genome-wide association analyses for fatty acid composition in porcine muscle and abdominal fat tissues. PLoS ONE 8, e65554.Google Scholar
Yeung, F, Ramírez, CM, Mateos-Gomez, PA, Pinzaru, A, Ceccarini, G, Kabir, S, Fernández-Hernando, C and Sfeir, A 2013. Nontelomeric role for Rap1 in regulating metabolism and protecting against obesity. Cell Reports 3, 1847–1856.Google Scholar
Zhang, W, Zhang, J, Cui, L, Ma, J, Chen, C, Ai, H, Xie, X, Li, L, Xiao, S, Huang, L, Ren, J and Yang, B 2016. Genetic architecture of fatty acid composition in the longissimus dorsi muscle revealed by genome-wide association studies on diverse pig populations. Genetics, Selection, Evolution 48, 5.Google Scholar
Supplementary material: File

Zappaterra et al. supplementary material

Zappaterra et al. supplementary material 1

Download Zappaterra et al. supplementary material(File)
File 105.7 KB