Abstract
The IGF-I is a significant peptide hormone to cell growth, development, reproduction, and metabolism of teleost fish. This study was conducted to investigate the IGF-I gene polymorphism and to reveal the association between the genotypes of IGF-I gene and growth traits in 80 harvest size European sea bass (Dicentrarchus labrax, L.) reared in İzmir region of Turkey. The 821 bp long exon 1 and 5’ UTR regions of IGF-I gene were amplified, and PCR products were analyzed via DNA sequencing method. Two novel single nucleotide polymorphisms (SNPs) such as g.46672A > G and g.46749C > T in the 5’ UTR region of IGF-I gene in the European sea bass were detected for the first time with this study. Associations between the genotypes of IGF-I g.46749C > T locus and body weight were found statistically significant (p < 0.05). The genotypes of IGF-I g.46749C > T and g.46672A > G loci were found significantly associated with total length (p < 0.05). However, both loci did not show significant associations with body width. The studied gene region sequences were entered to NCBI GenBank database with the accession numbers: MK621680-MK621682. Thus, these polymorphisms have a significant effect on the body weight and total length which could be useful for sea bass selection and breeding for marker-assisted selection (MAS) program.
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Abdalhag MA, Li T, Duan L, Zhang T, Zhang G, Wang J, Wang Y (2016) Association analysis of IGF-I gene expression with growth and reproductive traits in Jinghai yellow chickens. Genet Mol Res 15(4). https://doi.org/10.4238/gmr15049205
Barrett LW, Fletcher S, Wilton SD (2012) Regulation of eukaryotic gene expression by the untranslated gene regions and other non-coding elements. Cell Mol Life Sci 69(21):3613–3634. https://doi.org/10.1007/s00018-012-0990-9
Bhattacharya TK, Chatterjee RN, Dushyanth K, Paswan C, Shukla R, Shanmugam M (2015) Polymorphism and expression of insulin-like growth factor 1 (IGF1) gene and its association with growth traits in chicken. Br Poult Sci 56(4):398–407. https://doi.org/10.1080/00071668.2015.1041098
Butler AA, Le Roith D (2001) Control of growth by the somatropic axis: growth hormone and the insulin-like growth factors have related and independent roles. Ann Rev Physiol 63(1):141–164. https://doi.org/10.1146/annurev.physiol.63.1.141
Buyse J, Decuypere E (1999) The role of the somatotrophic axis in the metabolism of the chicken. Domest Anim Endocrinol 17:245–255. https://doi.org/10.1016/s0739-7240(99)00041-7
Chitnis MM, Yuen JS, Protheroe AS, Pollak M, Macaulay VM (2008) The type 1 insulin-like growth factor receptor pathway. Clin Cancer Res 14(20):6364–6370. https://doi.org/10.1158/1078-0432.CCR-07-4879
De-Santis C, Jerry DR (2007) Candidate growth genes in finfish–where should we be looking? Aquaculture 272:22–38. https://doi.org/10.1016/j.aquaculture.2007.08.036
Dupont-Nivet M, Karahan-Nomm B, Vergnet A, Merdy O, Haffray P, Chavanne H, Chatain B, Vandeputte M (2010) Genotype by environment interactions for growth in European seabass (Dicentrarchus labrax) are large when growth rate rather than weight is considered. Aquaculture 306(1–4):365–368. https://doi.org/10.1016/j.aquaculture.2010.05.025
Elabd H, Soror E, El-Asely A, El-Gawad EA, Abbass A (2019) Dietary supplementation of Moringa leaf meal for Nile tilapia Oreochromis niloticus: effect on growth and stress indices. Egypt J Aquat Res 45(3):265–271. https://doi.org/10.1016/j.ejar.2019.05.009
FAO (2017). Food and agriculture organization. Fisheries and Aquaculture Department, http://www.fao.org/fishery/statistics/global-aquaculture-production/query/en. Accessed 5 Sep 2019
Feng X, Yu X, Tong J (2014) Novel single nucleotide polymorphisms of the insulin-like growth factor-I gene and their associations with growth traits in common carp (Cyprinus carpio L.). Int J Mol Sci 15(12):22471–22482. https://doi.org/10.3390/ijms151222471
Ge W, Davis ME, Hines HC, Irvin KM, Simmen RCM (2001) Association of a genetic marker with blood serum insulin-like growth factor-I concentration and growth traits in Angus cattle. J Anim Sci 79:1757–1762. https://doi.org/10.2527/2001.7971757x
Gjedrem T, Rye M (2018) Selection response in fish and shellfish: a review. Rev Aquacult 10:168–179. https://doi.org/10.1111/raq.12154
Grochowska E, Borys B, Janiszewski P, Knapik J, Mroczkowski S (2017) Effect of the IGF-I gene polymorphism on growth, body size, carcass and meat quality traits in coloured polish merino sheep. Arch Anim Breed 60:161–173. https://doi.org/10.5194/aab-60-161-2017
Gui LS, Wang ZY, Jia JL, Zhang CT, Chen YZ, Hou SZ (2018) IGF-1 gene polymorphisms influence bovine growth traits in Chinese Qinchuan cattle. Kafkas Univ Vet Fak Derg 24(3). https://doi.org/10.9775/kvfd.2017.19036
Hall T (2011) BioEdit: an important software for molecular biology. GERF Bull Biosci 2(1):60–61
Hasegawa M, Kishino H, Yano T (1985) Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. J Mol Evol 22:160–174
Hu X, Li C, Shi L (2013) A novel 79-bp insertion/deletion polymorphism in 3′-flanking region of IGF-I gene is associated with growth-related traits in common carp (Cyprinus carpio L.). Aquac Res 44(10):1632–1638
Hua YM, Lin HR (1997) Proceeding of studies of insulin-like growth factor-I (IGF-I) in fishes. J Fish China 21:327–335 (in Chinese with English abstract)
Johnson RA, Bhattacharyya GK (2010) Statistics principles and methods, 6th edn. Wiley, Hoboken
Kumar S, Stecher G, Tamura K (2016) MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 33(7):1870–1874. https://doi.org/10.1093/molbev/msw054
Li X, Bai J, Ye X, Hu Y, Li S, Yu L (2009) Polymorphisms in the 5′ flanking region of the insulin-like growth factor I gene are associated with growth traits in largemouth bass Micropterus salmoides. Fish Sci 75:351–358. https://doi.org/10.1007/s12562-008-0051-3
McMenamin SK, Parichy DM (2013) Metamorphosis in teleost. Curr Top Dev Biol 103:127–165. https://doi.org/10.1016/B978-0-12-385979-2.00005-8
Meira AN, Montenegro H, Coutinho LL, Mourão GB, Azevedo HC, Muniz EN, Machado AL, Sousa-Jr LP, Pedrosa VB, Pinto LFB (2019) Single nucleotide polymorphisms in the growth hormone and IGF type-1 (IGF1) genes associated with carcass traits in Santa Ines sheep. Animal 13(3):460–468. https://doi.org/10.1017/S1751731118001362
Meymand Z, Yeganeh S, Rahimi-Mianji G, Farhadi A (2017) Insulin-like growth factor I gene polymorphism associated with growth traits in beluga (Huso huso) fish. Iran J Fish Sci 16(4):1257–1266
NCBI: https://www.ncbi.nlm.nih.gov/nuccore/MK621682.1. Access: 11 June 2019
Negahdary M, Hajihosseinlo A, Ajdary M (2013) PCR-SSCP variation of IGF1 and PIT1 genes and their association with estimated breeding values of growth traits in Makooei sheep. Genet Res Int 2013. https://doi.org/10.1155/2013/272346
Quéré N, Guinand B, Kuhl H, Reinhardt R, Bonhomme F, Desmarais E (2010) Genomic sequences and genetic differentiation at associated tandem repeat markers in growth hormone, somatolactin and insulin-like growth factor-1 genes of the sea bass, Dicentrarchus labrax. Aquat Living Resour 23(3):285–296. https://doi.org/10.1051/alr/2010021
Reinecke M (2010) Insulin-like growth factors and fish reproduction. Biol Reprod 82(4):656–661. https://doi.org/10.1095/biolreprod.109.080093
Reyna XF, Montoya HM, Castrellón VV, Rincón AM, Bracamonte MP, Vera WA (2010) Polymorphisms in IGF-1 gene and its effect on growth traits in Mexican beef cattle. Genet Mol Res 9(2):875–883. https://doi.org/10.4238/vol9-2gmr745
Robledo D, Fernández C, Hermida M, Sciara A, Álvarez-Dio J, Cabaleiro S, Caamaño R, Martínez P, Bouza C (2016) Integrative transcriptome, genome and quantitative trait loci resources identify single nucleotide polymorphisms in candidate genes for growth traits in turbot. Int J Mol Sci 17(2):243. https://doi.org/10.3390/ijms17020243
Rui L, Wei-Chang C, Wei-Peng W, Wen-Yan T, Xue-Guang Z (2010) Antioxidant activity of Astragalus polysaccharides and antitumor activity of the polysaccharides and siRNA. Carbohydr Polym 82:240–244. https://doi.org/10.1016/j.carbpol.2010.02.048
Sankhyan V, Thakur YP, Dogra PK (2019) Genetic polymorphism in IGF-1 gene in four sheep and goat breeds and its association with biometrical traits in migratory Gaddi goat breed of western Himalayan state of Himachal Pradesh, India. Indian J Anim Res. https://doi.org/10.18805/ijar.B-3795
Sparkman AM, Schwartz TS, Madden JA, Boyken SE, Ford NB, Serb JM, Bronikowski AM (2012) Rates of molecular evolution vary in vertebrates for insulin-like growth factor-1 (IGF-1), a pleiotropic locus that regulates life history traits. Gen Comp Endocr 178(1):164–173. https://doi.org/10.1016/j.ygcen.2012.04.022
Tamura K, Nei M, Kumar S (2004) Prospects for inferring very large phylogenies by using the neighbour-joining method. Proc Natl Acad Sci U S A 101:11030e5. https://doi.org/10.1073/pnas.0404206101
Terova G, Rimoldi S, Chini V, Gornati R, Bernardini G, Saroglia M (2007) Cloning and expression analysis of insulin-like growth factor I and II in liver and muscle of sea bass (Dicentrarchus labrax, L.) during long-term fasting and refeeding. J Fish Biol 70:219–233. https://doi.org/10.1111/j.1095-8649.2007.01402.x
Thomas N, Venkatachalapathy T, Aravindakshan T, Raghavan KC (2016) Molecular cloning, SNP detection and association analysis of 5′ flanking region of the goat IGF1 gene with prolificacy. Anim Reprod Sci 167:8–15. https://doi.org/10.1016/j.anireprosci.2016.01.016
Thornton PK (2010) Livestock production: recent trends, future prospects. Philos Trans R Soc Lond Ser B Biol Sci 365(1554):2853–2867. https://doi.org/10.1098/rstb.2010.0134
Tian C, Yang ML, Lv L, Yuan Y, Liang X, Guo W, Song Y, Zhao C (2014) Single nucleotide polymorphisms in growth hormone gene and their association with growth traits in Siniperca chuatsi (Basilewsky). Int J Mol Sci 15:7029–7036. https://doi.org/10.3390/ijms15047029
Tsai HY, Hamilton A, Guy DR, Houston RD (2014) Single nucleotide polymorphisms in the insulin-like growth factor 1 (IGF1) gene are associated with growth related traits in farmed Atlantic salmon. Anim Genet 45:709–715. https://doi.org/10.1111/age.12202
Vandeputte M, Kocour M, Mauger S, Dupont-Nivet M, De Guerry D, Rodina M, Gela D, Vallod D, Chevassus B, Linhart O (2004) Heritability estimates for growth-related traits using microsatellite parentage assignment in juvenile common carp (Cyprinus carpio L.). Aquaculture 235(1–4):223–236. https://doi.org/10.1016/j.aquaculture.2003.12.019
Vandeputte M, Kocour M, Mauger S, Rodina M, Launay A, Gela D, Dupont-Nivet M, Hulak M, Linhart O (2008) Genetic variation for growth at one and two summers of age in the common carp (Cyprinus carpio L.): heritability estimates and response to selection. Aquaculture 277(1–2):7–13. https://doi.org/10.1016/j.aquaculture.2008.02.009
Vandeputte M, Gagnaire PA, Allal F (2019) The European sea bass: a key marine fish model in the wild and in aquaculture. Anim Genet 50(3):195–206. https://doi.org/10.1111/age.12779
Wang H, Sun J, Lu X, Wang P, Xu P, Zeng L, Yu D, Li G (2013) Identification of insulin-like growth factor I gene polymorphisms using high-resolution melting and its effect on growth traits in sinipercid species. Fish Sci 79(3):439–446. https://doi.org/10.1007/s12562-013-0607-8
Yeh F, Yang RC, Boyle T (2000) Popgene (v.1.32), Microsoft windows-based freeware for population genetic analysis. http://www.ualberta.ca/~fyeh/Pop32.exe. Accessed 11 Aug 2019
Yue M, Tian YG, Wang YJ, Gu Y, Bayaer N, Hu Q, Gu WW (2014) Associated analysis of single nucleotide polymorphisms found on exon 3 of the IGF-1 gene with Tibetan miniature pig growth traits. Genet Mol Res 13(1):1263–1269. https://doi.org/10.4238/2014.February.27.11
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EÖG developed the research topic and acted as study principal investigator (PI). RI acted as co-PI. EÖG and RI collected genetic data, performed statistical analysis, and wrote the manuscript.
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Özcan Gökçek, E., Işık, R. Associations between genetic variants of the insulin-like growth factor I (IGF-I) gene and growth traits in European sea bass (Dicentrarchus labrax, L.). Fish Physiol Biochem 46, 1131–1138 (2020). https://doi.org/10.1007/s10695-020-00779-8
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DOI: https://doi.org/10.1007/s10695-020-00779-8