Screening of SNP of MYF6 Gene in Nile Tilapia (Oreochromis niloticus) and Its Association Analysis with Growth Traits
GAO Feng-Ying1, TONG Yan-Nan2, LIU Zhi-Gang1, CAO Jian-Meng1, WANG Miao1, YI Meng-Meng1, KE Xiao-Li1,*, LU Mai-Xin1, ZHU Hai2,*
1 Key Laboratory of Tropical & Subtropical Fishery Resource Application & Cultivation, Ministry of Agriculture/Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510380, China; 2 Hainan Academy of Ocean and Fisheries Science, Haikou 570206, China
Abstract The myogenic factor 6 (MYF6) is integral to the initiation and development of skeletal muscle and the phenotype maintenance. Thus, it is candidate gene for growth-related traits. The objectives of this study were to investigate SNPs in MYF6 gene and to evaluate whether these polymorphisms were associated with growth-related traits in Nile tilapia (Oreochromis niloticus). Initially, the SNPs of MYF5 gene were screeded by PCR and Sanger sequencing, and they were confirmed by Sanger sequencing and SNaPshot method. Sixty one SNPs were identified in MYF6 gene, and 36 loci with relative high polymorphism (>3%) were selected from 61 loci for genotyping analysis in Gaoyao parent population using Sanger sequencing and SNaPshot method. The general linear model (GLM) and one way analysis of variance (ANOVA) of SPSS 19 software were used to conduct the association analysis between SNP loci and growth traits. The result showed that 2 of the 36 loci were related to body weight, 4 to full length, 7 to head length, and 2 to body height. These loci, which related to growth-related traits in Gaoyao parent population, were genotyped in Gaoyao offspring and Panyu population. Association analysis between SNP loci and growth-related traits in Gaoyao offspring population showed that S7 (5620-GAGACGGAGA5629) locus was correlated with body weight, body length and body height; S24 (C-7388G) was related to body weight, body height and body thickness; S56 (A-11815C) was correlated with body weight, total length, body length, head length, body height and body thickness. In Panyu population, 2 SNP loci were related to body weight, 1 to body length and full length, 1 to head length, and 2 to body thickness. The above loci, which were related to growth-related traits of Gaoyao offspring and Panyu population, were further verified in Hainan population, and 1 locus associated with body weight was obtained in male population. The correlation analysis between the diploid and the growth-related traits of each population showed that 1 diploid related to body weight was obtained from each of the Gaoyao parent population, the Gaoyao offspring population and the Panyu population, respectively. This study provides effective molecular markers for improving growth traits and breeding of tilapia.
GAO Feng-Ying,TONG Yan-Nan,LIU Zhi-Gang, et al. Screening of SNP of MYF6 Gene in Nile Tilapia (Oreochromis niloticus) and Its Association Analysis with Growth Traits[J]. 农业生物技术学报, 2024, 32(2): 396-416.
[1] 陈炳霖, 肖炜, 邹芝英, 等. 2020. 两种尼罗罗非鱼GHR、IGF-Ⅰ基因启动子区及编码区多态性与生长性状的相关性分析[J]. 农业生物技术学报, 28(11): 2032-2047. (Chen B L, Xiao W, Zou Z Y, et al.2020. Correlation analysis between polymorphism of GHR, IGF-Ⅰ gene promoter region and coding region and growth traits in two species of Nile tilapia[J]. Journal of Agricultural Biotechnology, 28(11): 2032-2047.) [2] 陈雪峰, 杨国梁, 俞菊华, 等. 2010. 吉富罗非鱼IGF2基因分离及其单核苷酸多态性与体型、增重相关性[J]. 动物学杂志, 45(2): 107-114. (Chen X F, Yang G L, Yu J H, et al.2010. Isolation of IGF2 gene and its single nucleotide polymorphism in Tilapia jifu and its correlation with body shape and weight gain[J]. Chinese Journal of Zoology, 45(2): 107-114) [3] 李胜杰, 姜鹏, 樊佳佳, 等. 2018. 大口黑鲈肌球蛋白重链基因SNPs的筛选及与生长性状的关联[J]. 水产学报, 42(3): 305-313. (Li S J, Jiang P, Fan J J, et al.2018. Screening of myosin heavy chain gene SNPs of largemouth bass and their association with growth traits[J]. Journal of Fisheries of China, 42(3): 305-313.) [4] 阮瑞霞, 俞菊华, 李红霞, 等. 2011. 吉富罗非鱼两种生长激素受体基因的分离及与增重相关的SNPs位点[J]. 动物学杂志, 46(3): 37-46. (Ruan R X, Yu J H, Li H X, et al.2011. Isolation of two growth hormone receptor genes and SNPs related to weight gain in Tilapia jifu[J]. Chinese Journal of Zoology, 46(3): 37-46.) [5] 孙文浩. 2008. 鸡Myf5和Myf6基因的SNP多态性及其与屠宰性状和肉质性状的相关性分析[D]. 硕士学位论文, 四川农业大学, 导师: 朱庆, pp. 1-54. (Sun W H.2008. Study on associations between SNPs of chicken myf5 and myf6 gene and slaughter and meat quality traits[D]. Thesis for M.S., Sichuan Agriculture University, Supervisor: Zhu Q, pp. 1-54.) [6] 孙效文, 鲁翠云, 匡友谊, 等. 2007. 镜鲤两个繁殖群体的遗传结构和几种性状的基因型分析[J].水产学报, 37(3): 273-279. (Sun X W, Lu C Y, Kuang Y Y, et al.2007. Genetic structure of two breeding populations of mirror carp and genotype analysis of several traits[J]. Journal of Fisheries of China, 37(3): 273-279.) [7] 谭新, 童金苟. 2011. SNPs及其在水产动物遗传学与育种学研究中的应用[J]. 水生生物学报, 35(2): 348-354. (Tan X, Tong J G.2011. SNPs and their application in genetics and breeding of aquatic animals[J]. Acta Hydrobiologica Sinica, 35(2): 348-354.) [8] 王春晓, 卢迈新, 高风英, 等. 2015. 尼罗罗非鱼生长激素促分泌素受体基因(GHSR)生长相关单核苷酸多态性(SNPs)位点的筛选[J]. 农业生物技术学报, 23(6): 762-771. (Wang C X, Lu M X, Gao F Y, et al.2015. Screening of growth related single nucleotide polymorphisms (SNPs) in growth hormone secretagogue receptor gene (GHSR) of Nile tilapia[J]. Journal of Agricultural Biotechnology, 23(6): 762-771. ) [9] 钟茂春, 郑光明, 赵建, 等. 2010. 鲮Myf5基因克隆及其 SNPs分析[J]. 中国水产科学, 17(4): 681-688. (Zhong M C, Zheng G M, Zhao J, et al.2010. Cloning and SNPs analysis of Myf5 gene of Labeo moleo[J]. Journal of Fishery Sciences of China, 17(4): 681-688.) [10] Chen B L, Xiao W, Zou Z, et al.2021. The effects of single nucleotide polymorphisms in neuropeptide Y and prepro-orexin on growth in Nile tilapia (Oreochromis niloticus)[J]. Aquaculture, 543: 736974. [11] Divya B K, Yadav P, Masih P, et al.2017. In silico characterization of myogenic factor 6 transcript of Hilsa, Tenualosa ilisha and putative role of its SNPs with differential growth[J]. Meta Gene, 13: 140-148. [12] Du X H, Gan Q F, Yuan Z R, et al.2013. Polymorphism of MyoD1 and Myf6 genes and associations with carcass and meat quality traits in beef cattle[J]. Genetics and Molecular Research, 12(4): 6708-6717. [13] Guiatti D, Stefanon B, Sgorlon S.2013. Association analysis between single nucleotide polymorphisms in the promoter region of LEP, MYF6, MYOD1, OPN, SCD genes and carcass traits in heavy pigs[J]. Italian Journal of Animal Science, 12(1): 77-82. [14] Kassar-Duchossoy L, Gayraud-Morel B, Gomès D, et al.2004. Mrf4 determines skeletal muscle identity in Myf5: Myod double-mutant mice[J]. Nature, 431(7007): 466-471. [15] Li H, Fan J, Liu S, et al.2012. Characterization of a myostatin gene (MSTN1) from spotted halibut (Verasper variegatus) and association between its promoter polymorphism and individual growth performance[J]. Comparative Biochemistry and Physiology Part B: Biochemistry and Molecular Biology, 161(4): 315-322. [16] Li C, Basarab J, Snelling W M, et al.2002. The identification of common haplotypes on bovine chromosome 5 within commercial lines of Bos taurus and their associations with growth traits[J]. Journal of Animal Science, 80(5): 1187-1194. [17] Li C, Basarab J, Snelling W M, et al.2004. Assessment of positional candidate genes MYF5 and IGF-Ⅰ for growth on bovine chromosome 5 in commercial lines of Bos taurus[J]. Journal of Animal Science 82: 1-7. [18] Tan X, Xu P, Zhang Y, et al.2019. Olive flounder (Paralichthys olivaceus) myogenic regulatory factor 4 and its muscle-specific promoter activity[J]. Comparative Biochemistry and Physiology, Part B, 236: 110310. [19] TePas M F, Harders F L, Soumillion A, et al.1999. Genetic variation at the porcine MYF-5 gene locus. Lack of association with meat production traits[J]. Mammalian Genome, 10(2): 123-127. [20] Zhang Y, Xiao L, Wei Z, et al.2022. Effects of dietary protein levels on growth performance, muscle composition and fiber recruitment of juvenile small yellow croaker (Larimichthys polyactis)[J]. Aquaculture Reports, 27: 101335. [21] Zou G W, Zhu Y Y, Liang H W, et al.2015. Association of pituitary adenylate cyclase-activating polypeptide and myogenic factor 6 genes with growth traits in Nile tilapia (Oreochromis niloticus)[J]. Aauaculture International, 23(5): 1217-1225.
