滩羊FGF5、COQ9基因多态性及其与生长性状的关联分析

doi:10.3969/j.issn.1004-1524.20230736

浙江农业学报 ›› 2024, Vol. 36 ›› Issue (5): 1015-1023.DOI: 10.3969/j.issn.1004-1524.20230736

滩羊FGF5、COQ9基因多态性及其与生长性状的关联分析

马丽娜¹(), 田进阳², 王锦¹, 赵正伟¹, 马青¹^,^*()

1.宁夏农林科学院动物科学研究所,宁夏银川 750002
2.宁夏回族自治区滩羊选育场,宁夏吴忠 751102

收稿日期:2023-06-07 出版日期:2024-05-25 发布日期:2024-05-29
作者简介:马丽娜(1985—),女,宁夏石嘴山人,硕士,副研究员,研究方向为动物遗传育种。E-mail:malina_2007nian@163.com
通讯作者: * 马青, E-mail: maqing1973@126.com
基金资助:
宁夏回族自治区重点研发计划项目(2023BCF01007)

Association of FGF5 and COQ9 gene polymorphism and growth traits in Tan sheep

MA Li’na¹(), TIAN Jinyang², WANG Jin¹, ZHAO Zhengwei¹, MA Qing¹^,^*()

1. Institute of Animal Sciences, Ningxia Academy of Agricultural and Forestry Sciences, Yinchuan 750002, China
2. Tan Sheep Breeding Farm in Ningxia Hui Autonomous Region, Wuzhong 751102, Ningxia, China

Received:2023-06-07 Online:2024-05-25 Published:2024-05-29

摘要/Abstract

摘要：

为探索滩羊成纤维细胞生长因子5(fibroblast growth factor,FGF5)和辅酶Q9(coenzyme Q9,COQ9)基因的多态性及其与生长性状的关联性,运用分子标记辅助育种方法,为提高滩羊的生长性状提供理论依据。针对前期研究中筛选出的位点采用SNP分型技术对107只滩羊进行FGF5和COQ9基因多态性检测,并与初生重、二毛期(35日龄)、6月龄和12月龄体重进行关联分析。结果表明,通过与绵羊参考基因组(GCF_000298735.2_Oar_v4.0)比对,在滩羊FGF5基因上筛选出2个SNPs位点,分别为g.94540629T>G和g.94540642T>C,其中g.94540629T>G位点产生TT、GT和GG共3种基因型,g.94540642T>C位点产生TT、TC和CC共3种基因型;在COQ9基因上筛选出3个SNP位点,分别为g.94503480A>G、g.24807700A>G和g.24812228T>C,其中g.94503480A>G位点产生AA、AG、GG共3种基因型,g.24807700A>G位点产生AA、AG、GG共3种基因型,g.24812228T>C位点产生TT、TC和CC共3种基因型。基因多态性分析表明,5个SNPs位点属于高度多态,且在滩羊群体处于Hardy-Weinberg平衡状态(P>0.05);关联分析结果显示,FGF5基因g.94540642T>C位点C/T基因型12月体重显著大于其他基因型(P<0.05),COQ9基因g.24807700A>G位点GG基因型12月体重显著大于其他基因型(P<0.05),g.24812228T>C位点C/C基因型12月体重显著大于其他基因型(P<0.05),由此可知,3个SNP位点对滩羊12月龄体重有显著影响;COQ9基因g.24812228T>C和g.24807700A>G位点在滩羊群体处于强连锁不平衡,FGF5基因g.94540629T>G和g.94540642T>C位点在滩羊群体处于强连锁不平衡,COQ9基因g.94503480A>G、g.24807700A>G和g.24812228T>C位点和基因型组合A/GA/AT/T与A/GA/GT/C在出生重、6月体重和12月体重显著高于其他组合基因型(P<0.05)。FGF5和COQ9基因多态性与滩羊生长性状显著相关,FGF5和COQ9基因可作为滩羊生长性状选育的候选基因,可作为滩羊体重性状的分子标记,通过常规育种结合分子标记辅助选择来提高滩羊的选育效率。

关键词: 滩羊, FGF5, COQ9, 基因多态性, 生长性状, 关联分析

Abstract:

To explore the polymorphisms of fibroblast growth factor 5 (FGF5) and coenzyme Q9 (COQ9) genes and their associations with growth traits in Tan sheep fibroblast growth factor (FGF5) and coenzyme Q9 (COQ9), so as to provide a theoretical basis for the use of molecular marker-assisted breeding methods to improve the growth traits of Tan sheep, the polymorphisms of FGF5 and COQ9 genes were detected in 107 Tan sheep using SNP typing technology for the loci screened in the previous study, and the body weight of primary birth, 35 days old, 6 months old and 12 months old was analyzed. The results showed that two SNPs were screened on the FGF5 gene of Tan sheep by alignment with the reference genome of sheep (GCF_000298735.2_Oar_v4.0), which were g. 94540629 T>G and g. 94540642 T>C, where g. Three genotypes, TT, GT and GG, were produced g.94540629 T>G, and three genotypes of TT, TC and CC were generated at the g.94540642 T>C loci. Three SNPs were screened in the COQ9 gene, which were g. 94503480 A>G, g. 24807700 A>G and g. 24812228 T>C, where three genotypes of AA, AG and GG were produced at the g.94503480 A>G loci, three genotypes of AA, AG and GG3 were generated at the g.24807700 A>G loci, and three genotypes of TT, TC and CC were generated at the g.24812228 T>C loci. Gene polymorphism analysis showed that the five SNPs loci were highly polymorphic and in the Hardy-Weinberg equilibrium state in the Tan sheep population (P>0.05). The results of association analysis showed that the weight of the g.94540642 T>C locus of FGF5 gene C/T genotype at 12 months was significantly greater than that of other genotypes (P<0.05), the body weight of GG genotype at the g.24807700 A>G locus of COQ9 gene was significantly greater than that of other genotypes at 12 months (P<0.05), and the body weight of g.24812228 T>C loci C/C genotype at 12 months was significantly greater than that of other genotypes (P<0.05), it was concluded that the three SNP loci had a significant effect on the body weight of Tan sheep at 12 months, the COQ9 gene g. 24812228 T>C and g.24807700 A>G loci were in strong linkage imbalance in the Tan sheep population, the FGF5 gene g. 94540629 T>G and g. 94540642 T>C loci were in strong linkage imbalance in the Tan sheep population, and the COQ9 gene g. 94503480 A>G, g. 24807700 A>G and g. 24812228 T>C locus genotypes combination A/GA/AT/T and A/GA/GT/C were significantly higher than those of other combination genotypes at birth weight, 6 months weight and 12 months weight (P<0.05). FGF5 and COQ9 gene polymorphisms were significantly correlated with the growth traits of Tan sheep, and the FGF5 and COQ9 genes could be used as candidate genes for the breeding of growth traits and molecular markers of weight traits in Tan sheep, and the breeding efficiency of Tan sheep could be improved by conventional breeding combined with molecular marker-assisted selection.

Key words: Tan sheep, FGF5, COQ9, gene polymorphisms, growth trait, association analysis

中图分类号:

S826

马丽娜, 田进阳, 王锦, 赵正伟, 马青. 滩羊FGF5、COQ9基因多态性及其与生长性状的关联分析[J]. 浙江农业学报, 2024, 36(5): 1015-1023.

MA Li’na, TIAN Jinyang, WANG Jin, ZHAO Zhengwei, MA Qing. Association of FGF5 and COQ9 gene polymorphism and growth traits in Tan sheep[J]. Acta Agriculturae Zhejiangensis, 2024, 36(5): 1015-1023.

图/表 9

参考文献 21

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基因名称 Gene name	位点名称 Site name	Chr	Pos.	Ref	Alt	引物序列 Primer sequence(5'-3')	退火温度 Annealing temperature/℃	片段长度 Fragment length/bp	Func.ref gene
Fibroblast growth factor 5 (FGF5)	chr6_94540629	6	94540629	G	T	F:CAGAATCTCTTACCCCTCCTGC R:CAGGTCTTAATTGCAGCATGTG	58	246	UTR
	chr6_94540642	6	94540642	C	T	F:CGATCCAGGGATTGAACCAG R:TCCATGTGCCAGGTCTTAATTG	58	272	UTR
Coenzyme Q9 (COQ9)	chr6_94503480	6	94503480	A	G	F:GGTACGTGGCCCTGAACAAG R:GTTAGGACTTCTCCGAGGTGC	58	209	CDS
	chr14_24807700	14	24807700	G	A	F:GTCCTCGTGGATTACAGTTTGG R:TGTCAGTATCAGTGTGTGAGTGCC	58	207	intron
	chr14_24812228	14	24812228	C	T	F:CCCCAGGGTGACAGTGTGTTC R:GCCACTCACATCTCCAGGAAC	58	202	intron

基因名称 Gene name	位点名称 Site name	Chr	Pos.	Ref	Alt	引物序列 Primer sequence(5'-3')	退火温度 Annealing temperature/℃	片段长度 Fragment length/bp	Func.ref gene
Fibroblast growth factor 5 (FGF5)	chr6_94540629	6	94540629	G	T	F:CAGAATCTCTTACCCCTCCTGC R:CAGGTCTTAATTGCAGCATGTG	58	246	UTR
	chr6_94540642	6	94540642	C	T	F:CGATCCAGGGATTGAACCAG R:TCCATGTGCCAGGTCTTAATTG	58	272	UTR
Coenzyme Q9 (COQ9)	chr6_94503480	6	94503480	A	G	F:GGTACGTGGCCCTGAACAAG R:GTTAGGACTTCTCCGAGGTGC	58	209	CDS
	chr14_24807700	14	24807700	G	A	F:GTCCTCGTGGATTACAGTTTGG R:TGTCAGTATCAGTGTGTGAGTGCC	58	207	intron
	chr14_24812228	14	24812228	C	T	F:CCCCAGGGTGACAGTGTGTTC R:GCCACTCACATCTCCAGGAAC	58	202	intron

位点编号 Loci number	位点名称 Loci name	基因型 Genotype	基因频率 gene frequency	等位基因 Frequencies	频率 Allelic gene	纯合度 Ho	杂合度 He	有效等位基因数 Ne	多态信息含量 PIC	P
SNP1	chr6:94503480	AA(70)	0.65	A	0.82	0.70	0.30	1.43	0.25	1.0
		AG(32)	0.30	G	0.18
		GG(3)	0.03
SNP2	chr6:94540629	TT(73)	0.68	T	0.81	0.75	0.25	1.34	0.25	0.20
		TG(28)	0.26	G	0.19
		GG(6)	0.06
SNP3	chr6: 94540642	TT(73)	0.68	T	0.81	0.75	0.25	1.34	0.25	0.11
		TC(28)	0.26	C	0.19
		CC(6)	0.06
SNP4	chr14:24807700	AA(30)	0.28	A	0.55	0.49	0.51	2.06	0.37	0.85
		AG(56)	0.52	G	0.45
		GG(21)	0.20
SNP5	chr14:24812228	TT(30)	0.28	T	0.55	0.49	0.51	2.06	0.37	0.85
		TC(56)	0.52	C	0.45
		CC(21)	0.20

位点编号 Loci number	位点名称 Loci name	基因型 Genotype	基因频率 gene frequency	等位基因 Frequencies	频率 Allelic gene	纯合度 Ho	杂合度 He	有效等位基因数 Ne	多态信息含量 PIC	P
SNP1	chr6:94503480	AA(70)	0.65	A	0.82	0.70	0.30	1.43	0.25	1.0
		AG(32)	0.30	G	0.18
		GG(3)	0.03
SNP2	chr6:94540629	TT(73)	0.68	T	0.81	0.75	0.25	1.34	0.25	0.20
		TG(28)	0.26	G	0.19
		GG(6)	0.06
SNP3	chr6: 94540642	TT(73)	0.68	T	0.81	0.75	0.25	1.34	0.25	0.11
		TC(28)	0.26	C	0.19
		CC(6)	0.06
SNP4	chr14:24807700	AA(30)	0.28	A	0.55	0.49	0.51	2.06	0.37	0.85
		AG(56)	0.52	G	0.45
		GG(21)	0.20
SNP5	chr14:24812228	TT(30)	0.28	T	0.55	0.49	0.51	2.06	0.37	0.85
		TC(56)	0.52	C	0.45
		CC(21)	0.20

位点编号 Loci number	位点名称 Loci name	基因型 Genotype	出生重 Birth weight/kg	二毛重 35-day weight/kg	6月体重 6-month weight/kg	12月体重 12-month weight/kg
SNP1	chr6:94503480	A/A	5.45±0.07	16.21±0.29	32.78±0.67	44.25±0.80
		A/G	5.32±0.11	15.29±0.44	31.25±1.01	45.47±1.20
		G/G	5.66±0.38	18.73±1.44	32.86±3.32	44.00±3.94
SNP2	chr6:94540629	T/T	5.33±0.09	15.96±0.36	32.40±0.82	45.32±0.96
		T/G	5.43±0.09	16.07±0.36	32.28±0.81	43.73±0.95
		G/G	5.55±0.27	15.63±1.05	32.10±2.37	45.66±2.78
SNP3	chr6: 94540642	C/C	5.44±0.09	16.04±0.35	32.44±0.80	43.89±0.94 b
		C/T	5.31±0.12	15.71±0.49	31.90±1.11	47.17±1.30 a
		T/T	5.47±0.12	16.20±0.48	32.53±1.09	44.44±1.28 b
SNP4	chr14:24807700	A/A	5.50±0.12	16.48±0.45	32.57±0.99	44.66±1.21 b
		A/G	5.35±0.08	15.44±0.33	31.02±0.75	43.85±0.92 b
		G/G	5.47±1.13	16.75±0.54	37.39±1.21	48.51±1.48 a
SNP5	chr14:24812228	T/T	5.50±0.11	16.48±0.45	32.57±0.99	44.66±1.21 b
		T/C	5.35±0.08	15.44±0.33	31.02±0.75	43.85±0.91 b
		C/C	5.47±0.15	16.75±0.55	36.39±1.21	49.22±1.48 a

滩羊FGF5、COQ9基因多态性及其与生长性状的关联分析

Association of FGF5 and COQ9 gene polymorphism and growth traits in Tan sheep

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基因型 Combination genotype	出生重 Birth weight	二毛重 35-day weight	6月体重 6-month weight	12月体重 12-month weight
T/TT/T(85)	5.65±0.49	16.51±1.17	36.03±0.53	49.05±1.28
G/GC/C(16)	5.94±0.31	17.63±1.44	38.93±1.34	49.66±1.68
T/GT/C(15)	5.86±0.58	17.05±1.41	34.89±1.32	46.71±1.94

基因型 Combination genotype	出生重 Birth weight	二毛重 35-day weight	6月体重 6-month weight	12月体重 12-month weight
A/AA/GT/C(35)	5.23±0.33 b	16.34±1.09	36.76±0.23 b	48.75±1.34 b
A/AG/GC/C(6)	5.43±0.12 b	16.53±1.21	37.11±1.32 b	47.76±1.19 b
A/GA/AT/T(10)	5.70±0.26 a	17.77±1.91	39.89±1.09 a	49.43±1.24 a
A/AA/AT/T/C(20)	5.45±0.34 b	16.44±1.29	36.30±0.27 b	48.56±1.53 b
A/GA/GT/C(21)	5.84±0.29 a	17.63±1.32	39.95±1.02 a	49.73±1.92 a
A/AG/GC/C(8)	5.36±0.38 b	16.67±1.34	35.21±1.56 b	45.39±1.09 b

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