Genome-wide Association Analysis of Angus Cattle Cross Section Height Traits and the Effect of PSEN1 Gene on Proliferation and Differentiation of Myogenic Cells

doi:10.7668/hbnxb.20194032

Abstract

Abstract:

The purpose of this study was to screen single nucleotide polymorphisms(SNPs)and candidate genes significantly associated with high cross traits in Angus cattle in Ningxia,and to investigate the effect of interference with PSEN1 on the proliferation and differentiation of myogenic cells.A group of 211 Angus cows reared in Ningxia was used to screen SNPs and candidate genes significantly associated with high cross traits in Angus cows by genome-wide association analysis;the expression pattern of candidate genes at different differentiation periods of adult myoblasts was detected by Real-time Fluorescence Quantitative PCR(qRT-PCR);the specific interfering fragment of synthetic gene PSEN1 was transfected into adult myoblasts;qRT-PCR and EdU staining techniques were used to detect the effect of PSEN1 gene on myogenic cells.The results showed that 14 SNPs located on chromosomes 1,3,4,5,7,10,13,15,20 and 28 and the corresponding 13 candidate genes were significantly associated with high cross section.During myogenic cell differentiation,the expression of PSEN1 gene showed a trend of increasing and then decreasing,reaching the highest on the fourth day.Compared with the control group,the positive cell rate was extremely significantly lower in the interference group(P<0.01),the expression of muscle development marker genes PAX3,MEF2C,IGF2 and MYOG was significantly lower(P<0.05),and the genes PCNA,MEF2B,MYH1,CDK1 and MYF5 showed an overall decreasing trend although the differences were not significant,indicating that interference PSEN1 gene suppressed the proliferation and differentiation of myogenic cells.This study identified candidate genes affecting the cross height trait in Angus cattle,which provided a basis for the improvement of production performance and breed selection in Ningxia Angus cattle;PSEN1 gene had an important role in the proliferation and differentiation of adult myoblasts and might be a potential candidate gene affecting the growth and development of Angus cattle.

Key words: Angus cattle, Height cross, Genome-wide association analysis, SNP, PSEN1, Myogenic cells

LI Desheng, JIANG Qiufei, FENG Yuan, WANG Yu, FENG Xiaofang, YU Baojun, CHEN Yafei, ZHANG Di, WANG Chuanchuan, LI Leilei, GU Yaling, ZHANG Juan. Genome-wide Association Analysis of Angus Cattle Cross Section Height Traits and the Effect of PSEN1 Gene on Proliferation and Differentiation of Myogenic Cells[J]. Acta Agriculturae Boreali-Sinica, 2023, 38(5): 206-217. doi: 10.7668/hbnxb.20194032.

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References 42

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基因 Gene	序列(5'-3') Primer sequence(5'-3')	退火温度/℃ Tm	产物片段/bp Product size
PSEN1	F:TGAGCACGGCAACGAG	54	146
	R:GCCACAACTACCACCATACA
PCNA	F:TGAAGAAAGTGCTGGAGGCG	60	157
	R:TTTTGGACATGCTGGTGAGG
PAX3	F:ACTGGAGCGGGCTTTTGA	55	198
	R:ATGGCTGTGGGAGGGAAT
MEF2C	F:TTGTGTGCTGTTCCACCTCCC	58	142
	R:GATTGCCATACCCGTTCCCTG
MEF2B	F:ATCGCCCTCATCATCTTC	57	146
	R:CTCCGCTTCAGTGTCTCG
IGF2	F:CGGTGCTGGTGCTTCTTGC	60	129
	R:CGTCGGTTTATGCGGCTGG
MYOG	F:TCTATCAGGAACCTCACT	58	194
	R:CTTACACACCTTACACGC
CDK1	F:AGAAAGTGAAGAGGAAGGGG	55	187
	R:TGAACTGACCAGGAGGGATA
MYH1	F:GCAGGGAAGGGGGGAAGGT	58	177
	R:GGAGAAGATGTGGGGCGGG
MYF5	F:GTTCGGGGACGAGTTTGA	56	158
	R:GCCTCTGGTTAGGGTTGG
GAPDH	F:TCACCAGGGCTGCTTTTA	58	126
	R:CTGTGCCGTTGAACTTGC

基因 Gene	序列(5'-3') Primer sequence(5'-3')	退火温度/℃ Tm	产物片段/bp Product size
PSEN1	F:TGAGCACGGCAACGAG	54	146
	R:GCCACAACTACCACCATACA
PCNA	F:TGAAGAAAGTGCTGGAGGCG	60	157
	R:TTTTGGACATGCTGGTGAGG
PAX3	F:ACTGGAGCGGGCTTTTGA	55	198
	R:ATGGCTGTGGGAGGGAAT
MEF2C	F:TTGTGTGCTGTTCCACCTCCC	58	142
	R:GATTGCCATACCCGTTCCCTG
MEF2B	F:ATCGCCCTCATCATCTTC	57	146
	R:CTCCGCTTCAGTGTCTCG
IGF2	F:CGGTGCTGGTGCTTCTTGC	60	129
	R:CGTCGGTTTATGCGGCTGG
MYOG	F:TCTATCAGGAACCTCACT	58	194
	R:CTTACACACCTTACACGC
CDK1	F:AGAAAGTGAAGAGGAAGGGG	55	187
	R:TGAACTGACCAGGAGGGATA
MYH1	F:GCAGGGAAGGGGGGAAGGT	58	177
	R:GGAGAAGATGTGGGGCGGG
MYF5	F:GTTCGGGGACGAGTTTGA	56	158
	R:GCCTCTGGTTAGGGTTGG
GAPDH	F:TCACCAGGGCTGCTTTTA	58	126
	R:CTGTGCCGTTGAACTTGC

阶段 Stage	样本量 Amount of data	均值/cm Mean	标准差 s	变异系数 CV	最大值/cm Max	最小值/cm Min
初生 Newborn	211	74.13	5.27	4.78	91	62
断奶 Weaning	211	98.36	5.88	5.98	106	80
6月龄 6 months old	211	107.18	6.34	5.05	130	91
12月龄 12 months old	211	119.26	8.19	6.87	136	106
18月龄 18 months old	211	127.99	8.70	6.80	146	116
24月龄 24 months old	211	134.18	8.64	6.21	148	117

阶段 Stage	样本量 Amount of data	均值/cm Mean	标准差 s	变异系数 CV	最大值/cm Max	最小值/cm Min
初生 Newborn	211	74.13	5.27	4.78	91	62
断奶 Weaning	211	98.36	5.88	5.98	106	80
6月龄 6 months old	211	107.18	6.34	5.05	130	91
12月龄 12 months old	211	119.26	8.19	6.87	136	106
18月龄 18 months old	211	127.99	8.70	6.80	146	116
24月龄 24 months old	211	134.18	8.64	6.21	148	117

阶段 Stage	数量 Amount	3'端非翻译区 3'-UTR	5'端非翻译区 5'-UTR	下游区域 Down stream	外显子区域 Exonic region	基因间区 Intergenic	内含子区域 Intronic region	非编码RNA内含子区域 Non-coding RNA intron	基因上游区域 Up stream
初生 Newborn	52	0	0	0	0	30	22	0	0
断奶 Weaning	2	0	0	0	0	1	1	0	0
6月龄 6 months old	108	0	1	1	0	70	36	0	0
12月龄 12 months old	580	2	0	3	2	369	196	1	7
18月龄 18 months old	732	3	2	10	6	401	306	0	4
24月龄 24 months old	7	0	0	0	0	3	4	0	0
总计 Total	1 481	5	3	14	8	874	565	1	11

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