A post-GWAS confirming GPAT3 gene associated with pig growth and a significant SNP influencing its promoter activity
A post-GWAS confirming GPAT3 gene associated with pig growth and a significant SNP influencing its promoter activity
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GWAS 后证实 GPAT3 基因与猪生长相关以及影响其启动子活性的显着 SNP
DOI：
10.1111/age.12567
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发表时间：
2017
期刊：
影响因子：
2.4
通讯作者：
Fang Meiying
中科院分区：
文献类型：
--
作者：
Wang Kejun;Liu Yufang;Xu Qiao;Liu Chengkun;Wang Jve;Ding Cui;Fang Meiying
我们先前的全基因组关联研究表明，位于甘油-3-磷酸酰基转移酶3（GPAT 3）上游的SNP ASGA 0040372与杜洛克猪的生长性状相关。本研究旨在广泛调查GPAT 3基因的遗传变异，进一步验证ASGA 0040372对生长性状的贡献及其对启动子活性的影响。我们的数据，获得的基因克隆和cDNA末端的快速扩增实验的基础上，显示有14个外显子和三个选择性剪接变异体。共检测到5个SNPs，包括ASGA 0040372和4个新的SNPs。此外，获得的5个SNPs被用来确认其对杜洛克猪群体的关联研究的猪生长的遗传效应。结果表明，三个SNPs（ASGA 0040372、RS331766122和RS346215414）与平均日增重或达到100 kg的天数性状高度相关（P值< 0.05）。进一步分析表明，GPAT 3基因启动子区（-950 ~-500 bp）的活性最高。我们还观察到ASGA 0040372（A/G）等位基因对启动子转录活性的影响存在显著差异，从而导致GPAT 3的差异表达。综上所述，我们认为GPAT 3基因与猪的生长有关，ASGA 0040372影响了猪GPAT 3基因启动子的活性。
Our previous genome‐wide association study revealed that a SNP,ASGA0040372, located upstream ofglycerol‐3‐phosphate acyltransferase 3(GPAT3), is related to growth traits in Duroc pigs. In this study, we aimed to extensively investigate the genetic variation ofGPAT3and to further verify the contribution ofASGA0040372to growth traits and its effect on promoter activity. Our data, obtained based on gene cloning and rapid amplification of cDNA ends experiments, showed that there are 14 exons and three alternative splicing variants. Five SNPs were detected, includingASGA0040372and four novel SNPs. Furthermore, the five SNPs obtained were used to confirm their genetic effects on pig growth by an association study in a Duroc pig population. The results indicated that three SNPs (ASGA0040372,RS331766122andRS346215414) are highly associated with average daily gain or days to 100 kg traits (P‐value < 0.05). Subsequent analysis suggested that the promoter region ofGPAT3gene, from –950 to –500 bp, exhibited the highest activity. We also observed thatASGA0040372(A/G) alleles have significantly different effects on promoter transcriptional activities, which leads to differential expression ofGPAT3. Taken together, we conclude that theGPAT3gene is associated with pig growth and that ASGA0040372 influences promoter activity ofGPAT3in pig.