Genome-wide association study reveals the genetic determinism of serum biochemical indicators in ducks.
Genome-wide association study reveals the genetic determinism of serum biochemical indicators in ducks.
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DOI：
10.1186/s12864-022-09080-9
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发表时间：
2022-12-27
期刊：
影响因子：
4.4
通讯作者：
中科院分区：
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血清含有丰富的营养物质，在电解质和酸碱平衡中起着至关重要的作用，维持细胞内稳态。此外，血清参数已被普遍用作临床诊断的基本生物标志物。然而，对鸭血清参数的遗传机制知之甚少。本研究测定了绿头鸭×北京鸭F2分离群体320份样品的18项血清指标。表型相关性显示LDH、HBDH、AST和ALT之间的相关性较高（0.59 ~ 0.99），TP、ALB、HDL-C和CHO之间的相关性也较高（0.46 ~ 0.87）。然后，我们进行了GWAS，以揭示鸭18个血清生化参数的遗传基础。14个候选蛋白编码基因与酶性状（AST、ALP、LDH、HBDH）相关，3个候选蛋白编码基因与代谢和蛋白相关血清参数（UA、TG）相关。并分析上述候选蛋白编码基因在胸肌不同阶段和不同组织中的表达水平。此外，位于显著位点附近的高ld区域（r2 > 0.4和- log10(P) < 4）的基因也保留了下来。最后，使用86个推测的蛋白质编码基因进行GO和KEGG富集分析，酶联受体蛋白信号通路和ErbB信号通路值得进一步关注。所获得的结果有助于对血液代谢的新认识，并为鸭子育种计划提供新的遗传生物标志物。在线版本包含补充材料，可在10.1186/s12864-022-09080-9获得。
The serum is rich in nutrients and plays an essential role in electrolyte and acid–base balance, maintaining cellular homeostasis. In addition, serum parameters have been commonly used as essential biomarkers for clinical diagnosis. However, little is known about the genetic mechanism of the serum parameters in ducks. This study measured 18 serum parameters in 320 samples of the F2 segregating population generated by Mallard × Pekin duck. The phenotypic correlations showed a high correlation between LDH, HBDH, AST, and ALT (0.59–0.99), and higher coefficients were also observed among TP, ALB, HDL-C, and CHO (0.46–0.87). And then, we performed the GWAS to reveal the genetic basis of the 18 serum biochemical parameters in ducks. Fourteen candidate protein-coding genes were identified with enzyme traits (AST, ALP, LDH, HBDH), and 3 protein-coding genes were associated with metabolism and protein-related serum parameters (UA, TG). Moreover, the expression levels of the above candidate protein-coding genes in different stages of breast muscle and different tissues were analyzed. Furthermore, the genes located within the high-LD region (r2 > 0.4 and − log10(P) < 4) neighboring the significant locus also remained. Finally, 86 putative protein-coding genes were used for GO and KEGG enrichment analysis, the enzyme-linked receptor protein signaling pathway and ErbB signaling pathway deserve further focus. The obtained results can contribute to new insights into blood metabolism and provide new genetic biomarkers for application in duck breeding programs. The online version contains supplementary material available at 10.1186/s12864-022-09080-9.
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DOI：
10.1158/1055-9965.epi-13-0381
发表时间：
2013-12
期刊：
Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology
影响因子：
--
作者：
Goyal A;Terry MB;Siegel AB
通讯作者：
Siegel AB
DOI：
10.1093/bioinformatics/btu638
发表时间：
2015-01-15
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Anders S;Pyl PT;Huber W
通讯作者：
Huber W
影响因子：
14.9
作者：
Hu ZL;Park CA;Reecy JM
通讯作者：
Reecy JM
影响因子：
8.3
作者：
Keene, Keith L.;Hyacinth, Hyacinth I.;Fornage, Myriam
通讯作者：
Fornage, Myriam
影响因子：
3.1
作者：
Bai, Zhijie;Xia, Xiaopu;Lu, Jianfeng
通讯作者：
Lu, Jianfeng