Weighted single-step GWAS identified candidate genes associated with carcass traits in a Chinese yellow-feathered chicken population.
Weighted single-step GWAS identified candidate genes associated with carcass traits in a Chinese yellow-feathered chicken population.
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DOI：
10.1016/j.psj.2023.103341
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发表时间：
2024-02
期刊：
影响因子：
4.4
通讯作者：
Wen Luo
中科院分区：
文献类型：
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作者：
Rongyang Pan;Lin Qi;Zhenqiang Xu;Dexiang Zhang;Qinghua Nie;Xiquan Zhang;Wen Luo
肉鸡胴体性状是一个受多基因影响的复杂性状。为了更深入地了解胴体性状的遗传机制，我们在中国黄羽鸡群体中进行了加权单步全基因组关联研究（wssGWAS）。目的是确定与胴体重（CW）、全净膛重（EWG）、全净膛重（EW）、胸肌重（BMW）、鸡腿重（DW）、腹脂重（AFW）、腹脂率（AFP）、砂囊重（GW）和肠长（IL）相关的基因组区域和候选基因。本研究共纳入1,338只具有表型和系谱信息的肉鸡。其中，435只鸡基因型使用600 K单核苷酸多态性芯片进行关联分析。结果表明，9个性状的最显著区域可解释2.38%~ 5.09%的表型变异，其中第1染色体194.53 ~ 194.63Mb区域与CW、EWG、EW、BMW和DW显著相关，RELT和FAM 168 A基因位于该区域上。同时，5个性状间存在较强的遗传相关，表明该区域和基因可用于进一步的研究。此外，还发现了一些与骨骼肌发育、脂肪沉积调节、肠道修复和保护相关的候选基因。基因本体论和京都基因百科全书和基因组富集分析表明，这些基因参与了血管发育等过程（CD 34、FGF 7、FGFR 3、ITGB 1BP 1、SEMA 5A、LOXL 2），骨形成（FGFR 3、MATN 1、MEF 2D、DHRS 3、SKI、STC 1、HOXB 1、HOXB 3、TIPARP）和解剖尺寸调节（ADD2、AKT1、CFTR、EDN3、FLII、HCLS 1、ITGB1BP 1、SEMA 5A、SHC 1、ULK 1、DALG、GSK 3B、BORCS 8、GRIP 2）。总之，整合表型、基因型和系谱信息而不产生伪表型将有助于鸡胴体性状的遗传改良，为胴体性状的遗传结构和潜在候选基因提供有价值的见解，丰富了我们的理解，并有助于优质肉鸡的育种。
Carcass traits in broiler chickens are complex traits that are influenced by multiple genes. To gain deeper insights into the genetic mechanisms underlying carcass traits, here we conducted a weighted single-step genome-wide association study (wssGWAS) in a population of Chinese yellow-feathered chicken. The objective was to identify genomic regions and candidate genes associated with carcass weight (CW), eviscerated weight with giblets (EWG), eviscerated weight (EW), breast muscle weight (BMW), drumstick weight (DW), abdominal fat weight (AFW), abdominal fat percentage (AFP), gizzard weight (GW), and intestine length (IL). A total of 1,338 broiler chickens with phenotypic and pedigree information were included in this study. Of these, 435 chickens were genotyped using a 600K single nucleotide polymorphism chip for association analysis. The results indicate that the most significant regions for 9 traits explained 2.38% to 5.09% of the phenotypic variation, from which the region of 194.53 to 194.63Mb on chromosome 1 with the gene RELT and FAM168A identified on it was significantly associated with CW, EWG, EW, BMW, and DW. Meanwhile, the 5 traits have a strong genetic correlation, indicating that the region and the genes can be used for further research. In addition, some candidate genes associated with skeletal muscle development, fat deposition regulation, intestinal repair, and protection were identified. Gene ontology and Kyoto Encyclopedia of Genes and Genomes enrichment analyses suggested that the genes are involved in processes such as vascular development (CD34, FGF7, FGFR3, ITGB1BP1, SEMA5A, LOXL2), bone formation (FGFR3, MATN1, MEF2D, DHRS3, SKI, STC1, HOXB1, HOXB3, TIPARP), and anatomical size regulation (ADD2, AKT1, CFTR, EDN3, FLII, HCLS1, ITGB1BP1, SEMA5A, SHC1, ULK1, DSTN, GSK3B, BORCS8, GRIP2). In conclusion, the integration of phenotype, genotype, and pedigree information without creating pseudo-phenotype will facilitate the genetic improvement of carcass traits in chickens, providing valuable insights into the genetic architecture and potential candidate genes underlying carcass traits, enriching our understanding and contributing to the breeding of high-quality broiler chickens.
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影响因子：
1.8
作者：
Hou H;Wang X;Zhang C;Tu Y;Lv W;Cai X;Xu Z;Yao J;Yang C
通讯作者：
Yang C
影响因子：
1.8
作者：
Sun Y;Zhang P;Zheng H;Dong L;Tan L;Song C;Qiu X;Liao Y;Meng C;Yu S;Ding C
通讯作者：
Ding C
影响因子：
4.4
作者：
Nadaf, Javad;Gilbert, Helene;Pitel, Frederique;Berri, Cecile M;Feve, Katia;Beaumont, Catherine;Duclos, Michel J;Vignal, Alain;Porter, Tom E;Simon, Jean;Aggrey, Samuel E;Cogburn, Larry A;Le Bihan-Duval, Elisabeth
通讯作者：
Le Bihan-Duval, Elisabeth
影响因子：
3
作者：
Guo, Lijin;Huang, Weiling;Zhang, Siyu;Huang, Yulin;Xu, Yibin;Wu, Ruiquan;Fang, Xiang;Xu, Haiping;Nie, Qinghua
通讯作者：
Nie, Qinghua
Texel绵羊×Altay绵羊F（2）资源人群中肌肉pH的全基因组pH分析。
DOI：
10.3390/ani13132162
发表时间：
2023-06-30
期刊：
Animals : an open access journal from MDPI
影响因子：
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作者：
通讯作者：
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