Liu Cong, Liu Jianing, Guo Haishan, Liu Shuangxing, Liu Pingquan, Zhu Tingqi, Li Wenting, Wang Kejun, Kang Xiangtao, Li Zhunan, Sun Guirong
The Shennong Laboratory, Henan Agricultural University, Zhengzhou 450046, PR China.
Key Laboratory of Livestock and Poultry Resources (Poultry) Evaluation and Utilization of Ministry of Agriculture and Rural Affairs, Henan Agricultural University, Zhengzhou 450046, PR China.
Poult Sci. 2025 May 30;104(9):105377. doi: 10.1016/j.psj.2025.105377.
The "Yufen 1" D line (D) chicken is characterized by strong disease resistance and a high feed conversion rate as a newly bred line. There are few reports on D chicken. In order to investigate the genetic diversity, population structure and selection signals of the D chicken, this study analyzed the genome-wide data of 15 D line chickens and 11 publicly available Chinese indigenous chicken breeds, the red jungle fowls. The genetic diversity of the D chicken was significantly lower than that of the Chinese indigenous chicken breeds and the red jungle fowl, but the inbreeding coefficient (F) was lower. On the one hand, this may be due to the small size of the conserved population, and on the other hand, it suggests that the D line may have received artificial selection during the selection process. Population structure analysis revealed that the D chicken was separated from Chinese indigenous chicken breeds and red jungle fowl, and had a high degree of genetic differentiation from other non-D chicken populations, suggesting that the D chicken is a unique poultry genetic resource worthy of our subsequent enhanced protection and utilization. The selective sweep analysis revealed that the genes selected in the D chicken were mainly enriched in the Toll and Imd signaling pathway and the Gastric acid secretion signaling pathway, including REL, UBE2V1, KCNJ16, and SLC26A7, which might be related to the excellent traits of high disease resistance and high feed conversion ratio in D chicken. In addition, the constructed molecular identity card of D chickens can be used to identify the authenticity of D chickens. These results lay the foundation for further research, conservation, and breeding of "Yufen 1" D line chickens.
“豫粉1号”D系鸡作为新培育品系，具有抗病力强、饲料转化率高的特点。关于D系鸡的报道较少。为了探究D系鸡的遗传多样性、群体结构和选择信号，本研究分析了15只D系鸡以及11个公开的中国地方鸡种、原鸡的全基因组数据。D系鸡的遗传多样性显著低于中国地方鸡种和原鸡，但近交系数（F）较低。一方面，这可能是由于保种群规模较小，另一方面，这表明D系在选育过程中可能受到了人工选择。群体结构分析表明，D系鸡与中国地方鸡种和原鸡分离，并且与其他非D系鸡群体存在高度遗传分化，这表明D系鸡是一种独特的家禽遗传资源，值得我们后续加强保护和利用。选择清除分析表明，D系鸡中被选择的基因主要富集在Toll和Imd信号通路以及胃酸分泌信号通路，包括REL、UBE2V1、KCNJ16和SLC26A7，这些基因可能与D系鸡抗病力强和饲料转化率高的优良性状有关。此外，构建的D系鸡分子身份证可用于鉴定D系鸡的真伪。这些结果为“豫粉1号”D系鸡的进一步研究、保种和育种奠定了基础。
