PDF(Pubmed)
Abstract：
BACKGROUND: Several core breeding and supporting lines of the Qingyuan partridge chicken, a representative local chicken breed in China, have been developed over 20 years. Consequently, its economic traits related to growth and reproduction have been significantly improved by breeding selection and commercial utilization, but some characteristic traits, such as partridge feathers, high meat quality and sufficient flavor, have always been retained. However, effective methods for genetic assessment and functional gene exploration of similar trait groups are lacking. The presence of identical haplotype fragments transmitted from parent to offspring results in runs of homozygosity (ROH), which offer an efficient solution. In this study, genomes of 134 Qingyuan partridge chickens representing two breeding populations and one preserved population were re-sequenced to evaluate the genetic diversity and explore functional genes by analyzing the diversity, distribution, and frequency of ROH.
RESULTS: The results showed a low level of genomic linkage and degree of inbreeding within both the bred and preserved populations, suggesting abundant genetic diversity and an adequate genetic potential of the Qingyuan partridge chicken. Throughout the long-term selection process, 21 genes, including GLI3, ANO5, BLVRA, EFNB2, SLC5A12, and SVIP, associated with breed-specific characteristics were accumulated within three ROH islands, whereas another 21 genes associated with growth traits including IRX1, IRX2, EGFR, TPK1, NOVA1, BDNF and so on were accumulated within five ROH islands.
CONCLUSIONS: These findings provide new insights into the genetic assessment and identification of genes with breed-specific and selective characteristics, offering a solid genetic basis for breeding and protection of Qingyuan partridge chickens.
RESULTS: The results showed a low level of genomic linkage and degree of inbreeding within both the bred and preserved populations, suggesting abundant genetic diversity and an adequate genetic potential of the Qingyuan partridge chicken. Throughout the long-term selection process, 21 genes, including GLI3, ANO5, BLVRA, EFNB2, SLC5A12, and SVIP, associated with breed-specific characteristics were accumulated within three ROH islands, whereas another 21 genes associated with growth traits including IRX1, IRX2, EGFR, TPK1, NOVA1, BDNF and so on were accumulated within five ROH islands.
CONCLUSIONS: These findings provide new insights into the genetic assessment and identification of genes with breed-specific and selective characteristics, offering a solid genetic basis for breeding and protection of Qingyuan partridge chickens.
摘要：
背景：清远山雀鸡的几个核心育种和支持系，中国当地有代表性的鸡品种，已经发展了20多年。因此,通过育种选择和商业利用，其与生长和繁殖相关的经济性状得到了显着改善，但是一些特征，如part羽毛，肉质高，风味充足，一直被保留。然而,相似性状群体的遗传评估和功能基因探索缺乏有效的方法。相同的单倍型片段的存在从亲本传递到后代导致纯合性（ROH）的运行，提供有效的解决方案。在这项研究中,对分别代表两个繁殖种群和一个保存种群的134只清远part鸡的基因组进行了重新测序，以评估遗传多样性并通过分析多样性来探索功能基因，分布，和ROH的频率。
结果：结果表明，在繁殖和保存的种群中，基因组连锁和近交程度都很低，这表明清远part鸡具有丰富的遗传多样性和足够的遗传潜力。在整个长期选拔过程中，21个基因，包括GLI3，ANO5，BLVRA，EFNB2、SLC5A12和SVIP，与品种特异性特征相关的积累在三个ROH岛内，而另外21个与生长性状相关的基因，包括IRX1，IRX2，EGFR，TPK1，NOVA1，BDNF等在五个ROH岛内积累。
结论：这些发现为具有品种特异性和选择性特征的基因的遗传评估和鉴定提供了新的见解，为清远part鸡的育种和保护提供了坚实的遗传基础。
结果：结果表明，在繁殖和保存的种群中，基因组连锁和近交程度都很低，这表明清远part鸡具有丰富的遗传多样性和足够的遗传潜力。在整个长期选拔过程中，21个基因，包括GLI3，ANO5，BLVRA，EFNB2、SLC5A12和SVIP，与品种特异性特征相关的积累在三个ROH岛内，而另外21个与生长性状相关的基因，包括IRX1，IRX2，EGFR，TPK1，NOVA1，BDNF等在五个ROH岛内积累。
结论：这些发现为具有品种特异性和选择性特征的基因的遗传评估和鉴定提供了新的见解，为清远part鸡的育种和保护提供了坚实的遗传基础。
