Whole genome sequences of 234 indigenous African chickens from Ethiopia.
Whole genome sequences of 234 indigenous African chickens from Ethiopia.
复制标题
DOI：
10.1038/s41597-022-01129-4
复制
发表时间：
2022-02-14
期刊：
影响因子：
9.8
通讯作者：
Smith J
中科院分区：
文献类型：
--
作者：
Gheyas A;Vallejo-Trujillo A;Kebede A;Dessie T;Hanotte O;Smith J
本土鸡在非洲家禽生产中占主导地位。尽管由于它们能够适应恶劣的热带环境而成为后院农业的首选，但与商业品系相比，这些种群的生产力相对较低。基因组分析可以揭示这些鸟类在生产和恢复性状方面的遗传潜力，从而造福于非洲家禽养殖系统。在这里，我们报告了来自分布在不同农业气候条件下的 24 个埃塞俄比亚种群的 234 只本土鸡的全基因组序列。这些数据代表来自 Ilumina HiSeqX 平台的超过 8 TB 的双端序列，平均覆盖率约为 57X。几乎 99% 的序列读数可以映射到鸡参考基因组 (GRCg6a)，从而证实了数据的高质量。变异检出检测到约 1500 万个 SNP，其中约 86% 是已知变异（即存在于公共数据库中），这为数据质量提供了进一步的信心。该数据集为研究遗传多样性和当地环境适应提供了极好的资源，对品种改良和保护目的具有重要意义。描述报告数据的机器可访问元数据文件：10.6084/m9.figshare.16999891
Indigenous chickens predominate poultry production in Africa. Although preferred for backyard farming because of their adaptability to harsh tropical environments, these populations suffer from relatively low productivity compared to commercial lines. Genome analyses can unravel the genetic potential of improvement of these birds for both production and resilience traits for the benefit of African poultry farming systems. Here we report whole-genome sequences of 234 indigenous chickens from 24 Ethiopian populations distributed under diverse agro-climatic conditions. The data represents over eight terabytes of paired-end sequences from the Ilumina HiSeqX platform with an average coverage of about 57X. Almost 99% of the sequence reads could be mapped against the chicken reference genome (GRCg6a), confirming the high quality of the data. Variant calling detected around 15 million SNPs, of which about 86% are known variants (i.e., present in public databases), providing further confidence on the data quality. The dataset provides an excellent resource for investigating genetic diversity and local environmental adaptations with important implications for breed improvement and conservation purposes. Machine-accessible metadata file describing the reported data: 10.6084/m9.figshare.16999891
登录
查看更多内容
影响因子：
3.2
作者：
Padhi MK
通讯作者：
Padhi MK
影响因子：
9.8
作者：
Wang, Gao T.;Peng, Bo;Leal, Suzanne M.
通讯作者：
Leal, Suzanne M.
影响因子：
64.8
作者：
Rubin, Carl-Johan;Zody, Michael C.;Andersson, Leif
通讯作者：
Andersson, Leif
影响因子：
2.8
作者：
Stirling C;Andrews S;Croft T;Vickers J;Turner P;Robinson A
通讯作者：
Robinson A
影响因子：
5.8
作者：
Wang, Jing;Raskin, Leon;Guo, Yan
通讯作者：
Guo, Yan