Centre for Tropical Livestock Genetics and Health (CTLGH), ILRI Ethiopia, P.O. Box 5689, Addis Ababa, Ethiopia.
The Jackson Laboratory, 600 Main Street, Bar Harbor, Maine, 04609, USA.
Sci Data. 2024 Jul 19;11(1):801. doi: 10.1038/s41597-024-03589-2.
The diversity in genome resources is fundamental to designing genomic strategies for local breed improvement and utilisation. These resources also support gene discovery and enhance our understanding of the mechanisms of resilience with applications beyond local breeds. Here, we report the genome sequences of 555 cattle (208 of which comprise new data) and high-density (HD) array genotyping of 1,082 samples (537 new samples) from indigenous African cattle populations. The new sequences have an average genome coverage of 30X, three times higher than the average (10X) of the over 300 sequences already in the public domain. Following variant quality checks, we identified approximately 32.3 million sequence variants and 661,943 HD autosomal variants mapped to the Bos taurus reference genome (ARS-UCD1.2). The new datasets were generated as part of the Centre for Tropical Livestock Genetics and Health (CTLGH) Genomic Reference Resource for African Cattle (GRRFAC) initiative, which aspires to facilitate the generation of this livestock resource and hopes for its utilisation for complete indigenous breed characterisation and sustainable global livestock improvement.
基因组资源的多样性是设计本地品种改良和利用基因组策略的基础。这些资源还支持基因发现，并增强了我们对弹性机制的理解，其应用超出了本地品种。在这里，我们报告了 555 头牛（其中 208 头是新数据）的基因组序列和 1082 个样本（537 个新样本）的高密度（HD）基因分型，这些样本来自非洲本地牛种群。新序列的平均基因组覆盖率约为 30X，是已经在公共领域的 300 多个序列（平均约 10X）的三倍。经过变异质量检查，我们确定了大约 3230 万个序列变异和 661943 个 HD 常染色体变异，这些变异映射到 Bos taurus 参考基因组（ARS-UCD1.2）。新数据集是热带家畜遗传与健康中心（CTLGH）非洲牛基因组参考资源（GRRFAC）倡议的一部分，该倡议旨在促进这种家畜资源的产生，并希望利用它来完成本地品种的全面特征描述和可持续的全球家畜改良。
