Museum of Vertebrate Zoology, University of California, Berkeley, California, USA.
Department of Integrative Biology, University of California, Berkeley, California, USA.
Genome Biol Evol. 2017 Oct 1;9(10):2522-2545. doi: 10.1093/gbe/evx158.
We report here the assembly of a northern spotted owl (Strix occidentalis caurina) genome. We generated Illumina paired-end sequence data at 90× coverage using nine libraries with insert lengths ranging from ∼250 to 9,600 nt and read lengths from 100 to 375 nt. The genome assembly is comprised of 8,108 scaffolds totaling 1.26 × 109 nt in length with an N50 length of 3.98 × 106 nt. We calculated the genome-wide fixation index (FST) of S. o. caurina with the closely related barred owl (Strix varia) as 0.819. We examined 19 genes that encode proteins with light-dependent functions in our genome assembly as well as in that of the barn owl (Tyto alba). We present genomic evidence for loss of three of these in S. o. caurina and four in T. alba. We suggest that most light-associated gene functions have been maintained in owls and their loss has not proceeded to the same extent as in other dim-light-adapted vertebrates.
我们在此报告了一只北方斑点猫头鹰（Strix occidentalis caurina）基因组的组装。我们使用插入长度在 250 至 9600nt 之间的九个文库，生成了 Illumina 配对末端序列数据，覆盖率为 90×，读长为 100 至 375nt。基因组组装由 8108 个支架组成，总长度为 1.26×109nt，N50 长度为 3.98×106nt。我们计算了北方斑点猫头鹰与亲缘关系密切的条纹猫头鹰（Strix varia）之间的全基因组固定指数（FST）为 0.819。我们在我们的基因组组装中以及在仓鸮（Tyto alba）的基因组组装中检查了 19 个编码具有光依赖性功能的蛋白质的基因。我们提供了基因组证据，表明在北方斑点猫头鹰中有三个基因丢失，在仓鸮中有四个基因丢失。我们认为，大多数与光相关的基因功能在猫头鹰中得以保留，而这些基因的丢失并没有像在其他暗光适应的脊椎动物中那样进展到相同程度。
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