Complete mitochondrial genome sequences of the northern spotted owl (Strix occidentalis caurina) and the barred owl (Strix varia; Aves: Strigiformes: Strigidae) confirm the presence of a duplicated control region.
Complete mitochondrial genome sequences of the northern spotted owl (Strix occidentalis caurina) and the barred owl (Strix varia; Aves: Strigiformes: Strigidae) confirm the presence of a duplicated control region.
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作者：
Hanna ZR;Henderson JB;Sellas AB;Fuchs J;Bowie RCK;Dumbacher JP
我们在这里报告了北方斑鸮（Strix occidentalis caurina）和斑纹鸮（S. varia）完整线粒体基因组的成功组装。我们利用了两种测序方法的序列数据，即插入长度范围从大约 250 个核苷酸 (nt) 到 9,600 nt、读取长度范围从 100-375 nt 的 Illumina 双端序列数据和 Sanger 衍生序列。我们采用了多个装配程序和对齐方法来生成最终的组件。 S. o. 的环状基因组caurina 和 S. varia 分别由 19,948 nt 和 18,975 nt 组成。两者都编码两种 rRNA、二十二种 tRNA 和十三种多肽。它们都具有具有复杂重复结构的重复控制区序列。我们无法仅使用 Illumina 双端序列数据组装控制区域。通过完全跨越控制区域，桑格衍生的序列能够准确、完整地组装这些线粒体基因组。这是第一个完整的猫头鹰（鸟纲：Strigiformes）线粒体基因组序列，具有重复的控制区域。我们搜索了 S. o. 的核基因组。 caurina 寻找线粒体基因的副本，并发现了源自线粒体基因组 (Numts) 的至少九个独立的基因序列核副本。 Numt 的长度范围为 226–19,522 nt，包括除 tRNAPro、ND6 和 tRNAGlu 之外的所有线粒体基因的副本。 Strix occidentalis caurina 和 S. varia 在非 tRNA 线粒体基因上平均表现出 10.74%（8.68% 未校正 p 距离）的差异。
We report here the successful assembly of the complete mitochondrial genomes of the northern spotted owl (Strix occidentalis caurina) and the barred owl (S. varia). We utilized sequence data from two sequencing methodologies, Illumina paired-end sequence data with insert lengths ranging from approximately 250 nucleotides (nt) to 9,600 nt and read lengths from 100–375 nt and Sanger-derived sequences. We employed multiple assemblers and alignment methods to generate the final assemblies. The circular genomes of S. o. caurina and S. varia are comprised of 19,948 nt and 18,975 nt, respectively. Both code for two rRNAs, twenty-two tRNAs, and thirteen polypeptides. They both have duplicated control region sequences with complex repeat structures. We were not able to assemble the control regions solely using Illumina paired-end sequence data. By fully spanning the control regions, Sanger-derived sequences enabled accurate and complete assembly of these mitochondrial genomes. These are the first complete mitochondrial genome sequences of owls (Aves: Strigiformes) possessing duplicated control regions. We searched the nuclear genome of S. o. caurina for copies of mitochondrial genes and found at least nine separate stretches of nuclear copies of gene sequences originating in the mitochondrial genome (Numts). The Numts ranged from 226–19,522 nt in length and included copies of all mitochondrial genes except tRNAPro, ND6, and tRNAGlu. Strix occidentalis caurina and S. varia exhibited an average of 10.74% (8.68% uncorrected p-distance) divergence across the non-tRNA mitochondrial genes.
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影响因子：
3.3
作者：
Barrowclough, GF;Gutiérrez, RJ;Groth, JG
通讯作者：
Groth, JG
影响因子：
4.1
作者：
Faber, JE;Stepien, CA
通讯作者：
Stepien, CA
影响因子：
7.7
作者：
De Wit, Pierre;Pespeni, Melissa H.;Palumbi, Stephen R.
通讯作者：
Palumbi, Stephen R.
影响因子：
5.6
作者：
DESJARDINS, P;MORAIS, R
通讯作者：
MORAIS, R
DOI：
10.1093/bioinformatics/btp348
发表时间：
2009-08-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Capella-Gutiérrez S;Silla-Martínez JM;Gabaldón T
通讯作者：
Gabaldón T