The complete mitochondrial genome of stag beetle Lucanus cervus (Coleoptera: Lucanidae) and phylogenetic analysis
The complete mitochondrial genome of stag beetle Lucanus cervus (Coleoptera: Lucanidae) and phylogenetic analysis
复制标题
锹虫Lucanus cervus（鞘翅目：Lucanidae）完整线粒体基因组及系统发育分析
DOI：
10.7717/peerj.8274
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发表时间：
2019-12-19
期刊：
影响因子：
2.7
通讯作者：
Wan, Xia
中科院分区：
文献类型：
--
作者：
Chen, Dan;Liu, Jing;Wan, Xia
鹿角甲（Lucanus cervus）（鞘翅目：鹿角甲科）广泛分布于欧洲。栖息地的丧失和破碎化导致该物种的数量显著减少。在这项研究中，我们对鹿角鹿的全线粒体基因组进行了测序，并利用全线粒体基因组序列重建了鹿角鹿科动物之间的系统发育关系。方法利用Illumina平台对鹿茸基因组DNA进行下一代测序，生成原始数据序列。线粒体基因组由IDBA组装，并用MITOS进行注释。利用PartitionFinder 2对线粒体基因序列进行分割。利用IQ-TREE web服务器上的最大似然（ML）方法和PhyloBayes MPI 1.5a中实现的贝叶斯方法构建了19种鹿角甲虫的系统发育关系。三种圣甲虫被用作外群体。结果鹿乳杆菌线粒体全基因组长度为20109 bp，包含13个蛋白质编码基因、22个转移RNA基因、2个核糖体RNA和1个控制区。多数链的A + T含量为69.93%。除了使用AAT的cox1外，所有的蛋白质编码基因都以典型的ATN起始密码子开始。基于ML和贝叶斯方法的系统发育分析表明，Lucanidae的拓扑结构一致。
Background The stag beetle Lucanus cervus (Coleoptera: Lucanidae) is widely distributed in Europe. Habitat loss and fragmentation has led to significant reductions in numbers of this species. In this study, we sequenced the complete mitochondrial genome of L. cervus and reconstructed phylogenetic relationships among Lucanidae using complete mitochondrial genome sequences. Methods Raw data sequences were generated by the next generation sequencing using Illumina platform from genomic DNA of L. cervus. The mitochondrial genome was assembled by IDBA and annotated by MITOS. The aligned sequences of mitochondrial genes were partitioned using PartitionFinder 2. Phylogenetic relationships among 19 stag beetle species were constructed using Maximum Likelihood (ML) method implemented in IQ-TREE web server and Bayesian method implemented in PhyloBayes MPI 1.5a. Three scarab beetles were used as outgroups. Results The complete mitochondrial genome of L. cervus is 20,109 bp in length, comprising 13 protein-coding genes, 22 transfer RNA genes, two ribosomal RNAs and a control region. The A + T content is 69.93% for the majority strand. All protein-coding genes start with the typical ATN initiation codons except for cox1, which uses AAT. Phylogenetic analyses based on ML and Bayesian methods shown consistent topologies among Lucanidae.