Mitochondrial genome structural characteristics and phylogenetic relationships of Dysomma anguillare
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摘要: 【目的】分析前肛鳗线粒体基因组结构特征与系统发育关系,为前肛鳗的分类鉴定及种质资源现状评估提供理论依据。【方法】采用高通量测序技术获得前肛鳗线粒体基因组序列,分析其基因组成和结构特征,结合GenBank已公布的近缘种鱼类线粒体基因组序列,基于蛋白编码基因(PCGs)序列相似性使用最大似然法构建系统发育进化树,分析该鱼类在鳗鲡目中的亲缘关系及进化地位。【结果】前肛鳗线粒体基因组序列全长16690 bp,包含13个PCGs、22个tRNA、2个rRNA(12S rRNA和16S rRNA)及2个非编码区(D-loop和OL),碱基组成具有明显的A/T偏好性和反G偏倚,其中D-loop区AT含量最高(65.56%)。ATG是PCGs中最常见的起始密码子,6个基因以不完全密码子T-和TA-作为终止密码子。22个tRNA中仅tRNA-Ser(AGN)因缺失二氢尿嘧啶臂无法折叠成典型的三叶草形,且在t RNA-Leu(UUR)中识别到与哺乳动物线粒体转录终止因子(m TERF)结合位点高度相似的基序5'-TGGCAGAGCCTGG-3'。12S rRNA和16S rRNA的二级结构均由多茎环组成,且后者较前者更复杂。16S rRNA的结构域Ⅳ中存在与原核生物23S rRNA肽基转移酶中心(PTC)同源的保守多分支环(CML)。D-loop区中识别了扩展终止序列区(ETAS)、中央保守区(CSB-F、CSB-E和CSB-D)和保守序列区(CSB-1、CSB-2和CSB-3)。基于PCGs序列相似性构建的系统发育进化树显示,前肛鳗与寄生鳗、软泥鳗和考柯氏合鳃鳗的亲缘关系较近。【结论】前肛鳗线粒体基因组结构与大多数硬骨鱼类相似,长度介于鳗鲡目鱼类线粒体基因组长度范围之间,系统发育分析结果支持将前肛鳗归为合鳃鳗科前肛鳗属的分类地位。Abstract: 【Objective】The mitochondrial genome structural characteristics and phylogenetic relationships of Dy-somma anguillare were investigated so as to provide theoretical basis for species identification and germplasm resource as-sessment of this fish.【Method】The complete mitogenome of D.anguillare was obtained by high-throughput sequencing technology in this study.The gene composition and structure characteristics were analyzed,based on the mitochondrial ge-nome sequence of related fish published by GenBank,the phylogenetic evolutionary tree was constructed using the maxi-mum likelihood method based on the sequence similarity of protein-coding genes (PCGs) to analyze the relationship and evolutionary status of the fish in Anguilliformes.【Result】The total length of mitochondrial genome of D.anguillare was16690 bp,including 13 PCGs,22 tRNA genes,2 rRNA (12S rRNA and 16S rRNA) and 2 non-coding regions (D-loop and OL).The base composition showed obvious noticeable A/T preference and anti-G-bias.The content of AT in D-loop re-gion was the highest (65.56%).ATG was the most common start codon in PCGs.Six genes used incomplete codons T-and TA-as stop codons.Only tRNA-Ser(AGN) could not fold into the typical clover shape due to the absence of dihydroura-cil arm among the 22 tRNAs.The motif 5'-TGGCAGAGCCTGG-3'was identified in tRNA-Leu(UUR),which was highly similar to the binding site of mammalian mitochondrial transcription termination factor (mTERF).The secondary struc-tures of 12S rRNA and 16S rRNA were composed of multiple stem-loops,with the latter more complex than the former.Domain VI of 16S rRNA contained a conserved multibranched loop (CML) homologous to the prokaryotic 23S rRNA peptidyl transferase center (PTC).In D-loop region,extended termination sequence regions (ETAS),central conserved re-gions (CSB-F,CSB-E and CSB-D) and conserved sequence regions (CSB-1,CSB-2 and CSB-3) were identified.The phylogenetic tree constructed based on PCGs sequence similarity demonstrated that the D.anguillare was closely related to Simenchelys parasitica,Ilyophis brunneus and Synaphobranchus kaupii.【Conclusion】The mitogenomic structure of D.anguillare is similar to those of most bony fishes,the total length of the mitochondrial genome is between the range of An-guilliformes fishes,and the phylogenetic relationships supports to place D.anguillare in Synaphobranchidae,Dysomma.
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Keywords:
- Dysomma anguillare /
- mitochondrial genome /
- structure and characteristics /
- phylogeny
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