| 瑞氏红鲂(鱼弗)(Satyrichthys rieffeli)基因组survey分析及线粒体基因组注释 |
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| 引用本文： | 廖贤晖,王乙婷,瞿印权,刘启,高天翔.瑞氏红鲂(鱼弗)(Satyrichthys rieffeli)基因组survey分析及线粒体基因组注释[J].海洋与湖沼,2023,54(5):1517-1528. |
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| 作者姓名： | 廖贤晖 王乙婷 瞿印权 刘启 高天翔 |
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| 作者单位： | 浙江海洋大学水产学院 浙江舟山 316022;武汉万摩科技有限公司 湖北武汉 430076 |
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| 基金项目： | 浙江省重点研发计划项目,2021C2047号。 |
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| 摘 要： | 为了解瑞氏红鲂(鱼弗) (Satyrichthys rieffeli)的基因组特征及线粒体基因组结构, 采用二代高通量测序技术对瑞氏红鲂(鱼弗) 进行基因组survey分析, 为研究其分子学内容提供基础信息。利用Illumina nova测序平台进行测序, 组装得到的基因组大小为813 Mb, 杂合率为0.92%, 重复序列比例为45.97%, Contigs的N50大小为712 bp。瑞氏红鲂(鱼弗)线粒体基因组长度为16 527 bp, 共38个基因(22个tRNA、12S rRNA、16S rRNA、ND1~ND6、COXI~COXIII、Cyt b、ATP8、ATP6、ND4L和1个D-loop区), 基因之间未发生重排, GC含量45.70%; 蛋白质编码基因中出现不完整的密码子T--和TA-; tRNA中只有tRNA-Ser (GCT)缺失了二氢尿苷臂(DHU臂)的简单环, 其他都是正常二级结构。此外, 联合NCBI中18个鲉形目鱼类的线粒体基因组, 利用最大似然法和贝叶斯法构建了鲉形目鱼类的分子系统发育关系。结果表明, 瑞氏红鲂(鱼弗)与同为黄鲂(鱼弗)科的须叉吻鲂(鱼弗) (Scalicus amiscus)为姐妹分支, 支持瑞氏红鲂(鱼弗)是黄鲂(鱼弗)科鱼类的形态学分类结果, 为开展黄鲂(鱼弗)科鱼类系统发育深入研究奠定了基础。
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| 关 键 词： | 瑞氏红鲂(鱼弗) 基因组survey 线粒体基因组 系统发育关系 |
| 收稿时间： | 2023/2/28 0:00:00 |
| 修稿时间： | 2023/4/28 0:00:00 |
THE GENOME SURVEY ANALYSIS AND MITOCHONDRIAL GENOME ANNOTATION OF SATYRICHTHYS RIEFFELI |
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| LIAO Xian-Hui,WANG Yi-Ting,QU Yin-Quan,LIU Qi,GAO Tian-Xiang.THE GENOME SURVEY ANALYSIS AND MITOCHONDRIAL GENOME ANNOTATION OF SATYRICHTHYS RIEFFELI[J].Oceanologia Et Limnologia Sinica,2023,54(5):1517-1528. |
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| Authors: | LIAO Xian-Hui WANG Yi-Ting QU Yin-Quan LIU Qi GAO Tian-Xiang |
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| Institution: | Fishery College, Zhejiang Ocean University, Zhoushan 316022, China;Wuhan Wanmo Technology Company Limited, Wuhan 430076, China |
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| Abstract: | In order to understand the genome characteristics and mitochondrial genome structure of Satyrichthys rieffeli, the second-generation high-throughput sequencing technology was used to conduct genome survey analysis of S. rieffeli, to provide basic information for studying its molecular content on the Illumina nova sequencing platform. Results show that the size of the assembled genome was 813 Mb, the heterozygosity was 0.92%, the proportion of repetitive sequences was 45.97%, and the N50 of Contigs was 712 bp. The mitochondrial genome of S. rieffeli is 16 527 bp long, with 38 genes (22 tRNAs, 12S rRNAs, 16S rRNAs, ND1~ND6, COXI~COXIII, Cyt b, ATP8, ATP6, ND4L, and one D-loop region). No rearrangement occurred among genes, and the GC content was 45.70%. Incomplete codons T-- and TA- appeared in protein coding genes. In tRNA, only tRNA Ser (GCT) lacked the simple loop of dihydrouridine arm (DHU arm), and the others had normal secondary structures. In addition, combined with the mitochondrial genomes of 18 Scorpaeniformes in NCBI, the molecular phylogenetic relationship of Scorpaeniformes was constructed using the maximum likelihood method and Bayesian method. Moreover, S. rieffeli and Scalicus amiscus form a clade as sisters as they belong to the same family Peristediidae, which is consistent with the previously reported morphological classification of S. rieffeli. The study laid the foundation for in-depth study on the phylogenic relationship of Peristediidae. |
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| Keywords: | Satyrichthys rieffeli genome survey mitochondrial genome phylogenetic relationship |
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