中国水产科学2025，Vol.32Issue(12)：1808-1821,14.DOI:10.12264/JFSC2025-0144
汤氏角灯鱼线粒体全基因组及灯笼鱼科系统发育分析
Complete mitochondrial genome assembly of Ceratoscopelus townsendi and phylogenetic analysis of the family Myctophidae
摘要
Abstract
The family Myctophidae plays a crucial role in marine pelagic fish communities.Ceratoscopelus townsendi,as a member of the genus Ceratoscopelus,is an important food source for numerous oceanic economic fish.It also serves as a biological pump connecting the upper and lower ocean layers,playing a key role in the active oceanic carbon cycle and food web of the Northwest Pacific.However,genomic research on this species is limited.To enrich the Myctophidae genomic database and improve species identification accuracy,we sequenced,assembled,and annotated the complete C.townsendi mitochondrial genome and conducted a phylogenetic analysis.The results showed that the total mitochondrial genome length was 17780 bp,containing 37 coding genes and 1 non-coding region.These genes were distributed across light(L)and heavy(H)strands,with gene overlaps and intergenic regions.Its genome structure was consistent with that of other Myctophidae species.Base composition analysis revealed an AT bias,with the top five most frequent codons being CCC(P),CCU(P),CUC(L),CUU(L),and CAC(H).The total length of protein-coding genes accounted for 57.9％of the genome,with codon usage preferences and distinct base biases across genes.tRNA genes were distributed on both H and L strands,with some duplications,while rRNA genes occupied specific regions with characteristic base compositions.Ka/Ks ratios of 13 protein-coding genes in the mitochondrial genomes of Myctophidae were all lower than 1,indicating purifying selection.Phylogenetic analysis showed that C.townsendi clustered closely with C.maderensis and was closely related to Bolinichthys,thereby clarifying its phylogenetic position within Myctophidae.This study enriches mitochondrial genomic information for Myctophidae,providing important data to support future research on species identification,phylogenetics,and biodiversity within this family.关键词
汤氏角灯鱼/线粒体基因组/系统发育分析/基因结构/碱基组成Key words
Ceratoscopelus townsendi/mitochondrial genome/phylogenetic analysis/gene structure/base composition分类
农业科技引用本文复制引用
王景奇,刘乙蒙,刘必林,刘洋,王丛丛..汤氏角灯鱼线粒体全基因组及灯笼鱼科系统发育分析[J].中国水产科学,2025,32(12):1808-1821,14.基金项目
农业农村部公海渔业资源综合科学调查专项(D-8025-24-5002). （D-8025-24-5002）
