Scholarlink

<p>Phylogenetic relationships within Penaeoidea, particularly among taxa of Penaeidae, have long remained controversial. To expand mitogenomic resources for Penaeidae and evaluate the phylogenetic position of <i>Atypopenaeus stenodactylus</i> (Stimpson, 1860), we sequenced and annotated its complete mitochondrial genome and analyzed gene composition, codon usage, tRNA secondary structure, selective pressure, intraspecific mitogenomic variation and phylogenetic relationships. The mitogenome of <i>A. stenodactylus</i> is a typical closed circular double-stranded DNA molecule of 15,933&#xa0;bp, containing 13 protein-coding genes (PCGs), 22 tRNA genes, two rRNA genes and one D-loop region, with a pronounced A + T bias. Among the 22 tRNAs, all except <i>trnS1</i>, which lacks the DHU arm, formed typical cloverleaf structures, although some showed limited local variation. All 13 PCGs had Ka/Ks values below 1, indicating overall purifying selection; <i>nad6</i> showed the highest Ka/Ks value, whereas <i>cox1</i> had the lowest. Comparative analysis of the three available <i>A. stenodactylus</i> mitogenomes, PV007824, PX672768 and PV434778, revealed conserved gene order and low sequence divergence, with variation mainly concentrated in the non-coding D-loop region. Phylogenetic analysis based on 13 PCGs placed <i>A. stenodactylus</i> within Penaeidae and showed close relationships with <i>Metapenaeus</i>, <i>Alcockpenaeopsis</i>, <i>Batepenaeopsis</i> and <i>Trachypenaeus</i>, although traditional Penaeidae monophyly was not recovered. After inclusion of the three conspecific mitogenomes, PV007824, PX672768 and PV434778 clustered together, further supporting the stability of the inferred phylogenetic position. Overall, this study enriches mitogenomic resources for Penaeidae and provides new molecular evidence for resolving phylogenetic relationships within Penaeoidea.</p> Graphical Abstract <p></p>

错误：搜索内容不能为空，请输入英文关键词
错误：关键词超出字数限制，请精简
高级检索

Complete Mitochondrial Genome Analysis of Atypopenaeus stenodactylus and Its Phylogenetic Significance Within Penaeidae

  • 期刊论文

  • 发表日期：

    2026年7月27日

查看全文
  • Haoxue Wang,
  • Jiaying Zeng,
  • Pengfei Li,
  • Kaida Xu

摘要

Phylogenetic relationships within Penaeoidea, particularly among taxa of Penaeidae, have long remained controversial. To expand mitogenomic resources for Penaeidae and evaluate the phylogenetic position of Atypopenaeus stenodactylus (Stimpson, 1860), we sequenced and annotated its complete mitochondrial genome and analyzed gene composition, codon usage, tRNA secondary structure, selective pressure, intraspecific mitogenomic variation and phylogenetic relationships. The mitogenome of A. stenodactylus is a typical closed circular double-stranded DNA molecule of 15,933 bp, containing 13 protein-coding genes (PCGs), 22 tRNA genes, two rRNA genes and one D-loop region, with a pronounced A + T bias. Among the 22 tRNAs, all except trnS1, which lacks the DHU arm, formed typical cloverleaf structures, although some showed limited local variation. All 13 PCGs had Ka/Ks values below 1, indicating overall purifying selection; nad6 showed the highest Ka/Ks value, whereas cox1 had the lowest. Comparative analysis of the three available A. stenodactylus mitogenomes, PV007824, PX672768 and PV434778, revealed conserved gene order and low sequence divergence, with variation mainly concentrated in the non-coding D-loop region. Phylogenetic analysis based on 13 PCGs placed A. stenodactylus within Penaeidae and showed close relationships with Metapenaeus, Alcockpenaeopsis, Batepenaeopsis and Trachypenaeus, although traditional Penaeidae monophyly was not recovered. After inclusion of the three conspecific mitogenomes, PV007824, PX672768 and PV434778 clustered together, further supporting the stability of the inferred phylogenetic position. Overall, this study enriches mitogenomic resources for Penaeidae and provides new molecular evidence for resolving phylogenetic relationships within Penaeoidea.

Graphical Abstract