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Objectives <p><i>Taxus sumatrana</i> is an endangered and medicinally important gymnosperm native to Southeast Asia, facing increasing threats due to overexploitation and habitat loss. Despite its ecological and pharmacological significance, its chloroplast (cp.) genome remains poorly characterized. This study aims to report the complete cp. genome of <i>T. sumatrana</i>, providing a comprehensive analysis of its structure, gene content, and phylogenetic placement. The findings offer valuable genomic resources to support future research in plant evolution and conservation.</p> Result <p>The circular cp. genome of <i>T. sumatrana</i> is 129,227&#xa0;bp in length. Consistent with other members of the <i>Taxus</i> genus, it lacks the typical inverted repeat (IR) regions commonly found in chloroplast genomes. A total of 119 genes were annotated, including 81 protein-coding genes, 34 transfer RNAs (tRNAs), and 4 ribosomal RNAs (rRNAs). Among 118 genes, 15 genes are containing introns. Additionally, 115 simple sequence repeats (SSRs) were identified, with mononucleotide repeats being the most abundant (77.4%). Phylogenetic analysis based on 24 complete cp. genomes showed that <i>T. sumatrana</i> is most closely related to <i>T. mairei</i>, forming a strongly supported clade within the <i>Taxus</i> genus.</p>

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The chloroplast genome of Taxus sumatrana, an endangered medicinal tree from Indonesia

  • 期刊论文

  • 出版模式：

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  • 发表日期：

    2025年10月16日

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  • Fitri Indriani,
  • Muhammad Imam Surya,
  • Vandra Kurniawan,
  • Wanda Kuswanda,
  • Haidir Haidir,
  • Alya Sabila Fahrisa

摘要

Objectives

Taxus sumatrana is an endangered and medicinally important gymnosperm native to Southeast Asia, facing increasing threats due to overexploitation and habitat loss. Despite its ecological and pharmacological significance, its chloroplast (cp.) genome remains poorly characterized. This study aims to report the complete cp. genome of T. sumatrana, providing a comprehensive analysis of its structure, gene content, and phylogenetic placement. The findings offer valuable genomic resources to support future research in plant evolution and conservation.

Result

The circular cp. genome of T. sumatrana is 129,227 bp in length. Consistent with other members of the Taxus genus, it lacks the typical inverted repeat (IR) regions commonly found in chloroplast genomes. A total of 119 genes were annotated, including 81 protein-coding genes, 34 transfer RNAs (tRNAs), and 4 ribosomal RNAs (rRNAs). Among 118 genes, 15 genes are containing introns. Additionally, 115 simple sequence repeats (SSRs) were identified, with mononucleotide repeats being the most abundant (77.4%). Phylogenetic analysis based on 24 complete cp. genomes showed that T. sumatrana is most closely related to T. mairei, forming a strongly supported clade within the Taxus genus.