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濒危药用植物线粒体基因组全序列的组装与比较分析

Assembly and Comparative Analysis of Complete Mitochondrial Genome Sequence of Endangered Medicinal Plant .

作者信息

Chellappan Biju Vadakkemukadiyil, Shidhi P R, Sasi Anu, Ibrahim Rashid Ismael Hag, Zahra Hamad Abu

机构信息

Department of Biological Sciences, College of Science, King Faisal University, P.O. Box 420, Al-Ahsa 31982, Saudi Arabia.

Department of Zoology, University of Kerala, Kariyavattom Campus, Thiruvananthapuram 695581, Kerala, India.

出版信息

Curr Issues Mol Biol. 2025 Jul 16;47(7):553. doi: 10.3390/cimb47070553.

Abstract

Plant mitochondrial genomes exhibit extensive size variability and structural complexity. Here, we report the complete mitochondrial genome of , an endemic medicinal plant from the Western Ghats. The mitochondrial genome was assembled using a combination of Illumina short-read and PacBio long-read sequencing technologies, followed by extensive annotation and comparative analysis. The circular mitogenome spans 709,127 bp with a GC content of 46%, encoding 32 protein-coding genes, 17 tRNAs, and three rRNAs. Comparative analysis with other monocot mitochondrial genomes revealed conserved gene clusters but also significant lineage-specific rearrangements. Despite genome size similarities, displayed marked divergence in gene order, suggesting that genome size does not necessarily correlate with structural conservation. The genome contains 6.7% chloroplast-derived sequences and 324 predicted RNA-editing sites, predominantly in the first and second codon positions. Phylogenetic analysis based on mitochondrial genes placed as a distinct lineage within Dioscoreales, supporting its evolutionary uniqueness. This work provides the first mitogenomic resource for Dioscoreales and advances our understanding of mitochondrial diversity and evolution in monocots.

摘要

植物线粒体基因组表现出广泛的大小变异性和结构复杂性。在此,我们报告了一种来自西高止山脉的特有药用植物的完整线粒体基因组。该线粒体基因组通过Illumina短读长测序技术和PacBio长读长测序技术相结合进行组装,随后进行了广泛的注释和比较分析。环状线粒体基因组跨度为709,127 bp,GC含量为46%,编码32个蛋白质编码基因、17个tRNA和3个rRNA。与其他单子叶植物线粒体基因组的比较分析揭示了保守的基因簇,但也存在显著的谱系特异性重排。尽管基因组大小相似,但在基因顺序上显示出明显的差异,这表明基因组大小不一定与结构保守性相关。该基因组包含6.7%的叶绿体衍生序列和324个预测的RNA编辑位点,主要位于第一和第二密码子位置。基于线粒体基因的系统发育分析将该植物置于薯蓣目内一个独特的谱系中,支持其进化独特性。这项工作为薯蓣目提供了首个线粒体基因组资源,并推进了我们对单子叶植物线粒体多样性和进化的理解。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/167d/12293161/1a393e014303/cimb-47-00553-g001.jpg

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