De Novo Assembly of First Mitochondrial Genome in <i>Melicope pteleifolia</i> (Rutaceae): Resolving Inter-Organellar Gene Transfer Events Through Integrated Chloroplast Analysis

De Novo Assembly of First Mitochondrial Genome in <i>Melicope pteleifolia</i> (Rutaceae): Resolving Inter-Organellar Gene Transfer Events Through Integrated Chloroplast Analysis

<i>Melicope pteleifolia</i> (Rutaceae) is a shrub or tree with high medicinal value. Although the physical features of <i>M. pteleifolia</i> are evident, the mitochondrial (mt) genome has yet to be investigated, and its evolutionary relationship within Rutaceae is unclear. Th...

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Bibliographic Details
Main Authors: Lijun Guo, Wenwen Shi, Yatao Luo, Kai Gao, Jingli Huang, Hong Wei, Pan Liang, Longfei He, Dong Xiao, Jie Zhan, Guangyu Zeng, Aiqin Wang
Format: Article
Language:English
Published: MDPI AG 2025-06-01
Series:Horticulturae
Subjects:
<i>Melicope pteleifolia</i>
mitochondrial genome
chloroplast genome
RNA editing
phylogeny
Online Access:https://www.mdpi.com/2311-7524/11/6/628
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Summary:<i>Melicope pteleifolia</i> (Rutaceae) is a shrub or tree with high medicinal value. Although the physical features of <i>M. pteleifolia</i> are evident, the mitochondrial (mt) genome has yet to be investigated, and its evolutionary relationship within Rutaceae is unclear. The organelle genomes of <i>M. pteleifolia</i> were constructed using Nanopore and Illumina sequencing data. The circular mt genome is 780,107 base pairs (bp) long, with a GC content of 44.85%. It has 66 genes, consisting of 33 protein-coding genes (PCGs), 30 tRNA genes, and 3 rRNA genes. The length of the chloroplast (cp) genome was 158,987 bp, containing 88 PCGs, 37 tRNAs, and 8 rRNAs. The mtDNA and cpDNA contained 507 and 353 repetitive sequences, respectively. RNA editing sites were abundant in <i>M. pteleifolia</i> organelle genomes, including 323 sites in mtDNA and 260 sites in cpDNA. Phylogenetic research using the cp and mt genomes of <i>M. pteleifolia</i> and nine additional species of the Rutaceae family precisely delineates its evolutionary and taxonomic position. Ka/Ks and nucleotide diversity indicated that the majority of the PCGs in the mitochondrial genome had experienced negative selection. These findings provided comprehensive information on the <i>M. pteleifolia</i> mitogenome for studying phylogenetic relationships in Rutaceae, with chloroplast-derived sequences providing critical evidence for inter-organellar genome evolution.
ISSN:2311-7524

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