| Comparative genomics and phylogenetic analysis of mitochondrial genomes of Neocinnamomum | |
Zhu, Wen; Zhang, Di1,2; Xu, Wenbin3; Gan, Yi4; Huang, Jiepeng5,6; Liu, Yanyu5,6; Tan, Yunhong1,2 ; Song, Yu5,6; Xin, Peiyao
| |
| 2025 | |
| Source Publication | BMC PLANT BIOLOGY
 |
| ISSN | 1471-2229 |
| Volume | 25Issue:1Pages:- |
| Abstract | BackgroundNeocinnamomum plants are considered a promising feedstock for biodiesel in China, due to the richness in long-chain fatty acids (LCFAs) found in their seeds. However, the mitochondrial genome (mitogenome) of this genus has not yet been systematically described, and the exploration of species relationships within this genus using mitogenome sequences is also an uncharted territory. This has hindered our understanding of mitogenome diversity and the evolutionary relationships within Neocinnamomum.ResultsIn this study, a total of 24 individuals representing seven distinct taxa from the genus Neocinnamomum were subjected to Illumina sequencing, and the species N. delavayi was sequenced using Oxford Nanopore sequencing technology. We successfully assembled the mitogenome of N. delavayi, which is 778,066 bp in size and exhibits a single circular structure. The analysis identified 659 dispersed repeats, 211 simple sequence repeats (SSRs), and 30 tandem repeats within the mitogenome. Additionally, 37 homologous fragments, totaling 9929 bp, were found between the mitogenome and the plastid genome (plastome). The codons of 41 protein-coding genes (PCGs) had a preference for ending in A/T, and the codon usage bias of the majority of these genes was influenced by natural selection pressures. Comparative genomic analysis revealed low collinearity and significant gene rearrangements between species. Phylogenetic analysis resulted in the classification of Neocinnamomum into six distinct clades, contradicting previous findings which based on complete plastomes and nuclear ribosomal cistron (nrDNA). In the PCGs of 24 individuals, 86 mutation events were identified, which included three indels and 83 SNPs. Notably, the ccmC gene underwent positive selection in pairwise comparisons of three species pairs. Furthermore, 748 RNA editing sites were predicted within the PCGs of the N. delavayi mitogenome.ConclusionsThis study enriches our knowledge of the mitogenomes in the family Lauraceae, and provides valuable data and a foundation for genomic evolution research, genetic resource conservation, and molecular breeding in Neocinnamomum. |
| Keyword | Lauraceae Oil plant Mitochondrial genome Homologous fragments Phylogenomic inconsistencies |
| Subject Area | Plant Sciences |
| DOI | 10.1186/s12870-025-06238-x |
| Indexed By | SCI |
| Language | 英语 |
| WOS ID | WOS:001439277400004 |
| Citation statistics | |
| Document Type | 期刊论文 |
| Identifier | https://ir.xtbg.ac.cn/handle/353005/14713 |
| Collection | 2012年后新成立研究组 |
| Affiliation | 1.Southwest Forestry Univ, Engn Technol Res Ctr, Natl Forestry & Grassland Adm Southwest Landscape, Kunming 650224, Yunnan, Peoples R China 2.Chinese Acad Sci, Southeast Asia Biodivers Res Inst, Mengla 666303, Yunnan, Peoples R China 3.Chinese Acad Sci, Ctr Integrat Conservat, Xishuangbanna Trop Bot Garden, Mengla 666303, Yunnan, Peoples R China 4.Chinese Acad Sci, Wuhan Bot Garden, Wuhan 430074, Hubei, Peoples R China 5.Zhejiang A&F Univ, Coll Adv Agr Sci, Hangzhou 311300, Zhejiang, Peoples R China 6.Guangxi Normal Univ, Key Lab Ecol Rare & Endangered Species & Environm, Minist Educ, Guilin 541004, Guangxi, Peoples R China 7.Guangxi Normal Univ, Guangxi Key Lab Landscape Resources Conservat & Su, Guilin 541004, Guangxi, Peoples R China |
| Recommended Citation GB/T 7714 | Zhu, Wen,Zhang, Di,Xu, Wenbin,et al. Comparative genomics and phylogenetic analysis of mitochondrial genomes of Neocinnamomum[J]. BMC PLANT BIOLOGY,2025,25(1):-. |
| APA | Zhu, Wen.,Zhang, Di.,Xu, Wenbin.,Gan, Yi.,Huang, Jiepeng.,...&Xin, Peiyao.(2025).Comparative genomics and phylogenetic analysis of mitochondrial genomes of Neocinnamomum.BMC PLANT BIOLOGY,25(1),-. |
| MLA | Zhu, Wen,et al."Comparative genomics and phylogenetic analysis of mitochondrial genomes of Neocinnamomum".BMC PLANT BIOLOGY 25.1(2025):-. |
| Files in This Item: | Download All | |||||
| File Name/Size | DocType | Version | Access | License | ||
| Comparative genomics（9359KB） | 期刊论文 | 出版稿 | 开放获取 | CC BY-NC-SA | View Download | |
Items in the repository are protected by copyright, with all rights reserved, unless otherwise indicated.
Edit Comment