干旱区生态环境知识资源中心(Arid): Assembly and comparative analysis of the complete mitochondrial genome of Viburnum chinshanense

Arid

DOI	10.1186/s12870-023-04493-4
	Assembly and comparative analysis of the complete mitochondrial genome of Viburnum chinshanense
	Zhu, Haoxiang; Shan, Yuanyu; Li, Jingling; Zhang, Xue; Yu, Jie; Wang, Haiyang
通讯作者	Yu, J ; Wang, HY
来源期刊	BMC PLANT BIOLOGY
ISSN	1471-2229
出版年	2023
卷号	23 期号:1
英文摘要	Background Viburnum chinshanense is an endemic species found exclusively in the North-Central and South-Central regions of China. This species is a lush garden ornamental tree and is extensively utilized for vegetation restoration in rocky desertification areas.Results In this study, we obtained 13.96 Gb of Oxford Nanopore data for the whole genome, and subsequently, by combining Illumina short-reads, we successfully assembled the complete mitochondrial genome (mitogenome) of the V. chinshanense using a hybrid assembly strategy. The assembled genome can be described as a circular genome. The total length of the V. chinshanense mitogenome measures 643,971 bp, with a GC content of 46.18%. Our annotation efforts have revealed a total of 39 protein-coding genes (PCGs), 28 tRNA genes, and 3 rRNA genes within the V. chinshanense mitogenome. The analysis of repeated elements has identified 212 SSRs, 19 long tandem repeat elements, and 325 pairs of dispersed repeats in the V. chinshanense mitogenome. Additionally, we have investigated mitochondrial plastid DNAs (MTPTs) and identified 21 MTPTs within the mitogenome and plastidial genome. These MTPTs collectively span a length of 9,902 bp, accounting for 1.54% of the mitogenome. Moreover, employing Deepred-mt, we have confidently predicted 623 C to U RNA editing sites across the 39 protein-coding genes. Furthermore, extensive genomic rearrangements have been observed between V. chinshanense and the mitogenomes of related species. Interestingly, we have also identified a bacterial-derived tRNA gene (trnC-GCA) in the V. chinshanense mitogenome. Lastly, we have inferred the phylogenetic relationships of V. chinshanense with other angiosperms based on mitochondrial PCGs.Conclusions This study marks the first report of a mitogenome from the Viburnum genus, offering a valuable genomic resource for exploring the evolution of mitogenomes within the Dipsacales order.
英文关键词	Viburnum chinshanense Mitochondrial genome RNA editing MTPT Dipsacales
类型	Article
语种	英语
开放获取类型	gold, Green Published
收录类别	SCI-E
WOS记录号	WOS:001084030700002
WOS关键词	PENTATRICOPEPTIDE REPEAT PROTEIN ; COMPLETE CHLOROPLAST GENOME ; TRANSFER-RNA GENES ; SEED DEVELOPMENT ; SEQUENCE ; DNA ; DIVERSIFICATION ; ANGIOSPERMS ; TRANSCRIPT ; ALIGNMENT
WOS类目	Plant Sciences
WOS研究方向	Plant Sciences
资源类型	期刊论文
条目标识符	http://119.78.100.177/qdio/handle/2XILL650/395594
推荐引用方式 GB/T 7714	Zhu, Haoxiang,Shan, Yuanyu,Li, Jingling,et al. Assembly and comparative analysis of the complete mitochondrial genome of Viburnum chinshanense[J],2023,23(1).
APA	Zhu, Haoxiang,Shan, Yuanyu,Li, Jingling,Zhang, Xue,Yu, Jie,&Wang, Haiyang.(2023).Assembly and comparative analysis of the complete mitochondrial genome of Viburnum chinshanense.BMC PLANT BIOLOGY,23(1).
MLA	Zhu, Haoxiang,et al."Assembly and comparative analysis of the complete mitochondrial genome of Viburnum chinshanense".BMC PLANT BIOLOGY 23.1(2023).