Comparative chloroplast genome analysis of Citrus (Rutaceae) species: Insights into genomic characterization, phylogenetic relationships, and discrimination of subgenera

doi:10.1016/j.scienta.2023.111909

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	Comparative chloroplast genome analysis of Citrus (Rutaceae) species: Insights into genomic characterization, phylogenetic relationships, and discrimination of subgenera
	Shi,Wenbo; Song,Weicai; Liu,Jin; Shi,Chao; Wang,Shuo
	2023
发表期刊	SCIENTIA HORTICULTURAE
ISSN	1879-1018
卷号	313 页码:111909
摘要	Citrus species are fruit trees with great economic value worldwide and have been domesticated and cultivated for several years. Although numerous phylogenetic taxonomy studies have been conducted since the establishment of the genus Citrus, the determination of phylogenetic relationships of Citrus species and the discrimination of Citrus subgenera face some challenges due to species hybridization, polyembryony, and asexual reproduction. In this study, the complete chloroplast genomes of 16 Citrus species were de novo assembled, then several unique characters were identified. For example, infA and rpl22 gene losses occurred in Citrus species; the trnQ-UUG gene may have played a significant role in the evolution of Citrus species; the rpoC1 gene in chloroplast genomes of Citrus species was under positive selection; and several highly variable loci (trnK-UUU-trnQ-UUG, atpF-atpH, trnG-GCC-trnfM-CAU, accD-psaI, petD-rpoA, and rpl32-trnL-UAG) were found in the chloroplast genomes of the Citrus species. These variable loci could serve as potential markers for phylogenetic studies. The genus Citrus was subdivided into seven subgenera based on phylogenetic analyses of the complete chloroplast genomes of Citrus species: Poncirus, Fortunella, Papeda, Citron, Cephalocitrus, Aurantium, and Sinocitrus. This study may help with the identification, taxonomy, use, and evolution of Citrus species.
关键词	Citrus Plastid genomics Genomic structure Sequence variation Molecular markers Phylogeny Taxonomy HORT. EX TANAKA GENETIC DIVERSITY MOLECULAR PHYLOGENY SPACER REGION JEJU ISLAND SEQUENCE DNA ORIGIN TAXONOMY AURANTIOIDEAE
学科领域	Agriculture
DOI	10.1016/j.scienta.2023.111909
收录类别	SCI
WOS记录号	WOS:000964884200001
引用统计
文献类型	期刊论文
条目标识符	http://ir.kib.ac.cn/handle/151853/75402
专题	中国科学院昆明植物研究所
推荐引用方式 GB/T 7714	Shi,Wenbo,Song,Weicai,Liu,Jin,et al. Comparative chloroplast genome analysis of Citrus (Rutaceae) species: Insights into genomic characterization, phylogenetic relationships, and discrimination of subgenera[J]. SCIENTIA HORTICULTURAE,2023,313:111909.
APA	Shi,Wenbo,Song,Weicai,Liu,Jin,Shi,Chao,&Wang,Shuo.(2023).Comparative chloroplast genome analysis of Citrus (Rutaceae) species: Insights into genomic characterization, phylogenetic relationships, and discrimination of subgenera.SCIENTIA HORTICULTURAE,313,111909.
MLA	Shi,Wenbo,et al."Comparative chloroplast genome analysis of Citrus (Rutaceae) species: Insights into genomic characterization, phylogenetic relationships, and discrimination of subgenera".SCIENTIA HORTICULTURAE 313(2023):111909.

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