The chromosome-scale genome of Magnolia sinica (Magnoliaceae) provides insights into the conservation of plant species with extremely small populations (PSESP)

doi:10.1093/gigascience/giad110

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	The chromosome-scale genome of Magnolia sinica (Magnoliaceae) provides insights into the conservation of plant species with extremely small populations (PSESP)
	Cai, Lei; Liu, Detuan; Yang, Fengmao; Zhang, Rengang; Yun, Quanzheng; Dao, Zhiling; Ma, Yongpeng; Sun, Weibang
	2024
发表期刊	GIGASCIENCE
ISSN	2047-217X
卷号	13 页码:giad110
摘要	Magnolia sinica (Magnoliaceae) is a highly threatened tree endemic to southeast Yunnan, China. In this study, we generated for the first time a high-quality chromosome-scale genome sequence from M. sinica, by combining Illumina and ONT data with Hi-C scaffolding methods. The final assembled genome size of M. sinica was 1.84 Gb, with a contig N50 of ca. 45 Mb and scaffold N50 of 92 Mb. Identified repeats constituted approximately 57% of the genome, and 43,473 protein-coding genes were predicted. Phylogenetic analysis shows that the magnolias form a sister clade with the eudicots and the order Ceratophyllales, while the monocots are sister to the other core angiosperms. In our study, a total of 21 individuals from the 5 remnant populations of M. sinica, as well as 22 specimens belonging to 8 related Magnoliaceae species, were resequenced. The results showed that M. sinica had higher genetic diversity (theta w = 0.01126 and theta pi = 0.01158) than other related species in the Magnoliaceae. However, population structure analysis suggested that the genetic differentiation among the 5 M. sinica populations was very low. Analyses of the demographic history of the species using different models consistently revealed that 2 bottleneck events occurred. The contemporary effective population size of M. sinica was estimated to be 10.9. The different patterns of genetic loads (inbreeding and numbers of deleterious mutations) suggested constructive strategies for the conservation of these 5 different populations of M. sinica. Overall, this high-quality genome will be a valuable genomic resource for conservation of M. sinica.
DOI	10.1093/gigascience/giad110
WOS记录号	WOS:001283055200003
引用统计
文献类型	期刊论文
条目标识符	http://ir.kib.ac.cn/handle/151853/75955
专题	中国科学院昆明植物研究所
推荐引用方式 GB/T 7714	Cai, Lei,Liu, Detuan,Yang, Fengmao,et al. The chromosome-scale genome of Magnolia sinica (Magnoliaceae) provides insights into the conservation of plant species with extremely small populations (PSESP)[J]. GIGASCIENCE,2024,13:giad110.
APA	Cai, Lei.,Liu, Detuan.,Yang, Fengmao.,Zhang, Rengang.,Yun, Quanzheng.,...&Sun, Weibang.(2024).The chromosome-scale genome of Magnolia sinica (Magnoliaceae) provides insights into the conservation of plant species with extremely small populations (PSESP).GIGASCIENCE,13,giad110.
MLA	Cai, Lei,et al."The chromosome-scale genome of Magnolia sinica (Magnoliaceae) provides insights into the conservation of plant species with extremely small populations (PSESP)".GIGASCIENCE 13(2024):giad110.

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