Telomere-to-telomere and haplotype-resolved genome assembly of the Chinese cork oak (Quercus variabilis)

doi:10.3389/fpls.2023.1290913

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	Telomere-to-telomere and haplotype-resolved genome assembly of the Chinese cork oak (Quercus variabilis)
	Wang,Longxin; Li,Lei-Lei; Chen,Li; Zhang,Ren-Gang; Zhao,Shi-Wei; Yan,Han; Gao,Jie; Chen,Xue; Si,Yu-Jun; Chen,Zhe; Liu,Haibo; Xie,Xiao-Man; Zhao,Wei; Han,Biao; Qin,Xiaochun; Jia,Kai-Hua
	2023
发表期刊	FRONTIERS IN PLANT SCIENCE
卷号	14 页码:1290913
摘要	The Quercus variabilis, a deciduous broadleaved tree species, holds significant ecological and economical value. While a chromosome-level genome for this species has been made available, it remains riddled with unanchored sequences and gaps. In this study, we present a nearly complete comprehensive telomere-to-telomere (T2T) and haplotype-resolved reference genome for Q. variabilis. This was achieved through the integration of ONT ultra-long reads, PacBio HiFi long reads, and Hi-C data. The resultant two haplotype genomes measure 789 Mb and 768 Mb in length, with a contig N50 of 65 Mb and 56 Mb, and were anchored to 12 allelic chromosomes. Within this T2T haplotype-resolved assembly, we predicted 36,830 and 36,370 protein-coding genes, with 95.9% and 96.0% functional annotation for each haplotype genome. The availability of the T2T and haplotype-resolved reference genome lays a solid foundation, not only for illustrating genome structure and functional genomics studies but also to inform and facilitate genetic breeding and improvement of cultivated Quercus species.
关键词	Quercus variabilis genome assembly telomere-to-telomere gap-less haplotype-resolved PROGRAM PROTEIN TRANSCRIPTOME ALIGNMENTS PROVIDES SYSTEM
DOI	10.3389/fpls.2023.1290913
WOS记录号	WOS:001104875100001
引用统计
文献类型	期刊论文
条目标识符	http://ir.kib.ac.cn/handle/151853/74990
专题	中国科学院昆明植物研究所
推荐引用方式 GB/T 7714	Wang,Longxin,Li,Lei-Lei,Chen,Li,et al. Telomere-to-telomere and haplotype-resolved genome assembly of the Chinese cork oak (Quercus variabilis)[J]. FRONTIERS IN PLANT SCIENCE,2023,14:1290913.
APA	Wang,Longxin.,Li,Lei-Lei.,Chen,Li.,Zhang,Ren-Gang.,Zhao,Shi-Wei.,...&Jia,Kai-Hua.(2023).Telomere-to-telomere and haplotype-resolved genome assembly of the Chinese cork oak (Quercus variabilis).FRONTIERS IN PLANT SCIENCE,14,1290913.
MLA	Wang,Longxin,et al."Telomere-to-telomere and haplotype-resolved genome assembly of the Chinese cork oak (Quercus variabilis)".FRONTIERS IN PLANT SCIENCE 14(2023):1290913.

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