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

doi:10.3389/fpls.2023.1290913

KIB OpenIR

	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
Source Publication	FRONTIERS IN PLANT SCIENCE
Volume	14 Pages:1290913
Abstract	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.
Keyword	Quercus variabilis genome assembly telomere-to-telomere gap-less haplotype-resolved PROGRAM PROTEIN TRANSCRIPTOME ALIGNMENTS PROVIDES SYSTEM
DOI	10.3389/fpls.2023.1290913
WOS ID	WOS:001104875100001
Citation statistics
Document Type	期刊论文
Identifier	http://ir.kib.ac.cn/handle/151853/74990
Collection	中国科学院昆明植物研究所
Recommended Citation 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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