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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
Source PublicationFRONTIERS IN PLANT SCIENCE
Volume14Pages:1290913
AbstractThe 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.
KeywordQuercus variabilis genome assembly telomere-to-telomere gap-less haplotype-resolved PROGRAM PROTEIN TRANSCRIPTOME ALIGNMENTS PROVIDES SYSTEM
DOI10.3389/fpls.2023.1290913
WOS IDWOS:001104875100001
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Document Type期刊论文
Identifierhttp://ir.kib.ac.cn/handle/151853/74990
Collection中国科学院昆明植物研究所
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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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