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

文献类型： 外文期刊

第一作者： Wang, Longxin

作者： Wang, Longxin;Qin, Xiaochun;Li, Lei-Lei;Jia, Kai-Hua;Chen, Li;Zhang, Ren-Gang;Zhao, Shi-Wei;Yan, Han;Gao, Jie;Chen, Xue;Si, Yu-Jun;Chen, Zhe;Liu, Haibo;Xie, Xiao-Man;Han, Biao;Zhao, Wei

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关键词： Quercus variabilis; genome assembly; telomere-to-telomere; gap-less; haplotype-resolved

期刊名称：FRONTIERS IN PLANT SCIENCE （ 影响因子：5.6； 五年影响因子：6.8 ）

ISSN： 1664-462X

年卷期： 2023 年 14 卷

页码：

收录情况： SCI

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.

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