Supporting data for "The telomere-to-telomere genome of flowering cherry (<i>Prunus campanulata</i>) reveals genomic evolution of the subgenus Cerasus"

<i>Prunus campanulata</i>, a species of ornamental cherry, holds significant genetic and horticultural value. Despite the availability of various cherry genomes, a fully resolved telomere-to-telomere (T2T) assembly for this species has been lacking. Recent advancements in long-read sequencing technologies have made it possible to generate gap-free genome assemblies, providing comprehensive insights into genomic structures that were previously inaccessible. <br>We present the first T2T genome assembly for <i>P. campanulata</i> Lianmeiren (v2.0), achieved through the integration of PacBio HiFi, ultra-long Oxford Nanopore Technologies, Illumina, and Hi-C sequencing. The assembly resulted in a highly contiguous genome with a total size of 266.23 Mb and a contig N50 of 31.6 Mb. The genome exhibits remarkable completeness (98.9% BUSCO) and high accuracy (QV of 48.75). Additionally, 13 telomeres and putative centromere regions were successfully identified across the eight pseudochromosomes. Comparative analysis with the previous v1.0 assembly revealed 336,943 SNPs, 107,521 InDels, and 1,413 structural variations, along with the annotation of 1,402 new genes. <br>This T2T genome assembly of <i>P. campanulata</i> Lianmeiren provides a critical reference for understanding the genetic architecture of the species. It enhances our ability to study structural variations, gene function, and evolutionary biology within the <i>Prunus</i> genus.钟花樱桃（Prunus campanulata）为观赏樱花物种，兼具重要的遗传与园艺研究价值。尽管目前已有多款樱桃属基因组序列公开，但该物种至今仍缺乏完整的端粒到端粒（telomere-to-telomere, T2T）组装成果。近年来长读长测序技术的革新，使得构建无间隙基因组组装成为可能，为解析此前难以获取的基因组结构提供了全面的研究视角。 本研究首次完成了钟花樱桃‘莲美人’（Prunus campanulata ‘Lianmeiren’）v2.0版本的T2T基因组组装，该组装整合了PacBio HiFi、超长读长牛津纳米孔（Oxford Nanopore Technologies）、Illumina以及Hi-C测序数据。最终获得的基因组具有高度连续性，总长度达266.23 Mb，重叠群N50（contig N50）为31.6 Mb。该基因组完整性优异（BUSCO评估完整度达98.9%）且准确性极高（质量值QV为48.75）。此外，研究团队在8条假染色体上成功鉴定出13个端粒区域与潜在着丝粒区域。与此前的v1.0版本组装相比，本次组装共检出336,943个单核苷酸多态性（single nucleotide polymorphism, SNP）位点、107,521个插入缺失（insertion-deletion, InDel）变异以及1,413个结构变异，同时注释得到1,402个新基因。 本次获得的钟花樱桃‘莲美人’T2T基因组组装，为解析该物种的遗传架构提供了关键参考资源，将有效推动李属（Prunus）植物的结构变异研究、基因功能解析以及进化生物学相关研究。

搜集汇总

背景与挑战

背景概述

该数据集提供了开花樱桃（Prunus campanulata）品种‘Lianmeiren’的首个端粒到端粒（T2T）高质量基因组组装（v2.0），基因组大小为266.23 Mb，具有高连续性、完整性和准确性，并包含端粒和着丝粒注释。数据集还通过比较分析揭示了大量遗传变异（如SNP、InDel）和新基因，同时包含来自多个组织（叶、芽、根、茎、花）的转录组数据，为研究该物种的遗传结构、进化生物学和基因功能提供了关键参考。