A gap-free reference genome of Populus deltoides provides insights into karyotype evolution of Salicaceae

文献类型： 外文期刊

第一作者： Bi, Changwei

作者： Bi, Changwei;Dai, Xiaogang;Wu, Huaitong;Wang, Zefu;Yin, Tongming;Bi, Changwei;Sun, Ning;Hou, Zhuangwei;Han, Fuchuan

作者机构：

关键词： Populus; Gap-free genome assembly; Genome evolution; Gene family; Ancestral karyotype reconstruction

期刊名称：BMC BIOLOGY （ 影响因子：4.5； 五年影响因子：5.4 ）

ISSN：

年卷期： 2025 年 23 卷 1 期

页码：

收录情况： SCI

摘要： BackgroundAs a species of poplar with significant economic and ecological value, the high-quality genome assembly of Populus deltoides (P. deltoides) is crucial for understanding its growth and development, stress resistance, and biosynthetic pathways.ResultsWe presented a gap-free telomere-to-telomere (T2T) assembly of the P. deltoides genome using PacBio HiFi and Hi-C sequencing data. The P. deltoides genome is 395.9 Mb in length and consists of 27 contigs (contig N50: 22.73 Mb), encompassing nearly all telomeres (36 out of 38). Following careful evaluations of genome accuracy and completeness, our assembly represents a substantial enhancement over the previously published genomes of P. deltoides, eliminating all gaps and rectifying numerous assembly errors. The expanded and contracted gene families of the P. deltoides genome were significantly enriched in functions crucial for stress and defense responses, as well as environmental adaptation. Additionally, our study confirms that all Salicaceae genomes have undergone at least two major whole genome duplication events. The most recent duplication event, shared by between Salicaceae and Manihot esculenta, is estimated to have occurred approximately 44.2 to 57.8 Mya. Most importantly, we reconstructed the ancestral karyotype of Salicaceae, which comprised 11 proto-chromosomes.ConclusionsThis study provides strong evidence for comprehensive understanding of the evolutionary dynamics within Salicaceae genomes and provides valuable genomic resources for the genetic improvement and biological breeding of P. deltoides.

分类号：

  • 相关文献
作者其他论文 更多>>

微信小程序