The first haplotype-resolved genome assembly of Prunus s.l. subgenus Laurocerasus (Prunus spinulosa).

IF 5.9 1区生物学 Q1 PLANT SCIENCES

Plant Diversity Pub Date : 2025-09-22 eCollection Date: 2025-11-01 DOI:10.1016/j.pld.2025.09.007

Sining Zhang, Jun Chen, Pan Li

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引用次数: 0

Abstract

Prunus spinulosa (2n = 4x = 32) is an evergreen species of significant medicinal usage and ecological value. However, the lacking of a high-quality genome of P. spinulosa has obstructed further exploration of its ecological study and phylogenetic relationship of Prunus. In this study, we present the first haplotype-resolved genome assembly of Prunus s.l. subgenus Laurocerasus, the tetraploid genome of P. spinulosa was phased into 32 pseudochromosomes with 4 haplotypes, the genome size of each haplotype ranged from 249.82 Mb to 259.69 Mb, and N50 fluctuated from 31.35 Mb to 33.25 Mb, the protein-coding genes vary from 21,272 to 22,668. Different evaluation methods showed that the P. spinulosa genome assembly has high quality of completeness, continuity and accuracy. Being the first complete genome of P. spinulosa, it provides a valuable genetic resource for the Prunus tetraploid species database and supports further functional genomic study of this species.

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杉树亚属（Prunus spinulosa）首个单倍型解析基因组组装。

李（Prunus spinulosa, 2n = 4x = 32）是一种具有重要药用价值和生态价值的常绿树种。然而，由于缺乏高质量的基因组，对其生态学研究和李树系统发育关系的进一步探索受到了阻碍。在本研究中，我们首次获得了杉木亚属李（Prunus s.l. Laurocerasus）的单倍型解析基因组，该四倍体基因组分为32条假染色体，4个单倍型，每个单倍型的基因组大小在249.82 ~ 259.69 Mb之间，N50在31.35 ~ 33.25 Mb之间波动，蛋白质编码基因在21,272 ~ 22,668个之间。不同的评价方法表明，棘球藻基因组组装具有较高的完整性、连续性和准确性。这一发现为李四倍体物种数据库提供了宝贵的遗传资源，为进一步开展李功能基因组研究提供了依据。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Plant Diversity Agricultural and Biological Sciences-Ecology, Evolution, Behavior and Systematics

CiteScore

8.30

自引率

6.20%

发文量

1863

审稿时长

35 days

期刊介绍： Plant Diversity (formerly Plant Diversity and Resources) is an international plant science journal that publishes substantial original research and review papers that advance our understanding of the past and current distribution of plants, contribute to the development of more phylogenetically accurate taxonomic classifications, present new findings on or insights into evolutionary processes and mechanisms that are of interest to the community of plant systematic and evolutionary biologists. While the focus of the journal is on biodiversity, ecology and evolution of East Asian flora, it is not limited to these topics. Applied evolutionary issues, such as climate change and conservation biology, are welcome, especially if they address conceptual problems. Theoretical papers are equally welcome. Preference is given to concise, clearly written papers focusing on precisely framed questions or hypotheses. Papers that are purely descriptive have a low chance of acceptance. Fields covered by the journal include: plant systematics and taxonomy- evolutionary developmental biology- reproductive biology- phylo- and biogeography- evolutionary ecology- population biology- conservation biology- palaeobotany- molecular evolution- comparative and evolutionary genomics- physiology- biochemistry