Reconstructing the evolutionary trajectory of Chamaelirium (Melanthiaceae) through phylogenomics: insights from plastome dynamics and historical biogeography.

IF 4.8 2区 生物学 Q1 PLANT SCIENCES
Jing-Yi Peng, Xian-Han Huang, Xin-Jian Zhang, Joonhyung Jung, Changkyun Kim, Tae-Hee Kim, Noriyuki Tanaka, Shiou Yih Lee, Joo-Hwan Kim, Hang Sun, Tao Deng
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引用次数: 0

Abstract

Background: The East Asia-eastern North America disjunction represents a classic biogeographic pattern, widely interpreted as a relic of Tertiary temperate forests that were widespread across the Northern Hemisphere. Although this pattern has been well-documented in woody plants, disjunctions in herbaceous taxa have remained relatively unexplored, despite their potential to provide significant evolutionary insights. The genus Chamaelirium represents a suitable system for investigating herbaceous discontinuity between East Asia and eastern North America. However, unresolved section-level relationships within the genus based on limited molecular data indicated that its systematics still required clarification. Here, we generated complete plastid genomes (plastomes) for five Chamaelirium species covering all sections of the genus and performed the phylogenomic analysis for the first time with a reexamination of its historical biogeography.

Results: Comparative genomic analyses revealed that Chamaelirium plastomes exhibit relatively conserved structures and content organization; however, several noteworthy variations were observed. Specifically, an expansion of the IR region was identified in the plastid genomes of C. viridiflorum and C. chinense, while the loss of the rps16 gene in C. japonicum and C. koidzumianum may have contributed to a reduction in genome size. Phylogenetic analysis combined with niche modeling revealed two major clades within Chamaelirium, corresponding to the two sections proposed in traditional classifications. Robust support for interspecific relationships within each section was provided by morphological characters, plastome variations, and geographical distributions. Divergence time estimates and ancestral region reconstructions indicate that Chamaelirium originated in the Eocene (ca. 53.03 Ma), with the ancestral area of its crown most likely located in East Asia. The divergence between the East Asian and North American lineages occurred during the early Miocene (ca. 17.95 Ma), with the Bering Land Bridge acting as a corridor; subsequent global cooling likely facilitated the establishment of an intercontinental disjunction in the genus. The rise of the East Asian monsoon during the late Miocene may have further triggered its diversification in East Asia.

Conclusions: Our phylogenomic analyses of Chamaelirium have resolved previously ambiguous section-level relationships and provide novel genomic resources for clarifying infrageneric boundaries. Furthermore, by presenting Chamaelirium as a new case, this study highlights the significance of the Miocene and the Bering Land Bridge in shaping the East Asian-North American disjunction pattern among herbaceous plants.

用系统基因组学方法重建黑桫椤的进化轨迹:来自质体动力学和历史生物地理学的见解。
背景:东亚-北美东部的分离是一种经典的生物地理格局,被广泛解释为第三纪温带森林在北半球广泛分布的遗迹。尽管这种模式在木本植物中已经有了很好的记录,但草本分类群中的断裂仍然相对未被探索,尽管它们有可能提供重要的进化见解。chamaelium属是研究东亚和北美东部之间草本不连续性的一个合适的系统。然而,基于有限的分子数据,该属内未解决的剖面水平关系表明其系统分类仍需澄清。在这里,我们生成了覆盖该属所有部分的5个chamaelium物种的完整质体基因组(质体组),并首次进行了系统基因组分析,并重新检查了其历史生物地理学。结果:比较基因组分析表明,chamaelium质体具有相对保守的结构和内容组织;然而,观察到几个值得注意的变化。具体地说,在C. viridiflorum和C. chinense的质体基因组中发现了IR区域的扩增,而在C. japonicum和C. koidzumium中rps16基因的缺失可能导致了基因组大小的减小。系统发育分析结合生态位模型揭示了chamaelium的两个主要分支,对应于传统分类中提出的两个部分。形态学特征、质体变异和地理分布为每个剖面的种间关系提供了强有力的支持。发散时间估算和祖先区域重建表明,Chamaelirium起源于始新世(约53.03 Ma),其冠的祖先区域最有可能位于东亚。东亚和北美谱系的分化发生在中新世早期(约17.95 Ma),白令海陆桥是一个走廊;随后的全球变冷可能促进了该属的洲际分离的建立。中新世晚期东亚季风的兴起可能进一步引发了东亚季风的多样化。结论:我们对chamaelium的系统基因组分析解决了以前不明确的区段水平关系,并为澄清谱系边界提供了新的基因组资源。此外,本研究以chamaelium为例,强调了中新世和白令陆桥在塑造东亚-北美草本植物分离格局中的重要意义。
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
BMC Plant Biology
BMC Plant Biology 生物-植物科学
CiteScore
8.40
自引率
3.80%
发文量
539
审稿时长
3.8 months
期刊介绍: BMC Plant Biology is an open access, peer-reviewed journal that considers articles on all aspects of plant biology, including molecular, cellular, tissue, organ and whole organism research.
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