泛s位点分析揭示了橙色亚科自交不亲和的起源和进化

IF 10.1 1区生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Genome Biology Pub Date : 2025-10-07 DOI:10.1186/s13059-025-03817-x

Jianbing Hu, Zezhen Du, Chenchen Liu, Hao Wen, Cong Liu, Peng Chen, Chunmei Shi, Junli Ye, QianHua Ji, Xiuxin Deng, Maurice Bosch, Zongcheng Lin, Wen-Biao Jiao, Lijun Chai

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引用次数: 0

摘要

自交不亲和性是由一个高度多态性的超基因复合体s位点控制的，该复合体结构复杂，具有丰富的重复序列，长度在不同植物科中从数百千碱基到数十兆碱基不等。由于这些挑战，s位点仅在少数物种中被完全重建，限制了我们对其进化动力学的理解。本研究系统探讨了芸香科桔科桔科植物S-RNase介导的自交不亲和系统的进化机制和结构特征。我们从代表性的14个新组装的柑橘基因组和41个已发表的柑橘基因组中构建了一个跨11个属的泛s位点框架。我们的分析揭示了SLF基因的显著结构变化和转座因子（TE）驱动的假原化。通过构建一个完整的s - rnase文库和开发一个新的基因分型管道，我们揭示了s - rnase在自不相容和自相容群体之间的不同频率。比较分析表明，与其他家族不同，该家族独特的进化轨迹以异步核心非s基因复制和te介导的结构多样化为标志。创新地，我们发现te诱导的自交不亲和性丧失是自交不亲和性转变的主要驱动因素，这暗示了橙色亚家族自交不亲和性起源和进化的独特性。本研究通过泛s位点的构建和表征，对柑橘亚科s位点的起源和演化有了更深入的认识。这些发现不仅促进了我们对自交不亲和机制的认识，而且为研究其他家族配子体自交不亲和系统的进化奠定了基础框架。

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Pan-S-locus analysis reveals insights into the origin and evolution of self-incompatibility in the orange subfamily

Self-incompatibility is controlled by a highly polymorphic supergene complex, the S-locus, which is structurally complex, rich in repetitive sequences, and varies in length from hundreds of kilobases to tens of megabases across different plant families. Due to these challenges, the S-locus has been fully reconstructed in only a few species, limiting our understanding of its evolutionary dynamics. This study systematically explores the evolutionary mechanisms and structural characteristics of the self-incompatibility system mediated by S-RNase in the Aurantioideae (orange subfamily) of Rutaceae. We construct a pan-S-locus framework spanning 11 genera within the orange subfamily from 14 newly assembled genomes from representative accessions and the analysis of 41 published citrus genomes. Our analyses reveal significant structural variations and transposable element (TE)-driven pseudogenization of SLF genes. By constructing a comprehensive library of S-RNases and developing a novel genotyping pipeline, we reveal divergent frequencies of S-RNases between self-incompatible and self-compatible populations. Comparative analyses demonstrate a unique evolutionary trajectory marked by asynchronous core nonS-genes duplication and TE-mediated structural diversification, distinct from other families. Innovatively, we identified TE-induced self-incompatibility loss as the primary driver of self-compatibility transition, which implies the uniqueness of the origin and evolution of self-incompatibility in the orange subfamily. Through the construction and characterization of the pan-S-locus, this study provides profound insight into the origin and evolution of the S-locus in the orange subfamily. These findings not only advance our understanding of self-incompatibility mechanisms, but also establish a foundational framework for investigating the evolution of the gametophytic self-incompatibility systems in other families.

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来源期刊

Genome Biology Biochemistry, Genetics and Molecular Biology-Genetics

CiteScore

21.00

自引率

3.30%

发文量

241

审稿时长

2 months

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