比较转录组分析揭示了番茄中不定根发育的关键基因和途径

doi:10.1016/j.jia.2025.12.045

摘要/Abstract

摘要：

植物不定根的演化过程可以增强其适应多重逆境胁迫的能力。深入解析其形态建成的影响因子，对于克服扦插生根障碍、培育具有广适性抗逆特征的优良品种具有重要的理论价值与实践指导意义。在本研究中，为了探究番茄不定根发育的分子机制，我们通过转录组测序（RNA-seq）分析了能够自发形成不定根的'Y962'品系和无法形成不定根的'W961'品系中的相关基因转录情况。我们发现不定根诱导阶段是发育过程中的活跃时期，且三组差异表达基因最多的比较组共鉴定得到1676个重叠基因。功能富集分析显示它们与响应生长素的关系最为密切，同时离不开其他激素与碳水化合物的之间的相互作用。此外，通过内源生长素水平的测定和外源生长素的诱导试验，确定了不定根的形成与生长素的积累和运输密切相关。我们观察到在响应生长素通路中富集的生长素输出载体SlPIN3，在不定根诱导阶段呈现显著高表达。CRISPR/Cas9编辑系统创制的slpin3突变体显示出形成AR的能力降低，且SlPIN3调控的极性运输与生长素诱导性不定根紧密相关。总之，本研究不仅为丰富番茄不定根的发育网络提供了大量数据，还进一步揭示了通过靶向SlPIN3来促进不定根发育的潜在机制。

Abstract:

The evolutionary development of adventitious roots (ARs) in plants enhances their capacity to adapt to various stress conditions. A thorough analysis of the influencing factors in their morphological construction holds significant theoretical value and practical guidance for overcoming rooting obstacles in cuttings, as well as for cultivating superior varieties characterized by broad adaptability and stress resistance. In this study, we investigated the molecular mechanisms underlying the development of ARs in tomato (Solanum lycopersicum) by performing transcriptome sequencing (RNA-seq). We analyzed the transcription profiles of relevant genes in the “Y962” strain, which exhibits spontaneous AR formation, and the “W961” strain, which does not form ARs. Our findings indicate that the AR induction stage represents an active phase of development, during which we identified 1,676 overlapping genes across the three comparison groups, highlighting the most differentially expressed genes. Functional enrichment analysis showed that they were most closely related to response to auxin, and were also dependent on the crosstalk between other hormones and carbohydrates. Furthermore, through the measurement of endogenous auxin levels and the induction tests with exogenous auxin, it was established that the formation of ARs is closely linked to the accumulation and transport of auxin. Notably, the auxin efflux SlPIN3, which was enriched in the auxin response pathway, exhibited significantly high expression during the induction phase of ARs. The slpin3 mutant, generated using the CRISPR/Cas9 editing system, exhibited a significant reduction in the number of ARs, highlighting the close relationship between polar transport regulated by SlPIN3 and auxin-induced AR formation. In summary, this study not only enriches the developmental network of AR formation in tomatoes with a wealth of data but also elucidates the potential mechanisms for promoting AR development by targeting SlPIN3.

Key words: tomato , adventitious roots , transcriptome , auxin , SlPIN3

Hexuan Wang, Xinyi Zhang, Guohao Yang, Xinyi Jia, Jiayi Gao, Haoran Wang, Jingbin Jiang, Jingfu Li, He Zhang, Xiangyang Xu, Huanhuan Yang. 比较转录组分析揭示了番茄中不定根发育的关键基因和途径[J]. Journal of Integrative Agriculture, 2026, 25(7): 2859-2877.

Hexuan Wang, Xinyi Zhang, Guohao Yang, Xinyi Jia, Jiayi Gao, Haoran Wang, Jingbin Jiang, Jingfu Li, He Zhang, Xiangyang Xu, Huanhuan Yang. Comparative transcriptome analysis reveals key genes and pathways involved in the development of adventitious roots in tomato[J]. Journal of Integrative Agriculture, 2026, 25(7): 2859-2877.

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