Comparative genomics analysis of WAK/WAKL family in Rosaceae identify candidate WAKs involved in the resistance to Botrytis cinerea.
Comparative genomics analysis of WAK/WAKL family in Rosaceae identify candidate WAKs involved in the resistance to Botrytis cinerea.
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DOI：
10.1186/s12864-023-09371-9
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发表时间：
2023-06-19
期刊：
影响因子：
4.4
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中科院分区：
文献类型：
--
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细胞壁相关激酶（WAK）和类WAK-like（WAKL）是典型的模式识别受体，在植物防御中起着第一哨兵的作用。但在蔷薇科中对WAK/WAKL家族的研究还很少。本研究利用生物信息学方法从苹果、桃和草莓中克隆了131个WAK/WAKL基因。与玫瑰中的68个RcWAK/RcWAKL一起，我们对四种蔷薇科作物中的199个WAK/WAKL进行了比较分析。系统发育分析将WAK/WAKL分为5个分支。其中，Clade II和Clade V启动子的顺式元件分别在茉莉酸（JA）信号传导和非生物胁迫中富集。这也可以通过玫瑰转录组对不同激素处理的反应来验证。WAK/WAKL家族在进化过程中经历了相当大比例的纯化选择，但仍有26个氨基酸位点在正选择下进化，主要集中在胞外保守结构域。WAK/WAKL基因在作物内和作物间呈现共线性关系，在4种作物中共挖掘出4个正相关基因组（OG）。研究结果表明，OG 1和OG 4中的WAK/WAKL基因可能参与了植物与灰霉病菌的互作，并通过VIGS和qRT-PCR分别在玫瑰和草莓中得到验证。这些结果不仅为研究WAK/WAKL基因家族的进化关系提供了遗传资源和宝贵信息，也为今后深入研究蔷薇科WAK/WAKL基因提供了参考。在线版本包含补充材料，可通过10.1186/s12864-023-09371-9获得。
Wall associated kinase (WAK) and WAK-like (WAKL) are typical pattern recognition receptors act as the first sentry of plant defense. But little of WAK/WAKL family is known in Rosaceae. In this study, 131 WAK/WAKL genes from apple, peach and strawberry were identified using a bioinformatics approach. Together with 68 RcWAK/RcWAKL in rose, we performed a comparative analysis of 199 WAK/WAKL in four Rosaceae crops. The phylogenetic analysis divided all the WAK/WAKL into five clades. Among them, the cis-elements of Clade II and Clade V promoters were enriched in jasmonic acid (JA) signaling and abiotic stress, respectively. And this can also be verified by the rose transcriptome responding to different hormone treatments. WAK/WAKL families have experienced a considerable proportion of purifying selection during evolution, but still 26 amino acid sites evolved under positive selection, which focused on extracellular conserved domains. WAK/WAKL genes presented collinearity relationship within and between crops, throughout four crops we mined four orthologous groups (OGs). The WAK/WAKL genes in OG1 and OG4 were speculated to involve in plant-Botrytis cinerea interaction, which were validated in rose via VIGS as well as strawberry by qRT-PCR. These results not only provide genetic resources and valuable information for the evolutionary relationship of WAK/WAKL gene family, but also offer a reference for future in-depth studies of Rosaceae WAK/WAKL genes. The online version contains supplementary material available at 10.1186/s12864-023-09371-9.
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