Identification of ARF family in blueberry and its potential involvement of fruit development and pH stress response.
Identification of ARF family in blueberry and its potential involvement of fruit development and pH stress response.
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蓝莓ARF家族的鉴定及其对果实发育和pH胁迫反应的潜在参与
DOI：
10.1186/s12864-022-08556-y
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发表时间：
2022-04-27
期刊：
影响因子：
4.4
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中科院分区：
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生长素反应因子（ARF）家族是生长素信号通路的核心成员之一，调控着植物的多种发育过程和逆境反应。蓝莓是一种重要的经济果类作物，喜酸性土壤。然而，ARF家族在蓝莓中的研究尚未见报道。在本研究中，60 ARF基因（VcARF）被确定在蓝莓，他们表现出不同的基因结构和基序组成之间的组和相似的每个组内的系统发育树。值得注意的是，9对二基因型、5对三基因型和6对四基因型VcARF的同源性均大于95%。计算分析表明，23个VcARF与其他植物ARF基因一样，含有miR 160或miR 167的miRNA响应元件（MRE）。有趣的是，在3个VcARF的5 'UTR中观察到miR 156 d/h-3 p的MRE，这表明潜在的新型转录后控制。此外，研究了果实发育过程中VcARF的转录积累，观察到三种类型的转录谱，这意味着不同的功能作用。同时，研究了不同pH条件（pH4.5和pH6.5）对蓝莓VcARF表达的影响，结果表明，在不同pH条件下，蓝莓VcARF的表达量不同。更重要的是，在pH敏感和耐受物种之间观察到几种VcARF（如VcARF 6s和VcARF 19 -3/19-4）对pH胁迫（pH 6.5）的不同转录响应，表明它们在适应pH胁迫中的潜在作用。60个VcARF基因进行了鉴定和表征，并在果实发育过程中和响应pH胁迫的转录谱进行了调查。这些研究结果将有助于进一步研究VcARF的功能作用和调控机制，特别是果实发育和对pH胁迫的适应。在线版本包含补充材料，可通过10.1186/s12864-022-08556-y获得。
Auxin responsive factor (ARF) family is one of core components in auxin signalling pathway, which governs diverse developmental processes and stress responses. Blueberry is an economically important berry-bearing crop and prefers to acidic soil. However, the understandings of ARF family has not yet been reported in blueberry. In the present study, 60 ARF genes (VcARF) were identified in blueberry, and they showed diverse gene structures and motif compositions among the groups and similar within each group in the phylogenetic tree. Noticeably, 9 digenic, 5 trigenic and 6 tetragenic VcARF pairs exhibited more than 95% identity to each other. Computational analysis indicated that 23 VcARFs harbored the miRNA responsive element (MRE) of miR160 or miR167 like other plant ARF genes. Interestingly, the MRE of miR156d/h-3p was observed in the 5’UTR of 3 VcARFs, suggesting a potentially novel post-transcriptional control. Furthermore, the transcript accumulations of VcARFs were investigated during fruit development, and three categories of transcript profiles were observed, implying different functional roles. Meanwhile, the expressions of VcARFs to different pH conditions (pH4.5 and pH6.5) were surveyed in pH-sensitive and tolerant blueberry species, and a number of VcARFs showed different transcript accumulations. More importantly, distinct transcriptional response to pH stress (pH6.5) were observed for several VcARFs (such as VcARF6s and VcARF19-3/19–4) between pH-sensitive and tolerant species, suggesting their potential roles in adaption to pH stress. Sixty VcARF genes were identified and characterized, and their transcript profiles were surveyed during fruit development and in response to pH stress. These findings will contribute to future research for eliciting the functional roles of VcARFs and regulatory mechanisms, especially fruit development and adaption to pH stress. The online version contains supplementary material available at 10.1186/s12864-022-08556-y.