Genome-wide identification and characterization of the RIO atypical kinase family in plants
Genome-wide identification and characterization of the RIO atypical kinase family in plants
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植物 RIO 非典型激酶家族的全基因组鉴定和表征
DOI：
10.1007/s13258-018-0658-4
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发表时间：
2018-06-01
期刊：
影响因子：
2.1
通讯作者：
Zhao, Xiangxiang
中科院分区：
文献类型：
--
作者：
Gao, Qingsong;Xu, Shuhui;Zhao, Xiangxiang
轻开放阅读框（RIO）非典型激酶家族的成员存在于生命的所有三个领域。在真核生物中，已经鉴定了三个亚科：RIO 1、RIO 2和RIO 3。研究表明，酵母和人类RIO 1和RIO 2激酶对于核糖体小亚基的生物合成是必需的。到目前为止，RIO 3仅在多细胞真核生物中发现。在这项研究中，我们系统地确定了37种代表主要进化谱系的绿色植物的theRIO基因家族的成员。共鉴定出84个RIO基因，其中RIO 1基因41个，RIO 2基因43个。然而，noRIO 3基因在所检查的任何物种中均被发现。植物RIO 1和RIO 2蛋白构建的系统发育树一般与物种的亲缘关系一致。亚细胞定位分析表明，植物RIO蛋白主要定位在细胞核和/或细胞质中。对水稻、玉米和拟南芥RIO基因在不同组织中的表达谱分析表明，RIO 1和RIO 2基因的表达模式相似，且在某些组织中表达量较高。此外，植物RIO基因的表达受两种药物的调控：霉酚酸和放线菌素D。利用全基因组共表达分析的功能预测表明，大多数植物RIO基因可能参与核糖体的生物合成。我们的研究结果将有助于古老的RIO激酶家族的进化分析，并为进一步研究植物中RIO基因的功能提供基础。
Members of therightopen reading frame (RIO) atypical kinase family are present in all three domains of life. In eukaryotes, three subfamilies have been identified: RIO1, RIO2, and RIO3. Studies have shown that the yeast and human RIO1 and RIO2 kinases are essential for the biogenesis of small ribosomal subunits. Thus far, RIO3 has been found only in multicellular eukaryotes. In this study, we systematically identified members of theRIOgene family in 37 species representing the major evolutionary lineages in Viridiplantae. A total of 84RIOgenes were identified; among them, 41 were classified asRIO1and 43 asRIO2. However, noRIO3gene was found in any of the species examined. Phylogenetic trees constructed for plant RIO1 and RIO2 proteins were generally congruent with the species phylogeny. Subcellular localization analyses showed that the plant RIO proteins were localized mainly in the nucleus and/or cytoplasm. Expression profile analysis of rice, maize, and ArabidopsisRIOgenes in different tissues revealed similar expression patterns betweenRIO1andRIO2genes, and their expression levels were high in certain tissues. In addition, the expressions of plantRIOgenes were regulated by two drugs: mycophenolic acid and actinomycin D. Function prediction using genome-wide coexpression analysis revealed that most plantRIOgenes may be involved in ribosome biogenesis. Our results will be useful for the evolutionary analysis of the ancient RIO kinase family and provide a basis for further functional characterization ofRIOgenes in plants.