Identification of microRNAs in six solanaceous plants and their potential link with phosphate and mycorrhizal signalings
Identification of microRNAs in six solanaceous plants and their potential link with phosphate and mycorrhizal signalings
复制标题
六种茄科植物中 microRNA 的鉴定及其与磷酸盐和菌根信号传导的潜在联系
DOI：
10.1111/jipb.12233
复制
发表时间：
2014-12-01
影响因子：
11.4
通讯作者：
Xu, Guohua
中科院分区：
文献类型：
--
作者：
Gu, Mian;Liu, Wei;Xu, Guohua
迄今为止，只有有限数量的茄科miRNA已被存入miRNA数据库。在此，在六种茄科植物（马铃薯、番茄、烟草、茄子、辣椒和矮牵牛）中进行了miRNA的全基因组生物信息学鉴定。根据一系列标准，总共鉴定了2，239个miRNA，其中982个来自马铃薯，496个来自番茄，655个来自烟草，46个来自茄子，45个来自辣椒，15个来自矮牵牛。miRNA家族的大小和miRNA前体长度在所有物种中不同。因此，预测了620个靶标，其在功能上可分为转录因子、代谢酶、RNA和蛋白质加工蛋白以及与植物生长和发育有关的其他蛋白质。我们还发现了miRNA簇以及正义和反义miRNA的证据。此外，五个Pi饥饿和一个丛枝菌根（AM）相关的顺式元件被发现广泛分布在假定的启动子区域的miRNA基因。根据P1 BS和MYCS顺式元件的存在与否，将选定的miRNAs分为三组，并通过定量逆转录-聚合酶链反应（qRT-PCR）验证它们响应于Pi饥饿和AM共生的表达。这些结果表明茄科植物中存在保守的miRNAs，它们可能在植物的生长发育和逆境应答中发挥重要作用。
To date, only a limited number of solanaceous miRNAs have been deposited in the miRNA database. Here, genome-wide bioinformatic identification of miRNAs was performed in six solanaceous plants (potato, tomato, tobacco, eggplant, pepper, and petunia). A total of 2,239 miRNAs were identified following a range of criteria, of which 982 were from potato, 496 from tomato, 655 from tobacco, 46 from eggplant, 45 were from pepper, and 15 from petunia. The sizes of miRNA families and miRNA precursor length differ in all the species. Accordingly, 620 targets were predicted, which could be functionally classified as transcription factors, metabolic enzymes, RNA and protein processing proteins, and other proteins for plant growth and development. We also showed evidence for miRNA clusters and sense and antisense miRNAs. Additionally, five Pi starvation-and one arbuscular mycorrhiza (AM)-related cis-elements were found widely distributed in the putative promoter regions of the miRNA genes. Selected miRNAs were classified into three groups based on the presence or absence of P1BS and MYCS cis-elements, and their expression in response to Pi starvation and AM symbiosis was validated by quantitative reverse transcription-polymerase chain reaction (qRT-PCR). These results show that conserved miRNAs exist in solanaceous species and they might play pivotal roles in plant growth, development, and stress responses.