2024年4月25日 星期四
假俭草NRAT1基因生物信息学和表达特性分析
Analyses on bioinformatics and expression characteristics of NRAT1 gene from Eremochloa ophiuroides
2023年 第32卷 第2期 页码[38-46]    下载全文[13.3MB]  
摘要

为探析NRAT1基因在假俭草〔Eremochloa ophiuroides (Munro) Hack.〕耐铝分子机制中的作用,本研究基于假俭草全长转录组测序数据,采用PCR和RACE技术从假俭草耐铝基因型品系E105中克隆到1个NRAT1基因,命名为EoNRAT1,并对其进行了生物信息学分析;同时,采用qRT-PCR技术对1.0 mmol·L-1Al3+胁迫48 h内假俭草根、茎和叶中该基因的相对表达量进行了比较。结果显示:EoNART1基因开放阅读框(ORF)长度为1 614 bp,编码538个氨基酸。EoNART1蛋白的理论相对分子质量约58 430,理论等电点为pI 7.03,不稳定指数为30.98,疏水性氨基酸占比达67.2%,且包含10个跨膜区。并且,EoNART1蛋白主要定位于质膜、液泡和内质网,其二级和三级结构均以α-螺旋和无规卷曲为主。氨基酸序列比对结果显示:EoNRAT1与柳枝稷(Panicum virgatum Linn.)NRAT1的序列一致性达84.53%。系统进化分析结果显示:EoNRAT1与柳枝稷NRAT1首先聚在一起,并与硬直黑麦草(Lolium rigidum Gaud.)等10种植物的NRAT1聚为一个分支,而二穗短柄草〔Brachypodium distachyon (Linn.) P. Beauv.〕等6种植物的Nramp5聚为另一个分支。qRT-PCR分析结果显示:胁迫48 h内EoNRAT1基因在假俭草根、茎和叶中均有表达;胁迫12和24 h,该基因在根和叶中的相对表达量显著高于胁迫0 h;胁迫48 h,该基因在根中的相对表达量仍保持在较高水平,但在叶中的相对表达量降至胁迫0 h水平。研究结果显示:EoNRAT1蛋白为一种稳定的疏水性膜蛋白,可能参与假俭草对铝胁迫的应答反应。

Abstract

 In order to explore the role of NRAT1 gene in aluminumtolerant molecular mechanism of Eremochloa ophiuroides (Munro) Hack., one NRAT1 gene was cloned from aluminumtolerant genotype strain E105 of E. ophiuroides by using PCR and RACE technologies based on full-length transcriptome sequencing data of E. ophiuroides and named EoNRAT1, and bioinformatics analysis was performed for this gene; meanwhile, relative expression levels of EoNRAT1 gene in root, stem, and leaf of E. ophiuroides under 1.0 mmol·L-1Al3+ stress within 48 h were compared by using qRT-PCR technology. The results show that the length of open reading frame. (ORF) of EoNART1 gene is 1 614 bp, encoding 538 amino acids. The theoretical relative molecular mass of EoNART1 protein is about 58 430, the theoretical isoelectric point is pI 7.03, the instability index is 30.98, the hydrophobic amino acids account for 67.2%, and this protein contains 10 transmembrane domains. Moreover, EoNART1 protein is mainly located in plasma membrane, vacuole, and endoplasmic reticulum, its secondary and tertiary structures mainly consist of α-helix and random coil. The alignment result of amino acid sequence shows that the sequence identity between EoNRAT1 and NRAT1 from Panicum virgatum Linn. reaches 84.53%. The phylogenetic analysis result shows that EoNRAT1 and NRAT1 from P. virgatum are first clustered together, and clustered into one clade with NRAT1 from 10 species such as Lolium rigidum Gaud., while Nramp5 from 6 species such as Brachypodium distachyon (Linn.) P. Beauv. are clustered into the other clade. The qRT-PCR analysis result shows that EoNRAT1 gene is expressed in root, stem, and leaf of E. ophiuroides within 48 h of stress; at 12 and 24 h of stress, the relative expression levels of EoNRAT1 gene are significantly higher than that at 0 h of stress; at 48 h of stress, the relative expression level of EoNRAT1 gene in root still maintains a relatively high level, but that in leaf decreases to the level at 0 h of stress. It is suggested that EoNRAT1 protein is a stable hydrophobic membrane protein, which may be involved in response of E. ophiuroides to aluminum stress.

关键词假俭草; EoNRAT1基因; 基因克隆; 生物信息学分析; 表达特性
Key wordsEremochloa ophiuroides (Munro) Hack.; EoNRAT1 gene; gene cloning; bioinformatics analysis; expression characteristics
作者徐鑫1,2, 王浩然2, 张苓2, 李晓慧2, 张兵1, 郭海林2, 李建建
所在单位1. 扬州大学动物科学与技术学院, 江苏 扬州 225009; 2. 江苏省中国科学院植物研究所(南京中山植物园)
国家林业和草原局暖季型草坪草种质创新与利用工程技术研究中心, 江苏 南京 210014
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基金项目国家自然科学基金面上项目(32072608); 江苏省植物资源研究与利用重点实验室开放基金项目(JSPKLB201841)