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在非生物胁迫下进行基因表达分析时,. 中合适参考基因的选择。

Selection of Appropriate Reference Genes for Gene Expression Analysis under Abiotic Stresses in .

机构信息

Environmental Research and Innovation (ERIN) Department, Luxembourg Institute of Science and Technology (LIST) 5 Avenue des Hauts-Fourneaux, L-4362 Esch/Alzette, Luxembourg.

Centre for Environmental Sciences, Hasselt University, Agoralaan Building D, B-3590 Diepenbeek, Belgium.

出版信息

Int J Mol Sci. 2019 Aug 28;20(17):4210. doi: 10.3390/ijms20174210.

Abstract

is a fast growing willow species with potential as a plant used for biomass feedstock or for phytoremediation. However, few reference genes (RGs) for quantitative real-time polymerase chain reaction (qPCR) are available in , thereby limiting gene expression studies. Here, we investigated the expression stability of 14 candidate reference genes (RGs) across various organs exposed to five abiotic stresses (cold, heat, drought, salt, and poly-metals). Four RGs ranking algorithms, namely geNorm, BestKeeper, NormFinder, and GrayNorm were applied to analyze the qPCR data and the outputs were merged into consensus lists with RankAggreg, a rank aggregation algorithm. In addition, the optimal RG combinations were determined with geNorm and GrayNorm. The genes that were the most stable in the roots were and . In the leaves, was the most stable, followed by and , depending on the condition tested. Conversely, and , two genes commonly used for qPCR data normalization were the least stable across all organs. Nevertheless, both geNorm and GrayNorm recommended the use of a combination of genes rather than a single one. These results are valuable for research of transcriptomic responses in different organs.

摘要

是一种生长迅速的柳树品种,具有作为生物质原料或植物修复的潜力。然而, 在 中,用于定量实时聚合酶链反应 (qPCR) 的参考基因 (RGs) 很少,从而限制了基因表达研究。在这里,我们研究了 14 个候选参考基因 (RGs) 在暴露于五种非生物胁迫(冷、热、干旱、盐和多金属)的各种器官中的表达稳定性。应用了四种 RG 排名算法,即 geNorm、BestKeeper、NormFinder 和 GrayNorm 来分析 qPCR 数据,并使用 RankAggreg(一种排名聚合算法)将结果合并到共识列表中。此外,还使用 geNorm 和 GrayNorm 确定了最佳 RG 组合。在根部最稳定的基因是 和 。在叶子中,最稳定的是 ,其次是 和 ,具体取决于测试的条件。相反, 和 ,这两个常用于 qPCR 数据归一化的基因在所有器官中最不稳定。然而,geNorm 和 GrayNorm 都建议使用基因组合而不是单个基因。这些结果对于不同 器官中转录组响应的研究很有价值。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/013e/6747362/93fd942b9a48/ijms-20-04210-g001.jpg

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