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用于qRT-PCR的内参基因选择及沿海拔梯度的草原毛虫(鳞翅目:灯蛾科:)中与高海拔相关基因的表达分析

Selection of reference genes for qRT-PCR and expression analysis of high-altitude-related genes in grassland caterpillars (Lepidoptera: Erebidae: ) along an altitude gradient.

作者信息

Zhang Li, Zhang Qi-Lin, Wang Xiao-Tong, Yang Xing-Zhuo, Li Xiao-Peng, Yuan Ming-Long

机构信息

State Key Laboratory of Grassland Agro-Ecosystems College of Pastoral Agricultural Science and Technology Lanzhou University Lanzhou China.

State Key Laboratory of Pharmaceutical Biotechnology School of Life Sciences Nanjing University Nanjing China.

出版信息

Ecol Evol. 2017 Sep 25;7(21):9054-9065. doi: 10.1002/ece3.3431. eCollection 2017 Nov.

Abstract

Changes in gene expression patterns can reflect the adaptation of organisms to divergent environments. Quantitative real-time PCR (qRT-PCR) is an important tool for ecological adaptation studies at the gene expression level. The quality of the results of qRT-PCR analysis largely depends on the availability of reliable reference genes (RGs). To date, reliable RGs have not been determined for adaptive evolution studies in insects using a standard approach. Here, we evaluated the reliability of 17 candidate RGs for five populations inhabiting various altitudes of the Tibetan Plateau (TP) using four independent (geNorm, NormFinder, BestKeeper, and the deltaCt method) and one comprehensive (RefFinder) algorithms. Our results showed that α, , and were the top three most suitable RGs, and a combination of these three RGs was the most optimal for normalization. Conversely, ,, and were the most unstable RGs. The expression profiles of two target genes ( and ) were used to confirm the reliability of the chosen RGs. Additionally, the expression patterns of four other genes (,,, and ) associated with adaptation to extreme environments were assessed to explore the adaptive mechanisms of TP species to divergent environments. Each of these six target genes showed discrepant expression patterns among the five populations, suggesting that the observed expression differences may be associated with the local adaptation of to divergent altitudinal environments. This study is a useful resource for studying the adaptive evolution of TP to divergent environments using qRT-PCR, and it also acts as a guide for selecting suitable RGs for ecological and evolutionary studies in insects.

摘要

基因表达模式的变化可以反映生物体对不同环境的适应性。定量实时荧光定量PCR(qRT-PCR)是在基因表达水平上进行生态适应性研究的重要工具。qRT-PCR分析结果的质量很大程度上取决于可靠的内参基因(RGs)的可用性。迄今为止,尚未使用标准方法确定昆虫适应性进化研究中的可靠内参基因。在这里,我们使用四种独立算法(geNorm、NormFinder、BestKeeper和deltaCt方法)和一种综合算法(RefFinder)评估了17个候选内参基因对栖息在青藏高原(TP)不同海拔高度的五个种群的可靠性。我们的结果表明,α、β和γ是最适合的三个内参基因,这三个内参基因的组合是最适合标准化的。相反,δ、ε和ζ是最不稳定的内参基因。使用两个靶基因(A和B)的表达谱来确认所选内参基因的可靠性。此外,评估了与适应极端环境相关的其他四个基因(C、D、E和F)的表达模式,以探索TP物种对不同环境的适应机制。这六个靶基因在五个种群中均表现出不同的表达模式,表明观察到的表达差异可能与TP对不同海拔环境的局部适应有关。这项研究是利用qRT-PCR研究TP对不同环境的适应性进化的有用资源,也为昆虫生态和进化研究选择合适的内参基因提供了指导。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e31c/5677504/66a6b27b596b/ECE3-7-9054-g001.jpg

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