scholarly journals Selection of Reference Genes for the Normalization of RT-qPCR Data in Gene Expression Studies in Insects: A Systematic Review

2018 ◽  
Vol 9 ◽  
Author(s):  
Jing Lü ◽  
Chunxiao Yang ◽  
Youjun Zhang ◽  
Huipeng Pan
Keyword(s):  
Gene Expression ◽  
Systematic Review ◽  
Reference Genes ◽  
Qpcr Data ◽  
Expression Studies ◽  
Gene Expression Studies ◽  
Selection Of

scholarly journals Selection of Appropriate Reference Genes for Gene Expression Analysis under Abiotic Stresses in Salix viminalis

2019 ◽  
Vol 20 (17) ◽  
pp. 4210 ◽  
Author(s):  
Valentin Ambroise ◽  
Sylvain Legay ◽  
Gea Guerriero ◽  
Jean-Francois Hausman ◽  
Ann Cuypers ◽  
...  
Keyword(s):  
Gene Expression ◽  
Abiotic Stresses ◽  
Reference Genes ◽  
Rank Aggregation ◽  
Salix Viminalis ◽  
Qpcr Data ◽  
Ranking Algorithms ◽  
Expression Studies ◽  
Gene Expression Studies ◽  
Selection Of

Salix viminalis 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 S. viminalis, 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 geNormPLUS, 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 geNormPLUS and GrayNorm. The genes that were the most stable in the roots were TIP41 and CDC2. In the leaves, TIP41 was the most stable, followed by EF1b and ARI8, depending on the condition tested. Conversely, GAPDH and β-TUB, two genes commonly used for qPCR data normalization were the least stable across all organs. Nevertheless, both geNormPLUS 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 S. viminalis organs.

scholarly journals Selection of reference genes for measuring the expression of aiiO in Ochrobactrum quorumnocens A44 using RT-qPCR

2019 ◽  
Vol 9 (1) ◽  
Author(s):  
Dorota M. Krzyżanowska ◽  
Anna Supernat ◽  
Tomasz Maciąg ◽  
Marta Matuszewska ◽  
Sylwia Jafra
Keyword(s):  
Gene Expression ◽  
Quorum Sensing ◽  
Reference Genes ◽  
Significance Threshold ◽  
Expression Studies ◽  
Reverse Transcription Quantitative Pcr ◽  
Gene Expression Studies ◽  
The Stability ◽  
Selection Of

Abstract Reverse transcription quantitative PCR (RT-qPCR), a method of choice for quantification of gene expression changes, requires stably expressed reference genes for normalization of data. So far, no reference genes were established for the Alphaproteobacteria of the genus Ochrobactrum. Here, we determined reference genes for gene expression studies in O. quorumnocens A44. Strain A44 was cultured under 10 different conditions and the stability of expression of 11 candidate genes was evaluated using geNorm, NormFinder and BestKeeper. Most stably expressed genes were found to be rho, gyrB and rpoD. Our results can facilitate the choice of reference genes in the related Ochrobactrum strains. O. quorumnocens A44 is able to inactivate a broad spectrum of N-acyl homoserine lactones (AHLs) – the quorum sensing molecules of many Gram-negative bacteria. This activity is attributed to AiiO hydrolase, yet it remains unclear whether AHLs are the primary substrate of this enzyme. Using the established RT-qPCR setup, we found that the expression of the aiiO gene upon exposure to two AHLs, C6-HLS and 3OC12-HSL, does not change above the 1-fold significance threshold. The implications of this finding are discussed in the light of the role of quorum sensing-interfering enzymes in the host strains.

scholarly journals Selection of Reference Genes for Gene Expression Studies related to lung injury in a preterm lamb model

2016 ◽  
Vol 6 (1) ◽  
Author(s):  
Prue M. Pereira-Fantini ◽  
Anushi E. Rajapaksa ◽  
Regina Oakley ◽  
David G. Tingay
Keyword(s):  
Gene Expression ◽  
Lung Injury ◽  
Reference Genes ◽  
Expression Studies ◽  
Gene Expression Studies ◽  
Selection Of

scholarly journals Selection of relatively exact reference genes for gene expression studies in goosegrass (Eleusine indica) under herbicide stress

2017 ◽  
Vol 7 (1) ◽  
Author(s):  
Jingchao Chen ◽  
Zhaofeng Huang ◽  
Hongjuan Huang ◽  
Shouhui Wei ◽  
Yan Liu ◽  
...  
Keyword(s):  
Gene Expression ◽  
Reference Genes ◽  
Eleusine Indica ◽  
Expression Studies ◽  
Gene Expression Studies ◽  
Selection Of
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