Selection and Validation of Reference Genes for qRT-PCR Analysis in the Oil-Rich Tuber Crop Tiger Nut ( Cyperus esculentus ) Based on Transcriptome Data

• Published in: International journal of molecular sciences Vol. 22; no. 5; p. 2569
• Main Authors: Bai, Xue, Chen, Tao, Wu, Yuan, Tang, Mingyong, Xu, Zeng-Fu
• Format: Journal Article
• Language: English
• Published: Switzerland MDPI AG 04.03.2021; MDPI
• Subjects: Acyltransferase; Adaptability; Calcium-Binding Proteins - genetics; Candidates; Cultivars; Cyperus - genetics; Cyperus - metabolism; Cyperus esculentus; Dehydrogenases; Diglycerides; Gene expression; Gene Expression Profiling - methods; Gene Expression Regulation, Plant - genetics; Genes; Kinases; Leaves; Lipids; normalization; Nuts; Plant Oils - metabolism; Plant Proteins - genetics; Plant Tubers - genetics; qRT-PCR; reference gene; Reference Standards; Reverse Transcriptase Polymerase Chain Reaction - methods; Ribulose-bisphosphate carboxylase; Software; Stability analysis; Storage organs; Transcriptome - genetics; Transcriptomes; tuber; Tubers; normalization; qRT-PCR; tuber; RankAggreg; reference gene; Cyperus esculentus; gene expression
• ISSN: 1422-0067; 1661-6596; 1422-0067
• DOI: 10.3390/ijms22052569

Tiger nut ( ), a perennial C plant of the family, is an unconventional crop that is distinguished by its oil-rich tubers, which also possesses the advantages of strong resistance, wide adaptability, short life periods, and large biomass. To facilitate studies on gene expression in this species, we identified and validated a series of reference genes (RGs) based on transcriptome data, which can be employed as internal controls for qRT-PCR analysis in tiger nut. Fourteen putative candidate RGs were identified and evaluated across nine different tissues of two cultivars, and the RGs were analyzed using three different algorithms (geNorm, NormFinder, and BestKeeper). The stability rankings of the candidate RGs were merged into consensus lists with RankAggreg. For the below-ground storage organ of tiger nut, the optimal RGs were and in different developmental stages of tubers. and were the most stably expressed RGs among all tissues, while and exhibited the lowest expression stability. , and were compared to normalize the expression levels of the ( ) and ( ) genes across the same tissues. Our results showed that the RGs identified in this study, which exhibit more uniform expression patterns, may be utilized for the normalization of qRT-PCR results, promoting further research on gene expression in various tissues of tiger nut.