Identification and validation of reference genes for accurate normalization of real-time quantitative PCR data in kiwifruit

• Published in: Plant physiology and biochemistry 2016-05, Vol.102, p.27-36
• Main Authors: Ferradás, Yolanda, Rey, Laura, Martínez, Óscar, Rey, Manuel, González, Mª Victoria
• Format: Article
• Language: English
• Subjects: 18S rRNA; ACTIN; Actinidia - genetics; Actinidia - metabolism; FLOWERING LOCUS T; Gene expression; Genes, Plant; Kiwifruit; Plant Proteins - biosynthesis; Plant Proteins - genetics; Polymerase Chain Reaction - methods; Polymerase Chain Reaction - standards; qPCR; Reference genes; Reference Standards; RNA, Plant - biosynthesis; RNA, Plant - genetics; RNA, Ribosomal, 18S - biosynthesis; RNA, Ribosomal, 18S - genetics; Transcription Factors - biosynthesis; Transcription Factors - genetics
• ISSN: 0981-9428; 1873-2690
• DOI: 10.1016/j.plaphy.2016.02.011

Identification and validation of reference genes are required for the normalization of qPCR data. We studied the expression stability produced by eight primer pairs amplifying four common genes used as references for normalization. Samples representing different tissues, organs and developmental stages in kiwifruit (Actinidia chinensis var. deliciosa (A. Chev.) A. Chev.) were used. A total of 117 kiwifruit samples were divided into five sample sets (mature leaves, axillary buds, stigmatic arms, fruit flesh and seeds). All samples were also analysed as a single set. The expression stability of the candidate primer pairs was tested using three algorithms (geNorm, NormFinder and BestKeeper). The minimum number of reference genes necessary for normalization was also determined. A unique primer pair was selected for amplifying the 18S rRNA gene. The primer pair selected for amplifying the ACTIN gene was different depending on the sample set. 18S 2 and ACT 2 were the candidate primer pairs selected for normalization in the three sample sets (mature leaves, fruit flesh and stigmatic arms). 18S 2 and ACT 3 were the primer pairs selected for normalization in axillary buds. No primer pair could be selected for use as the reference for the seed sample set. The analysis of all samples in a single set did not produce the selection of any stably expressing primer pair. Considering data previously reported in the literature, we validated the selected primer pairs amplifying the FLOWERING LOCUS T gene for use in the normalization of gene expression in kiwifruit. •ACTIN and 18S rRNA genes have been selected as reference genes in kiwifruit.•One primer pair was selected for amplifying the 18S rRNA gene in all sample sets.•The primer pair selected for amplifying the ACTIN gene was dependent on the sample set.•Selected primer pairs were successfully validated with the FT gene in kiwifruit.