ArticleBMC genomics2013
Identification of two putative reference genes from grapevine suitable for gene expression analysis in berry and related tissues derived from RNA-Seq data.
Article in BMC genomics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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Who cites it
33 citing papers in PubMed, 64 citations in OpenAlex.
- Identification of Reference Genes and Their Application in Analysis of Ginsenoside Biosynthesis Genes in American Ginseng Under Abiotic Stresses and Hormone Treatments.Plants (Basel, Switzerland) · 2026Article
- Transcriptome-Based Identification of Reference Genes for Expression Analysis in Cassava UnderPlants (Basel, Switzerland) · 2025Article
- Identification of endogenous reference genes for RT-qPCR analysis in breast cancer and matched adjacent tissues.Frontiers in oncology · 2025Article
- Selection and Validation of Reference Genes inPlants (Basel, Switzerland) · 2024Article
- Development and evaluation of suitable reference genes for qRT-PCR normalization of hybrids derived from Lycium barbarum and Lycium ruthenicum.Molecular biology reports · 2024Article
- Metabolic and Molecular Rearrangements of Sauvignon Blanc (Plants (Basel, Switzerland) · 2023Article
- Phenolic, Polysaccharides Composition, and Texture Properties during Ripening and Storage Time of New Table Grape Cultivars in Chile.Plants (Basel, Switzerland) · 2023Article
- Systematic identification of reference genes for qRT-PCR ofFrontiers in plant science · 2023Article
- Validation of Reference Genes in a Population of BlueberryPlants (Basel, Switzerland) · 2022Article
- Identification of Reference Genes for Reverse Transcription-Quantitative PCR Analysis of Ginger Under Abiotic Stress and for Postharvest Biology Studies.Frontiers in plant science · 2022Article
- Investigation of chicken housekeeping genes using next-generation sequencing data.Frontiers in genetics · 2022Article
- Genome-wide screening of novel RT-qPCR reference genes for study of GLRaV-3 infection in wine grapes and refinement of an RNA isolation protocol for grape berries.Plant methods · 2021Article
- The grapevine (Vitis vinifera L.) floral transcriptome in Pinot noir variety: identification of tissue-related gene networks and whorl-specific markers in pre- and post-anthesis phases.Horticulture research · 2021Article
- Review
- Re-evaluating experimental validation in the Big Data Era: a conceptual argument.Genome biology · 2021Article
- Identification of SNPs and InDels associated with berry size in table grapes integrating genetic and transcriptomic approaches.BMC plant biology · 2020Article
- Identification of Reference Genes in Chicken Intraepithelial Lymphocyte Natural Killer Cells Infected with Very-virulent Infectious Bursal Disease Virus.Scientific reports · 2020Article
- Identification and evaluation of reference genes for reliable normalization of real-time quantitative PCR data in acerola fruit, leaf, and flower.Molecular biology reports · 2020Article
- Transcriptome-based identification and validation of reference genes for plant-bacteria interaction studies using Nicotiana benthamiana.Scientific reports · 2019Article
- Validation of reference genes for gene expression studies in post-harvest leaves of tea plant (PeerJ · 2019Article
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Authors and funding
7 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundData normalization is a key step in gene expression analysis by qPCR. Endogenous control genes are used to estimate variations and experimental errors occurring during sample preparation and expression measurements. However, the transcription level of the most commonly used reference genes can vary considerably in samples obtained from different individuals, tissues, developmental stages and under variable physiological conditions, resulting in a misinterpretation of the performance of the target gene(s). This issue has been scarcely approached in woody species such as grapevine.
resultsA statistical criterion was applied to select a sub-set of 19 candidate reference genes from a total of 242 non-differentially expressed (NDE) genes derived from a RNA-Seq experiment comprising ca. 500 million reads obtained from 14 table-grape genotypes sampled at four phenological stages. From the 19 candidate reference genes, VvAIG1 (AvrRpt2-induced gene) and VvTCPB (T-complex 1 beta-like protein) were found to be the most stable ones after comparing the complete set of genotypes and phenological stages studied. This result was further validated by qPCR and geNorm analyses.
conclusionsBased on the evidence presented in this work, we propose to use the grapevine genes VvAIG1 or VvTCPB or both as a reference tool to normalize RNA expression in qPCR assays or other quantitative method intended to measure gene expression in berries and other tissues of this fruit crop, sampled at different developmental stages and physiological conditions.
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