ArticleScientific reports2017
Use of RNA-seq data to identify and validate RT-qPCR reference genes for studying the tomato-Pseudomonas pathosystem.
Article in Scientific reports, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers.
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43 citing papers in PubMed, 105 citations in OpenAlex.
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- Transcriptome-Based Identification of Reference Genes for Expression Analysis in Cassava UnderPlants (Basel, Switzerland) · 2025Article
- Cold-Tolerant Bacteria Isolated from Alpine Plants Can Promote Growth and Mitigate Cold Stress in Tomato Seedlings by Complex Transcriptional Reprogramming of Stress-Related Genes.Plants (Basel, Switzerland) · 2025Article
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- Transcriptome-guided selection of stable reference genes for expression analysis in spinach.Scientific reports · 2024Article
- RNA-seq validation: software for selection of reference and variable candidate genes for RT-qPCR.BMC genomics · 2024Article
- Selection and validation of reference genes for RT-qPCR in ophiocordyceps sinensis under different experimental conditions.PloS one · 2024Article
- Assessing Radish Health during Space Cultivation by Gene Transcription.Plants (Basel, Switzerland) · 2023Article
- Duality of immune recognition by tomato and virulence activity of the Ralstonia solanacearum exo-polygalacturonase PehC.The Plant cell · 2023Article
- Loss-of-function mutations in WRKY22 and WRKY25 impair stomatal-mediated immunity and PTI and ETI responses against Pseudomonas syringae pv. tomato.Plant molecular biology · 2023Article
- Identification and validation of reference genes in vetiver (Physiology and molecular biology of plants : an international journal of functional plant biology · 2023Article
- Monitoring Cultured Rat Hepatocytes Using RNA-Seq In Vitro.International journal of molecular sciences · 2023Article
- TheJournal of fungi (Basel, Switzerland) · 2023Article
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- Analysis of controlling genes for tiller growth of Psathyrostachys juncea based on transcriptome sequencing technology.BMC plant biology · 2022Article
- Heightened miR6024-NLR interactions facilitate necrotrophic pathogenesis in tomato.Plant molecular biology · 2022Article
- Comparative analysis of novel and common reference genes in adult tissues of the mussel Mytilus galloprovincialis.BMC genomics · 2022Article
- RNA-Seq is not required to determine stable reference genes for qPCR normalization.PLoS computational biology · 2022Article
- Genome-wide analysis uncovers tomato leaf lncRNAs transcriptionally active upon Pseudomonas syringae pv. tomato challenge.Scientific reports · 2021Article
- Identification and validation of reference genes for qRT-PCR based studies in horse gram (Physiology and molecular biology of plants : an international journal of functional plant biology · 2021Article
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Authors and funding
5 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The agronomical relevant tomato-Pseudomonas syringae pv. tomato pathosystem is widely used to explore and understand the underlying mechanisms of the plant immune response. Transcript abundance estimation, mainly through reverse transcription-quantitative PCR (RT-qPCR), is a common approach employed to investigate the possible role of a candidate gene in certain biological process under study. The accuracy of this technique relies heavily on the selection of adequate reference genes. Initially, genes derived from other techniques (such as Northern blots) were used as reference genes in RT-qPCR experiments, but recent studies in different systems suggest that many of these genes are not stably expressed. The development of high throughput transcriptomic techniques, such as RNA-seq, provides an opportunity for the identification of transcriptionally stable genes that can be adopted as novel and robust reference genes. Here we take advantage of a large set of RNA-seq data originating from tomato leaves infiltrated with different immunity inducers and bacterial strains. We assessed and validated 9 genes that are much more stable than two traditional reference genes. Specifically, ARD2 and VIN3 were the most stably expressed genes and consequently we propose they be adopted for RT-qPCR experiments involving this pathosystem.
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