ArticleBMC genomics2015
Five omic technologies are concordant in differentiating the biochemical characteristics of the berries of five grapevine (Vitis vinifera L.) cultivars.
Article in BMC genomics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed.
- Decoding the Functional Proteome ofPlants (Basel, Switzerland) · 2026Review
- Responding to Stress: Diversity and Resilience of Grapevine in a Changing Climate Under the Perspective of Omics Research.International journal of molecular sciences · 2025Review
- Insights into the cell-wall dynamics in grapevine berries during ripening and in response to biotic and abiotic stresses.Plant molecular biology · 2024Review
- Secondary metabolites in grapevine: crosstalk of transcriptional, metabolic and hormonal signals controlling stress defence responses in berries and vegetative organs.Frontiers in plant science · 2023Review
- Differential Protein Expression in Berry Skin from Red Grapes with Varying Hybrid Character.International journal of molecular sciences · 2022Article
- Transcriptomic and metabolomic integration as a resource in grapevine to study fruit metabolite quality traits.Frontiers in plant science · 2022Article
- Tracking the development of the superficial scald disorder and effects of treatments with diphenylamine and 1-MCP using an untargeted metabolomic approach in apple fruit.Food chemistry. Molecular sciences · 2021Article
- Systems biology for crop improvement.The plant genome · 2021Review
- Biosynthesis and Cellular Functions of Tartaric Acid in Grapevines.Frontiers in plant science · 2021Review
- Long-Term Impact of Chemical and Alternative Fungicides Applied to GrapevineInternational journal of molecular sciences · 2020Article
- A sense of place: transcriptomics identifies environmental signatures in Cabernet Sauvignon berry skins in the late stages of ripening.BMC plant biology · 2020Article
- Distinct Metabolic Signals Underlie Clone by Environment Interplay in "Nebbiolo" Grapes Over Ripening.Frontiers in plant science · 2019Article
- Timing and Order of the Molecular Events Marking the Onset of Berry Ripening in Grapevine.Plant physiology · 2018Article
- Putting primary metabolism into perspective to obtain better fruits.Annals of botany · 2018Review
- Resveratrol accumulation and its involvement in stilbene synthetic pathway of Chinese wild grapes during berry development using quantitative proteome analysis.Scientific reports · 2017Article
- The common transcriptional subnetworks of the grape berry skin in the late stages of ripening.BMC plant biology · 2017Article
- Omics Approaches for Understanding Grapevine Berry Development: Regulatory Networks Associated with Endogenous Processes and Environmental Responses.Frontiers in plant science · 2017Review
- The Transcriptional Responses and Metabolic Consequences of Acclimation to Elevated Light Exposure in Grapevine Berries.Frontiers in plant science · 2017Article
- A Concise Review on Multi-Omics Data Integration for Terroir Analysis inFrontiers in plant science · 2017Review
- The Terroir Concept Interpreted through Grape Berry Metabolomics and Transcriptomics.Journal of visualized experiments : JoVE · 2016Article
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Authors and funding
10 authors.
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No grant is acknowledged in the PubMed record.
Abstract
backgroundGrape cultivars and wines are distinguishable by their color, flavor and aroma profiles. Omic analyses (transcripts, proteins and metabolites) are powerful tools for assessing biochemical differences in biological systems.
resultsBerry skins of red- (Cabernet Sauvignon, Merlot, Pinot Noir) and white-skinned (Chardonnay, Semillon) wine grapes were harvested near optimum maturity (°Brix-to-titratable acidity ratio) from the same experimental vineyard. The cultivars were exposed to a mild, seasonal water-deficit treatment from fruit set until harvest in 2011. Identical sample aliquots were analyzed for transcripts by grapevine whole-genome oligonucleotide microarray and RNAseq technologies, proteins by nano-liquid chromatography-mass spectroscopy, and metabolites by gas chromatography-mass spectroscopy and liquid chromatography-mass spectroscopy. Principal components analysis of each of five Omic technologies showed similar results across cultivars in all Omic datasets. Comparison of the processed data of genes mapped in RNAseq and microarray data revealed a strong Pearson's correlation (0.80). The exclusion of probesets associated with genes with potential for cross-hybridization on the microarray improved the correlation to 0.93. The overall concordance of protein with transcript data was low with a Pearson's correlation of 0.27 and 0.24 for the RNAseq and microarray data, respectively. Integration of metabolite with protein and transcript data produced an expected model of phenylpropanoid biosynthesis, which distinguished red from white grapes, yet provided detail of individual cultivar differences. The mild water deficit treatment did not significantly alter the abundance of proteins or metabolites measured in the five cultivars, but did have a small effect on gene expression.
conclusionsThe five Omic technologies were consistent in distinguishing cultivar variation. There was high concordance between transcriptomic technologies, but generally protein abundance did not correlate well with transcript abundance. The integration of multiple high-throughput Omic datasets revealed complex biochemical variation amongst five cultivars of an ancient and economically important crop species.
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