ArticlePlant physiology2011
Systems biology of tomato fruit development: combined transcript, protein, and metabolite analysis of tomato transcription factor (nor, rin) and ethylene receptor (Nr) mutants reveals novel regulatory interactions.
Article in Plant physiology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 146 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
146 citing papers in PubMed, 330 citations in OpenAlex.
- Regulatory structural variations upstream of a NAC transcription factor control fruit maturity timing in peach.Journal of experimental botany · 2026Article
- PbrIDD2-PbrAPX14 Module Functions in the Ethylene-Mediated Ripening and Senescence Process of Pear Fruit.Plant biotechnology journal · 2026Article
- Metabolomic and transcriptomic analyses reveal grafting-regulated nutritional and flavor metabolites in tomato.BMC plant biology · 2026Article
- Molecular orchestration of malate and citrate metabolism: regulatory networks governing organic acid dynamics and fruit quality attributes.Horticulture research · 2026Article
- Proteome and Phosphoproteome of Tomato Fruit Identify REDUCED CHLOROPLAST COVERAGE 1a as A Ripening Regulator.Genomics, proteomics & bioinformatics · 2025Article
- What metabolomics has taught us about tomato fruit ripening and quality.Journal of experimental botany · 2025Review
- The 14-3-3 Protein SlTFT1 Accelerates Tomato Fruit Ripening by Binding and Stabilising YFT1 in the Ethylene Signalling Pathway.Plant biotechnology journal · 2025Article
- Activation of alternative oxidase ensures carbon supply for ethylene and carotenoid biosynthesis during tomato fruit ripening.Plant physiology · 2025Article
- Comparative Transcriptome Analysis in Tomato Fruit Reveals Genes, Pathways, and Processes Affected by the LEC1-LIKE4 Transcription Factor.International journal of molecular sciences · 2025Article
- Ethylene-releasing plant growth regulators promote ripening initiation by stimulating sugar, acid and anthocyanin metabolism in blueberry (Vaccinium ashei).BMC plant biology · 2025Article
- Ethylene Signaling in Regulating Plant Growth, Development, and Stress Responses.Plants (Basel, Switzerland) · 2025Review
- Metabolite quantification data based onBMC research notes · 2024Article
- Identification, charectrization and genetic transformation of lignin and pectin polysaccharides through CRISPR/Cas9 in Nicotiana tobacum.Functional & integrative genomics · 2024Article
- Maize multi-omics reveal leaf water status controlling of differential transcriptomes, proteomes and hormones as mechanisms of age-dependent osmotic stress response in leaves.Stress biology · 2024Article
- Metabolomics to understand metabolic regulation underpinning fruit ripening, development, and quality.Journal of experimental botany · 2024Review
- Gibberellins involved in fruit ripening and softening by mediating multiple hormonal signals in tomato.Horticulture research · 2024Article
- Ethylene enhances MdMAPK3-mediated phosphorylation of MdNAC72 to promote apple fruit softening.The Plant cell · 2023Article
- An Integrative Transcriptomics and Proteomics Approach to Identify Putative Genes Underlying Fruit Ripening in Tomato near Isogenic Lines with Long Shelf Life.Plants (Basel, Switzerland) · 2023Article
- Multi-omics quantitative data of tomato fruit unveils regulation modes of least variable metabolites.BMC plant biology · 2023Article
- Genomics, Proteomics, and Metabolomics Approaches to Improve Abiotic Stress Tolerance in Tomato Plant.International journal of molecular sciences · 2023Review
86 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
12 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Tomato (Solanum lycopersicum) is an established model to study fleshy fruit development and ripening. Tomato ripening is regulated independently and cooperatively by ethylene and transcription factors, including nonripening (NOR) and ripening-inhibitor (RIN). Mutations of NOR, RIN, and the ethylene receptor Never-ripe (Nr), which block ethylene perception and inhibit ripening, have proven to be great tools for advancing our understanding of the developmental programs regulating ripening. In this study, we present systems analysis of nor, rin, and Nr at the transcriptomic, proteomic, and metabolomic levels during development and ripening. Metabolic profiling marked shifts in the abundance of metabolites of primary metabolism, which lead to decreases in metabolic activity during ripening. When combined with transcriptomic and proteomic data, several aspects of the regulation of metabolism during ripening were revealed. First, correlations between the expression levels of a transcript and the abundance of its corresponding protein were infrequently observed during early ripening, suggesting that posttranscriptional regulatory mechanisms play an important role in these stages; however, this correlation was much greater in later stages. Second, we observed very strong correlation between ripening-associated transcripts and specific metabolite groups, such as organic acids, sugars, and cell wall-related metabolites, underlining the importance of these metabolic pathways during fruit ripening. These results further revealed multiple ethylene-associated events during tomato ripening, providing new insights into the molecular biology of ethylene-mediated ripening regulatory networks.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.