Different gene expression in the tomato trichome and leaf
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA483134 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:We report the transcriptome difference between glandular cells of type VI trichome and leaf cells of trichome shaved leaf.
2021-07-26 | GSE117766 | GEO
Project description:The occurrence of Tomato chlorosis virus (ToCV) disease seriously damages tomato growth and yield, and there is no effective way to control ToCV transmission. So far, no studies have reported exploring the interaction between ToCV and tomato at the single cellular level. In this study, single cell RNA sequence was performed on a total of 26720 individual cells from healthy and ToCV-infected tomato leaves. We through identifying cell types, the first tomato leaf cell atlas was successfully constructed. In situ hybridization experiments identified specific marker genes that can be used to identify tomato cell types. Moreover, we have characterized transcription factors that may play a key role in tomato response to ToCV infection, and described the trichome differentiation trajectory during ToCV infection through pseudotime analysis. In conclusion, we proved the feasibility of single-cell sequencing to study the response of plants to biotic stress, and put forward new insights into the interaction between ToCV and tomato from the cellular level. Our data will lay the foundation for following studies between ToCV and plants, and will also provide a valuable reference for future research on non-model plant single cells.
2024-05-01 | GSE201931 | GEO
Project description:We report the effect of chalcone isomerase deficiency on gene expression of glandular cells of type VI trichome in tomato leaves.
2021-07-27 | GSE118065 | GEO
Project description:We performed a transcriptomic analysis on two tomato genotypes, M82 and Tondo, in response to a PEG-mediated osmotic treatment, mimicking water stress. The analysis was conducted separately on leaves and roots to characterize the specific response of these two organs. A total of 6,267 differentially expressed transcripts related to osmotic stress response was detected. The construction of gene co-expression networks defined the metabolic and signaling pathways of the common and specific responses of leaf and root. The common response was characterized by ABA-dependent and ABA-independent signaling pathways, and by the interconnection between ABA and JA signaling. The root specific response concerned genes involved in cell wall metabolism and remodeling, whereas the leaf specific response was principally related to leaf senescence and ethylene signaling. The transcription factors representing the hubs of these regulatory networks were identified. Some of them have not yet characterized and can represent novel candidates for tolerance. Finally, several genes showing a genotype-specific expression regulation in response to the treatment were detected. These genes may be involved in the different sensitivity to the osmotic treatment of the two tomato genotypes. In conclusion, this work shed new light on the regulatory networks occurring in tomato leaf and root under osmotic stress and set the base for an in-depth characterization of novel stress-related genes, that may represent potential candidates for improving tolerance to water stress in tomato.
2023-05-15 | GSE224629 | GEO
Project description:In order to find the specific promoter of tomato exocarp, we extracted RNA extraction from the red ripe exocarp, red ripe mesocarp, mature green exocarp, mature green exocarp and leaf cells, and then performed RNA seq to find the differential genes from the Transcriptome data. Our data provides gene expression data for three tissues of tomato during the red ripe and mature green stages, laying the foundation for the search for differential genes
2023-06-20 | GSE235023 | GEO
Project description:The size of tomato fruits are largely dependent on growth conditions. To obtain insights on how light intensity contributes to translocation from a leaf and a fruit, we developed a plant irradiation system based on light-emitting diodes (LEDs) to a leaf. By using this system, we investigated the changes of transcript profiles of tomato leaves and fruits grown under different light conditions.
2012-05-02 | GSE35020 | GEO
Project description:Gene-to-gene coexpression analysis is a powerful approach to infer function of uncharacterized genes. To perform non-targeted coexpression analysis of tomato genes, we collected a developmental gene expression dataset using various tissues of tomato plant. Expression data are collected from 24 different tissue types including root, hypocotyl, cotyledon, leaf at different stages, and fruit tissues at 4 different ripening stages from 4 different Solanum lycopersicum cultivars. Fruits were separated to the flesh and the peel. These two tissue types indeed showed remarkably different gene expression profiles. We also collected data from 4 different ripening stages (mature green, yellow, orange, and red) to detail the changes during ripening. By using this gene expression dataset, we calculated pair-wise Pearson’s correlation coefficients, and performed network-based coexpression analysis. The analysis generated a number of coexpression modules, some of which showed an enrichment of genes associated with specific functional categories. This result will be useful in inferring functions of uncharacterized tomato genes, and in prioritizing genes for further experimental analysis. We used Affymetrix GeneChip Tomato genome Arrays to detail the global gene expression change using 24 different tomato tissue types (67 hybridizations).
2010-02-01 | GSE19326 | GEO
Project description:We profiled small RNAs obtained from B. cinerea-infected tomato leaf and fruit during a time course.
2014-03-11 | GSE45321 | GEO
Project description:We profiled small RNAs obtained from B. cinerea-infected tomato leaf and fruit during a time course. Examination of small RNAs from B. cinerea-treated tomato leaf and fruit tissue over a time course.
2014-03-11 | E-GEOD-45321 | biostudies-arrayexpress
Project description:Sl2183 is an updated version of the previous tomato metabolic model (iHY3410), with additional reactions and metabolites, IDs converted into the BiGG nomenclature and biomass reactions for leaf, stem and root, allowing to generate a multi-organ model (see Gerlin et al., Plant Physiol. for additional information).
2022-04-07 | MODEL2111120001 | BioModels