GEO DataSets

(Submitter supplied) The transformation of the ovary into a fruit after successful completion of pollination and fertilization has been associated with many changes at transcriptomic level. These changes are part of a dynamic and complex regulatory network that is controlled by phytohormones, with a major role for auxin. One of the auxin-related genes differentially expressed upon fruit set and early tomato fruit development is Solanum lycopersicum ARF9 (SlARF9). more...

Organism:

Solanum lycopersicum

Type:

Expression profiling by array

Platform:

GPL16358

15 Samples

Download data: CEL

(Submitter supplied) We compared gene expression by microarray analysis between wild type and transgenic sibling progeny from two primary transgenic lines containing a construct for knocking down expression of both tomato fruitfull orthologs, FUL1/TDR4 and FUL2/MBP7.

Organism:

Solanum lycopersicum

Type:

Expression profiling by array

Platform:

GPL10570

8 Samples

Download data: TXT

(Submitter supplied) Early fruit development is crucial for crop production in tomato. After fertilization, the ovary undergoes a cell division and a cell expansion stages before maturation. Although the roles of regulatory signals such as hormone and carbohydrate during early fruit development have been studied, the spatial distribution and the sequential initiation of these regulatory signals is still poorly understood. more...

Organism:

Solanum lycopersicum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19694

16 Samples

Download data: BW

(Submitter supplied) The dataset described the transcriptional response to the loss of the tomato mp/arf5 gene

Organism:

Solanum lycopersicum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21762

3 Samples

Download data: CSV

(Submitter supplied) Universally accepted landmark stages are necessary to highlight key events in tomato reproductive development. In this study, we provide a description of floral and fruit development in a red-fruited closely related wild relative of tomato, Solanum pimpinellifolium accession LA1589. We use established and propose new landmarks as the framework for the characterization of the tomato fruit shape gene SUN in fruit development. more...

Organism:

Solanum pimpinellifolium; Solanum lycopersicum

Type:

Expression profiling by array

Platform:

GPL8362

18 Samples

Download data: FTR

(Submitter supplied) Fruit set is triggered after ovule fertilization, as a consequence of the downregulation of ovary growth repressors, such as the tomato transcription factors Auxin/indole-3-acetic acid 9 (IAA9) and Agamous-like 6 (AGL6). We produced small RNA libraries from IAA9- and AGL6-silenced ovaries to identify miRNAs differentially expressed in IAA9- and AGL6-silenced ovaries as compared with unpollinated control ovaries. more...

Organism:

Solanum lycopersicum

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL27957

3 Samples

Download data: TXT

(Submitter supplied) Tomatoes are one of the valuable sources of antioxidants such as carotenes, ascorbic acid (AsA), and phenolic compounds (flavonoids and hydroxycinnamic acid derivatives). These secondary metabolites have been proved to be beneficial for humans and animals because their involvement in the prevention of many proliferative and degenerative diseases. The aim of this work is to gain greater insights in the genetic control of phenylpropanoid accumulation in tomato fruit by using genomics-based strategies. more...

Organism:

Solanum lycopersicum

Type:

Expression profiling by array

Platform:

GPL15489

22 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Solanum lycopersicum

Type:

Non-coding RNA profiling by high throughput sequencing; Expression profiling by array

Platforms:

GPL16345 GPL16358

13 Samples

Download data: CEL

(Submitter supplied) Gene expression in three stages of ripening tomato fruit (variety Ailsa Craig) was determined with the EUTOM3 Affymetrix array in order to compare with degradrome sequencing data from study GSE42661, treated as RNAseq.

Organism:

Solanum lycopersicum

Type:

Expression profiling by array

Platform:

GPL16358

9 Samples

Download data: CEL

(Submitter supplied) By using parallel analysis of RNA ends (PARE) for global identification of miRNA targets and comparing four different stages of tomato fruit development we identified a large number of target genes of miRNAs.

Organism:

Solanum lycopersicum

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL16345

4 Samples

Download data: TXT

(Submitter supplied) Endoreduplication, during which cells increase their DNA content through successive rounds of full genome replication without cell division, is the major source of endopolyploidy in higher plants. Endoreduplication plays pivotal roles in plant growth and development and is associated with the activation of specific transcriptional programs that are characteristic to each cell type, thereby defining their identity. more...

Organism:

Solanum lycopersicum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23294

36 Samples

Download data: TSV

(Submitter supplied) To evaluate the role of seeds in fruit quality, we induced parthenocarpy in tomato by regulating ovule-specific auxin synthesis or responsiveness using the INO promoter from A. thaliana, which is expressed in the outer layer of the integuments during early stages of ovule development. We compared these to fruit where the same coding regions were expressed from the DeFH9 promoter which is expressed in carpel tissues during early stages of ovule development. more...

Organism:

Solanum lycopersicum

Type:

Expression profiling by array

Platform:

GPL4741

17 Samples

Download data: CEL

(Submitter supplied) Proteomics and transcriptomics data of tomato fruits (Solanum lycopersicum L. var. Moneymaker) at 9 developmental stages were used to calculate with a mathematical model the rate constants of synthesis and degradation for over 1,000 proteins. Proteome and transcriptome were extracted from the pericarp tissue and analyzed using label-free LC-MS/MS (Orbitrap Q-Exactive) and RNA Sequencing (Illumina), respectively. more...

Organism:

Solanum lycopersicum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16345

26 Samples

Download data: XLSX

(Submitter supplied) To reduce the level of major second messenger inositol-1,4,5-triphosphate (InsP3), we generated transgenic tomato plants (cv. Micro-Tom) that are expressing InsP 5-ptase gene. To understand effects of transgene (InsP 5-ptase) on gene expression we carried out microarray analysis from different parts of transgenic and control (wild type, empty vector control) tomato plants Objectives for this study included the identification of genes that were up or down-regulated at the transcriptional level in transgenic tomato plants expressing InsP 5-ptase gene Keywords: genetic modification

Organism:

Solanum lycopersicum

Type:

Expression profiling by array

Platform:

GPL4741

40 Samples

Download data: CEL, CHP

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Solanum lycopersicum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL4741

111 Samples

Download data: CEL

(Submitter supplied) We investigated the behavior of tomato mutants lacking transcription factors of TAP3, a class B MADS-box gene controlling parthenocarpy. To focus on the early stages of anthesis, ovary samples of MicroTom-J (MT-J) and the mutant at the different stages (e.g., bud, flowering, and after flowering) were collected.

Organism:

Solanum lycopersicum

Type:

Expression profiling by array

Platform:

GPL4741

39 Samples

Download data: CEL

(Submitter supplied) We investigated the behavior of tomato mutants lacking SlDELLA, a negative regulator of gibberellin (GA) signaling pathway. To focus on the early stages of anthesis, ovary samples of MicroTom-B (MT-B) and the mutant at the three stages (bud, flowering, and after flowering) were collected.

Organism:

Solanum lycopersicum

Type:

Expression profiling by array

Platform:

GPL4741

36 Samples

Download data: CEL

(Submitter supplied) We investigated the behavior of tomato mutants lacking transcription factors of SlIAA9, a key gene controlling parthenocarpy. To focus on the early stages of anthesis, ovary samples of MicroTom-J (MT-J) and the mutant at the three stages (bud, flowering, and after flowering) were collected.

Organism:

Solanum lycopersicum

Type:

Expression profiling by array

Platform:

GPL4741

36 Samples

Download data: CEL

(Submitter supplied) Ascorbic acid (AsA), important for plant cell protection against oxidative stresses, is useful for human health. Among vegetables, tomato is the most important specie due to its significant consumption at worldwide level. Although AsA metabolism has been characterized in detail, the genetic mechanisms controlling AsA accumulation in tomatoes are poorly understood. We used an introgression line (IL 10-1) containing a QTL inducing a reduced AsA accumulation in the fruit and carried out a comparative transcriptomic analysis in fruit tissues using a parental cultivar (M82) with normal fruit AsA levels as a reference. more...

Organism:

Solanum lycopersicum

Type:

Expression profiling by array

Platform:

GPL9923

24 Samples

Download data: TXT

(Submitter supplied) Phenylpropanoids are derived from phenylalanine and comprise an important class of plant secondary metabolites that include specialized bioactives with medicinal properties, important phytonutrients, a broad range of natural colours, phytoanticipins, phytoalexins and phytoestrogens. A number of transcription factors have been used to upregulate specific branches of phenylpropanoid metabolism, but by far the most effective has been the fruit-specific expression of AtMYB12 in tomato, which resulted in an astonishing 10% of fruit dry weight accumulating as flavonoids and hydroxycinnamates. more...

Organism:

Solanum lycopersicum

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL16345

2 Samples

Download data: WIG