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.
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.
Project description:RNA interference (RNAi) is a widely-used approach to generate virus-resistant transgenic crops. However, durability of RNAi-mediated resistance under extreme field conditions and side-effects of stable RNAi expression have not been thoroughly investigated. Here we performed field trials and molecular characterization of two RNAi-transgenic Solanum lycopersicum lines resistant to Tomato yellow leaf curl virus (TYLCV) disease, the major constraint for tomato cultivation in Cuba and worldwide. In order to determine potential impact of the hairpin RNA transgene expression on tomato genome expression and development, differences in the phenotypes and the transcriptome profiles between the transgenic and non-transgenic plants were examined. Transcriptome profiling revealed a common set of up- and down-regulated tomato genes, which correlated with slight developmental abnormalities in both transgenic lines.
Project description:Comparison of endogenous small RNA profiles from different developmental stages of tomato fruits Size fractionated small RNA from total RNA extracts was ligated to adaptors, purified again and reverse transcribed. After PCR amplification the sample was subjected to Solexa/Illumina high throughput pyrosequencing. Please see www.illumina.com for details of the sequencing technology.
Project description:Comparison of the endogenous small RNA content of tomato leaves and fruits. Size fractionated small RNA from total RNA extracts was ligated to adapters, purified again and reverse transcribed. After PCR amplification the sample was subjected to 454 high throughput pyrosequencing. Please see www.454.com for details of the sequencing technology. Note: Raw data files were not available from 454 at the time this experiment was carried out.
Project description:To characterize plant growth in net zero energy greenhouse models covered with semi-transparent organic solar cells (OSCs), RNA was extracted from tomato leaf tissue. Six experimental treatments were created with three OSC filters: FTAZ:IT-M, PTB7-Th:IEICO-4F, FTAZ:PCBM. Boxes with either a clear glass cover or a spectrally-neutral cover were used as the high light (HC) control and the comparative light intensity (PC) control, respectively. These treatments were divided into 2 experiments. 4 treatments (3 OSC boxes and control) had a consistent light intensity and were called the PPFD Controlled (PC) experiment. The other 4 treatments were the Height Controlled (HC) experiment and had more variation in light intensity between treatments due to a consistent distance from the growth chamber light source (height). Plants in the FP_PC treatment flowered one day later than the PC control. FI_PC flowered one day earlier. Gene expression in samples from the FP_PC treatment had a distinct pattern related to flowering initiation.
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
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).
Project description:SlJMJ4 is a positive regulator of leaf senescence in tomato and mediates ABA-induced leaf senescence by activating the transcription of many genes related to ABA synthesis and signaling, and transcription regulation via removal of their H3K27me3 levels.