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Items: 1 to 20 of 22490

1.

Tomato Shade Avoidance: Unraveling Internode Elongation and Hormonal Harmony

(Submitter supplied) This study provides a comparison of gene expression in two tomato cultivars, Moneymaker and M82, focusing on first internode and its innermost cell type pith—under two light conditions: white light with far-red supplementation (WL+FR) and the control condition of white light (WL). The samples were harvested at four time points leading to the point where internode elongation could be measured in response to WL+FR. more...
Organism:
Solanum lycopersicum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21762
86 Samples
Download data: CSV
Series
Accession:
GSE255611
ID:
200255611
2.

Examining preharvest genetic and morphological factors contributing to lettuce (Lactuca sativa L.) shelf life

(Submitter supplied) Lettuce (Lactuca sativa L.) is a highly perishable horticultural crop with a relatively short shelf life due to leaf senescence that limits its commercial value and contributes to food waste. Postharvest senescence varies with influences of both environmental and genetic factors. Preharvest genetic factors can be indicative of postharvest quality. Discovery of additional preharvest markers to assess lettuce shelf life is an important step towards increasing the efficiency of lettuce breeding efforts for improved shelf life. more...
Organism:
Lactuca sativa
Type:
Expression profiling by high throughput sequencing
Platform:
GPL29850
9 Samples
Download data: TXT
Series
Accession:
GSE226302
ID:
200226302
3.

Combined analysis of ATAC-Seq and RNA-Seq reveal a potential role of WRKY34 in tomato response to cold stress [ATAC]

(Submitter supplied) To further clarify the differences in the potential regulatory mechanisms of cold tolerance between wild and cultivated tomatoes, we subjected cold-sensitive cultivated tomato (Solanum lycopersicum) Ailsa Craig (AC) and cold-tolerant wild tomato (S. habrochaites) LA1777 to cold stress for 6 h, and performed ATAC-Seq and RNA-Seq, respectively.
Organism:
Solanum lycopersicum; Solanum habrochaites
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL27957 GPL34161
8 Samples
Download data: BW
Series
Accession:
GSE254893
ID:
200254893
4.

Ploidy-specific transcriptomes shed light on the heterogeneous identity and metabolism of developing pericarp cells

(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
Series
Accession:
GSE245923
ID:
200245923
5.

Autophagy-Mediated Degradation of Integumentary Tapetum Is Critical for Embryo Pattern Formation

(Submitter supplied) To investigate molecular links and underlying mechanisms between autophagy in the integumentary tapetum and embryo pattern formation, we isolated embryos from wild-type plants, atg5 mutants, and atg5 mutants expressing proTPE8:ATG5-GFP for RNA-sequencing.
Organism:
Nicotiana tabacum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL33956
9 Samples
Download data: TXT
Series
Accession:
GSE248624
ID:
200248624
6.

Comparative analysis of RNA interference and pattern-triggered immunity induced by dsRNA in response to virus infection

(Submitter supplied) The main goal of this study was to compare the differential efficiency of the antiviral activity triggered by externally delivered virus-specific and nonspecific dsRNAs in plants. RNAi mediated by virus-specific dsRNA is the main antiviral defense mechanism in plants, but nonspecific dsRNA-triggered responses have been documented to play a role in antiviral defense. Using PVX as a model, we have determined that co-inoculation with either virus-specific or nonspecific dsRNA reduced virus accumulation in both inoculated and systemic leaves although at different extent. more...
Organism:
Nicotiana benthamiana
Type:
Expression profiling by high throughput sequencing
Platform:
GPL31115
12 Samples
Download data: TXT
Series
Accession:
GSE253964
ID:
200253964
7.

Circadian regulation of genes contributed by rapid RNA turnover in tomato

(Submitter supplied) Large number of genes whose expression cycles are controlled by circadian rhythm. Circadian period and phase changes were positively selected during domestication in tomato. However, the effect of RNA metabolism on circadian gene oscillations remains largely unclear. In this study, we performed transcriptome and degradome termed genome-wide mapping of uncapped and cleavage transcripts (GMUCT) in tomato leaves at 6 time points in one circadian period. more...
Organism:
Solanum lycopersicum
Type:
Expression profiling by high throughput sequencing; Other
Platform:
GPL16345
36 Samples
Download data: TXT
Series
Accession:
GSE225098
ID:
200225098
8.

Exogenous Melatonin RegulatesAlternaria brassicaeReproduction and Pathogenicity in a Dose-Dependent Manner [miRNA_degradome]

(Submitter supplied) The development of viroid-elimination technology is an important means to ensure the production of tomatoes. Viroid is an obligate pathogen that can infect the apical meristem cells. The combination of low-temperature therapy and meristem culture is a commonly used method for viroid eradication, but tomatoes cannot withstand long-term low-temperature treatment. This study identified a new HSVd genotype and measured the growth and physiological parameters of diseased tomato “Alisa Craig”. more...
Organism:
Solanum lycopersicum
Type:
Other
Platform:
GPL19694
2 Samples
Download data: XLSX
Series
Accession:
GSE254911
ID:
200254911
9.

Exogenous Melatonin RegulatesAlternaria brassicaeReproduction and Pathogenicity in a Dose-Dependent Manner [miRNA]

(Submitter supplied) The development of viroid-elimination technology is an important means to ensure the production of tomatoes. Viroid is an obligate pathogen that can infect the apical meristem cells. The combination of low-temperature therapy and meristem culture is a commonly used method for viroid eradication, but tomatoes cannot withstand long-term low-temperature treatment. This study identified a new HSVd genotype and measured the growth and physiological parameters of diseased tomato “Alisa Craig”. more...
Organism:
Solanum lycopersicum
Type:
Non-coding RNA profiling by high throughput sequencing
Platform:
GPL19694
6 Samples
Download data: XLSX
Series
Accession:
GSE254910
ID:
200254910
10.

Volatile communication in plants relies on a KAI2-mediated signaling pathway

(Submitter supplied) Plants are targets of volatile organic compounds (VOCs) released as a part of plant-plant communication, within-plant self-signaling and plant-microbe interactions. Therefore, understanding VOC perception and downstream signaling is vital for unraveling the mechanisms behind information exchange in plants, which remain largely unexplored. Using the hormone-like function of volatile terpenoids in reproductive organ development as a system with a visual marker for communication, we demonstrated that among the four petunia karrikin-insensitive receptors, PhKAI2ia stereo-specifically perceives the (-)-germacrene D signal, triggering a karrikin-like signaling cascade. more...
Organism:
Petunia x hybrida
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21338
12 Samples
Download data: TXT
Series
Accession:
GSE245080
ID:
200245080
11.

High throughput sequencing identifies chilling responsive genes in sweetpotato (Ipomoea batatas Lam.) during storage

(Submitter supplied) Sweetpotato (Ipomoea batatas L.) is a globally important economic food crop. It belongs to Convolvulaceae family and origins in the tropics; however, sweetpotato is sensitive to cold stress during storage. In this study, we performed transcriptome sequencing to investigate the sweetpotato response to chilling stress during storage. A total of 110,110 unigenes were generated via high-throughput sequencing. more...
Organism:
Ipomoea batatas
Type:
Expression profiling by high throughput sequencing
Platform:
GPL30016
9 Samples
Download data: XLSX
Series
Accession:
GSE255226
ID:
200255226
12.

Real-time quantitative PCR analysis of Tomato stress response

(Submitter supplied) To extract RNA from shoots and roots, 3 weeks old control and treated plants were harvested at 2pm in the greenhouse. Total RNA was extracted using the AccuPrep® Universal RNA extraction kit (Bioneer, Daejeon, Korea) and treated with RNase-free DNase to remove DNA fragments (Qiagen, Hilden, Germany). One microgram of total RNA was used to synthesize cDNA with AccuPower® RT PreMix (Bioneer, Daejeon, Korea). more...
Organism:
Solanum lycopersicum
Type:
Expression profiling by RT-PCR
Platform:
GPL33939
16 Samples
Download data: XLS
Series
Accession:
GSE248090
ID:
200248090
13.

Transcriptome Analysis Reveals the Biocontrol Mechanism of Endophytic Bacteria AM201, Rhodococcus sp., against Root Rot Disease of Atractylodes macrocephala

(Submitter supplied) Transcriptome analysis was performed on the rhizome tissues of Atractylodes macrocephala under different treatments. The four treatments were: sterile water irrigation alone, FS root irrigation, FS and AM201 root irrigation, and FS combined with methyltobuzin (TM) root irrigation. And the differential genes between AM201 and FO groups were identified and compared, which helps to reveal the resistance mechanism of AM201 to Atractylodes macrocephala root rot disease
Organism:
Atractylodes macrocephala
Type:
Expression profiling by high throughput sequencing
Platform:
GPL34131
12 Samples
Download data: XLSX
Series
Accession:
GSE254183
ID:
200254183
14.

Next-generation sequencing analysis of tea plant cultivar transcriptomes in response to Colletotrichum camelliae infection

(Submitter supplied) Next-generation sequencing (NGS) was performed to identify genes changed in tea plant cultivar Zhongcha 108 upon Colletotrichum camelliae infection. The goal of the work is to find interesting genes involved in tea plant in response to fungi infection. The object is to reveal the molecular mechanism of tea plant defense.
Organism:
Camellia sinensis
Type:
Expression profiling by high throughput sequencing
Platform:
GPL23285
9 Samples
Download data: XLSX
Series
Accession:
GSE226846
ID:
200226846
15.

RNA-seq of Wild type (WT) tomato (Solanum lycopersicum, cultivar Ailsa Craig), NAC-NOR CRISPR mutant (slnor, AC background), MADS-RIN CRISPR mutant (slrin, AC background), and slnor slrin double mutant (generated by crossing slnor with slrin)

(Submitter supplied) Using RNA-seq to study the transcription level of genes in WT, slnor mutant, slrin mutant, and slnor/slrin double mutant
Organism:
Solanum lycopersicum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL27957
60 Samples
Download data: BW, TXT
Series
Accession:
GSE222119
ID:
200222119
16.

Transcriptome analysis reveals the key role of overdominant expression of photosynthetic and respiration-related genes in the formation of tobacco(Nicotiana tabacum L.) biomass heterosis

(Submitter supplied) Heterosis, a phenomenon where hybrids exhibit superior performance in various traits such as yield, quality, and resistance compared to their parents, has long been a focus of agricultural research. Although tobacco biomass significantly affects tobacco yield and economic profitability, the underlying reasons for the dominance of tobacco biomass hybrids and their formation remain unclear. To address this, we selected 5 tobacco varieties (lines) with large differences in tobacco biomass as the parents and formulated F1 hybrids to analyze the expression of tobacco biomass heterosis. more...
Organism:
Nicotiana tabacum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL29390
18 Samples
Download data: TXT
Series
Accession:
GSE252097
ID:
200252097
17.

Priming of tomato mother plants using chemical elicitors linked to whole genome DNA methylation.

(Submitter supplied) Inbred parental lines of two cultivars (cv Moneyberg and cv Bolstar Granda) of the model crop tomato were primed (induced for resistance) during four different moments in their development, i.e. once in the vegetative phase (time window 1), once in the generative phase at early flowering (time window 2), multiple times in the generative phase during flowering (time window 3), and once during ripening of the first fruit bunch (time window 4). more...
Organism:
Solanum lycopersicum
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL27957
96 Samples
Download data: BED
Series
Accession:
GSE229117
ID:
200229117
18.

RNA-seq of Wild type (WT) tomato (Solanum lycopersicum, cultivar Ailsa Craig) and NAC-NOR CRISPR mutant (slnor, AC background)

(Submitter supplied) Using RNA-seq to study the transcription level of genes in WT and slnor mutant
Organism:
Solanum lycopersicum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL25655
12 Samples
Download data: TXT
Series
Accession:
GSE196474
ID:
200196474
19.

BS-seq of WT, slnor, and sldml2

(Submitter supplied) Using WGBS-seq to study the methylation level of genes in WT, slnor, and sldml2 mutants
Organism:
Solanum lycopersicum
Type:
Methylation profiling by high throughput sequencing
Platforms:
GPL25655 GPL19694
14 Samples
Download data: BW
Series
Accession:
GSE193170
ID:
200193170
20.

Next generation sequencing analysis of ginseng transcriptomes in response to Botrytis cinerea △BcSpd1 treatment

(Submitter supplied) Next generation sequencing (NGS) was performed to identify genes changed in ginseng upon Botrytis cinerea △BcSpd1 treatment. The goal of the work is to find interesting genes involved in ginseng in response to fungi induction. The object is to reveal the molecular mechanism of ginseng defense induced by Botrytis cinerea △BcSpd1 .
Organism:
Panax ginseng
Type:
Expression profiling by high throughput sequencing
Platform:
GPL25794
9 Samples
Download data: XLSX
Series
Accession:
GSE221931
ID:
200221931
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