GEO DataSets

(Submitter supplied) This RNA-seq is a part of the paper describing the role of PIN5 in generating auxin sinks. https://www.biorxiv.org/content/10.1101/2024.01.24.576992v1

Organism:

Nicotiana tabacum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29390

6 Samples

Download data: SF

(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

(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

(Submitter supplied) Tobacco (Nicotiana tabacum L.) is an important cash crop, and the size of its leaves significantly influences both yield and quality. However, the upper part of tobacco leaves, due to its dense tissue structure, often faces issues such as narrow and thick leaves during the production of roasted cigarettes. These problems have a severe impact on the yield and quality of the upper leaf. Although the mechanism of leaf size regulation in Arabidopsis thaliana has been extensively studied, it remains unclear for tobacco. more...

Organism:

Nicotiana tabacum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29390

9 Samples

Download data: TXT

(Submitter supplied) The goal of present study aimed to investigate the impact of downregulation of ATG2 and ATG5 on pollen transcriptome.

Organism:

Nicotiana tabacum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29212

9 Samples

Download data: XLSX

(Submitter supplied) Nitrogen physiology is important in tobacco because of its role in generation of leaf yield and accumulation of nitrogen-containing alkaloids and that can react with nitrosating agents in the formation of carcinogenic tobacco specific nitrosamines. Cultivars of the burley tobacco market class are homozygous for deleterious alleles at the duplicate Yb1 and Yb2 loci which have previously been associated with decreased nitrogen use and utilization efficiency,; increased leaf nitrate, total nitrogen, and alkaloid levels,; and reduced yields. more...

Organism:

Nicotiana tabacum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13760

12 Samples

Download data: TXT

(Submitter supplied) We used two hybrid combinations and their 4 parents as materials. One week after topping the tobacco plant, samples were taken, including three tissues: root, stalk, and leaf. The RNA of these samples was extracted, and transcriptome sequencing analysis was carried out to explore the transcriptional profile differences between hybrids and their parents, and to analyze the gene differential expression between different tissues.

Organism:

Nicotiana tabacum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29390

54 Samples

Download data: TXT

(Submitter supplied) Background: Anatabine, although being one of four major tobacco alkaloids, is never accumulated in high quantity in any of the naturally occurring species from the Nicotiana genus. Previous studies therefore focused on transgenic approaches to synthetize anatabine, most notably by generating transgenic lines with suppressed putrescine methyltransferase (PMT) activity. This led to promising results, but the global gene expression of plants with such distinct metabolism has not been analyzed. more...

Organism:

Nicotiana tabacum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25653

78 Samples

Download data: XLSX

(Submitter supplied) To investigate the molecular mechanism of tobacco flower in response to the cold treatment, transcriptomic analysis was performed using Agilent Tobacco Gene Expression Microarrays.

Organism:

Nicotiana tabacum

Type:

Expression profiling by array

Platform:

GPL21056

12 Samples

Download data: TXT, XLSX

(Submitter supplied) Heterosis has greatly improved the yield and quality of crops. However, previous studies often focused on improving the yield and quality of the shoot system, while research on the root system was neglected. We determined the root numbers of 12 F1 hybrids, all of which showed strong heterosis, indicating that tobacco F1 hybrids have general heterosis. To understand its molecular mechanism, we selected two hybrids with strong heterosis, GJ (G70 × Jiucaiping No.2) and KJ (K326 × Jiucaiping No.2), and their parents for transcriptome analysis. more...

Organism:

Nicotiana tabacum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29390

15 Samples

Download data: TXT

(Submitter supplied) To undersatnd the developmental defects in βC1 O.E. N. Tabacum plants, transcriptome analysis was performed from leaves of verified stable transgenic lines

Organism:

Nicotiana tabacum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22345

4 Samples

Download data: XLSX

(Submitter supplied) The drought stress is one of key adverse environmental factors limiting plant growth and development, even threating global crop productivity in many arid and semi-arid regions. Drought stress usually causes huge economic losses for tobacco industries. Understanding how plants respond and adapt to the drought stress helps generate engineered plants with enhanced drought resistance. In this study, integrative analyses of multiple time point-related transcriptome and metabolome generated from K326 and its derived mutant 28 (M28) with contrasting drought tolerance. more...

Organism:

Nicotiana tabacum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22345

30 Samples

Download data: TXT

(Submitter supplied) In this study, we have used the comparative transcriptomic and proteomic approaches to decipher the changes in genes and protein abundances in cigar tobacco leaves under LL. In this study, DEGs and DEPs related to glycolysis, starch and sucrose metabolism, tyrosine metabolism, photosynthesis-antenna proteins, and photosynthesis pathways are significantly enriched. This study offers novel insights into both transcriptome and proteome levels response mechanisms under different light intensities.

Organism:

Nicotiana tabacum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29390

9 Samples

Download data: XLSX

(Submitter supplied) Purpose: we conducted a six time-point transcriptomic analysis using two tobacco cultivars with contrasting cold responses, Taiyan8 tobacco (TT, cold susceptibility) and Yanyan97 tobacco (YT, cold resistance). Methods: mRNA profiles of Tobacco seedlings from CK and cold-treated plants were generated by deep sequencing, in triplicate, usingIllumina Hiseq4500. The sequence reads that passed quality filters were analyzed at the transcript isoform level with methods: hisat2 (v2.0.5), SAMtools (v1.9). more...

Organism:

Nicotiana tabacum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25653

36 Samples

Download data: BW, TXT

(Submitter supplied) Through a two-year field experiment, G70×GDH11 with strong heterosis and K326×GDH11 with weak heterosis were screened out. Transcriptome analyses revealed that 80.89% and 57.28% of the differentially expressed genes (DEGs) in the strong and weak heterosis combinations exhibited an overdominant expression pattern, respectively. The genes that up-regulated the overdominant expression in the strong heterosis hybrids were significantly enriched in the ion homeostasis. more...

Organism:

Nicotiana tabacum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29390

18 Samples

Download data: TXT

(Submitter supplied) WIPK and SIPK, two tobacco MAPKs, are rapidly activated by wounding. Goal is to identify the genes regulated by WIPK and SIPK. For this purpose, we produced transgenic tobacco plants in which expression of WIPK and SIPK is suppressed by RNAi (WIPK/SIPK-suppressed plants).

Organism:

Nicotiana tabacum

Type:

Expression profiling by array

Platform:

GPL10098

4 Samples

Download data: TXT

(Submitter supplied) Using this microarray data, we identified 19898 probes (717 upregulated and 1512 downregulated in the mock- and MeJA-treated leaf samples at ‘1wk’ and ‘2wk’ stages; 17669 with differential expression in these samples), compared with the mock-treated sample at ‘0wk’ stage. This work aims to identify the genes related to MeJA-induced senescence of tobacco whole-plant, and found several genes differentially expressed between the mock- and MeJA-treated samples at the same stage.

Organism:

Nicotiana tabacum

Type:

Expression profiling by array

Platform:

GPL21056

5 Samples

Download data: TXT, XLS

(Submitter supplied) RNAseq was performed on two isolates of P. nicotianae (adapted to either the susceptible tobacco genotype Hicks or the partially resistant genotype K 326 Wz/Wz) to identify differentially expressed genes (DEGs) during their pathogenic interactions with K 326 Wz/Wz and Hicks.

Organism:

Phytophthora nicotianae; Nicotiana tabacum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29826

12 Samples

Download data: CSV

(Submitter supplied) Cell proliferation and division are fundamental processes of plant development and homeostasis. With the feature of high homogeneity, tobacco Bright Yellow-2 (BY-2) cells, a so-called “HeLa” cell line in plants, provide a useful system for study the cell cycle of plants, particularly when in combination with the latest high-throughput single-cell RNA sequencing (scRNA-seq) technology. Here, we generated both scRNA-seq and bulk RNA-seq data from the BY-2 cells and found that the enzymatic hydrolysis during protoplasting was the major factor contributing to cell clustering noise. more...

Organism:

Nicotiana tabacum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29390

8 Samples

Download data: CSV, TXT

(Submitter supplied) Purpose: Investigate genes associated with Phn7.1, a major QTL influencing partial resistance to the soil-borne pathogen Phytophthora nicotianae in tobacco. Methods: Resistant and susceptible tobacco near isogenic lines with and without Phn7.1 QTL were subjected to the inoculation with Phytophthora nicotianae suspension and suspension buffer without pathogen as control followed by sample collection at 42 hour past inoculation for RNA-seq analysis. more...

Organism:

Nicotiana tabacum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25653

14 Samples

Download data: TXT