GEO DataSets

(Submitter supplied) The degree of yellowing in tobacco leaves is an important indicator for determining the maturity and harvesting time of tobacco leaves. Reduction in chlorophyll is of utility for promoting the concentrated maturation of tobacco leaves and achieving mechanised harvesting and mining, and utilising tobacco yellow leaf regulatory genes is of great significance for the selection and breeding of tobacco varieties suitable for mechanised harvesting and the resolution of the molecular mechanisms controlling leaf colouration. more...

Organism:

Nicotiana tabacum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL34609

9 Samples

Download data: TXT

(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

30 Samples

Download data: TXT

(Submitter supplied) Here, we compile valuable insights gathered over years of generating Ribo-seq datasets from different plant species and experimental setups. We tested the effects of variable ribonuclease treatments for the generation of ribosome protected fragments (RPFs). We tested rRNA depletion strategies designed specifically for Arabidopsis and Tobacco. We also compare ligation-free to ligation-based library preparation strategies for generating Ribo-seq libraries.

Organism:

Arabidopsis thaliana; Nicotiana tabacum

Type:

Other

4 related Platforms

16 Samples

Download data: XLSX

(Submitter supplied) Small RNAs (sRNAs) are essential for normal plant development and range in size classes of 21-24 nucleotides. The 22nt small interfering RNAs (siRNAs) and miRNAs are processed by Dicer-like 2 (DCL2) and DCL1 respectively and can initiate secondary siRNA production from the target transcript amplifying the silencing signal in plants. 22nt siRNAs are under-represented due to competition with DCL4, while only a small number of 22nt miRNAs exist due to the rare occurrence of an asymmetric bulge in the precursor miRNA stem. more...

Organism:

Nicotiana tabacum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23495

9 Samples

Download data: BED

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

Organism:

Nicotiana tabacum; Arabidopsis thaliana

Type:

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

Platforms:

GPL23495 GPL26208 GPL29390

48 Samples

Download data: BED

(Submitter supplied) Small RNAs (sRNAs) are essential for normal plant development and range in size classes of 21-24 nucleotides. The 22nt small interfering RNAs (siRNAs) and miRNAs are processed by Dicer-like 2 (DCL2) and DCL1 respectively and can initiate secondary siRNA production from the target transcript amplifying the silencing signal in plants. 22nt siRNAs are under-represented due to competition with DCL4, while only a small number of 22nt miRNAs exist due to the rare occurrence of an asymmetric bulge in the precursor miRNA stem. more...

Organism:

Nicotiana tabacum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29390

19 Samples

Download data: BED

(Submitter supplied) Heterochromatic condensates (chromocenters) are critical for maintaining the silencing of heterochromatin. However, it is a riddle why the presence of chromocenters is variable across species. Here, we reveal that variations in the plant heterochromatin protein ADCP1 confer a diversity in chromocenter formation via phase separation. ADCP1 physically interacts with the high mobility group protein HMGA to form a complex and mediates heterochromatin condensation by multivalent interactions. more...

Organism:

Solanum lycopersicum; Arabidopsis thaliana; Nicotiana benthamiana; Nicotiana tabacum

Type:

Genome binding/occupancy profiling by high throughput sequencing

4 related Platforms

50 Samples

Download data: BW

(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