Arabidopsis thaliana
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA248108 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:The goal of this project is to compare the primary metabolite profile in different tissue types of the model plant Arabidopsis thaliana. Specifically, plants were grown hydroponically under the long-day (16hr light/day) condition at 21C. Tissue samples, including leaves, inflorescences, and roots were harvest 4 1/2 weeks post sowing. Untargeted primary metabolites profiling was carried out using GCTOF.
2021-12-09 | ST002012 | MetabolomicsWorkbench
Project description:Waters Raw data can be downloaded for shoot- and root parts of Arabidopsis thaliana accessions.
2018-11-14 | ST001096 | MetabolomicsWorkbench
Project description:The growth of plant organs is driven by cell division and subsequent cell expansion. The transition from proliferation into expansion is critical for the final organ size and, consequently plant yield. Exit from proliferation and onset of expansion is accompanied by major metabolic reprogramming, and in leaves with the establishment of photosynthesis. To learn more about the molecular mechanisms underlying the developmental and metabolic transitions important for plant growth, we used untargeted proteomics and metabolomics analyses to profile young leaves of a model plant Arabidopsis thaliana representing proliferation, transition, and expansion stages. The third true leaves of the in vitro grown Arabidopsis seedlings were harvested daily from day 8 to day 13 after stratification (8 to 13 DAS). Days 8 and 9 correspond to proliferation, days 12 and 13 to expansion and days 10 and 11 to the transition. The dataset presented represents a unique resource comprising approximately 4000 proteins and 300 annotated small-molecular compounds measured across six consecutive days of leaf growth. These can now be mined for novel developmental and metabolic regulators of plant growth and can act as a blueprint for future studies aimed at better defining the interface of development and metabolism in any other species.
2021-09-09 | PXD019545 | Pride
Project description:The aim of this study was to analyze the impact of autotetraploidy on gene expression in Arabidopsis thaliana by comparing diploid versus tetraploid transcriptomes. In particular, this included the comparison of the transcriptome of different tetraploid A. thaliana ecotypes (Col-0 vs. Ler-0). The study was extended to address further aspects. One was the comparison of the transcriptomes in subsequent generations. This intended to obtain information on the genome wide stability of autotetraploid gene expression. Another line of work compared the transcriptomes of different diploid vs. tetraploid tissues. This aimed to investigate whether particular gene groups are specifically affected during the development of A. thaliana autotetraploids. Samples 1-8: Arabidopsis thaliana Col-0 tetraploid transcriptome. Transcriptional profiling and comparison of diploid vs. tetraploid Col-0 seedlings. The experiment was carried out with pedigree of independently generated and assessed tetraploid Col-0 lines. Samples 9-12: Arabidopsis thaliana Ler-0 tetraploid transcriptome. Transcriptional profiling and comparison of diploid vs. tetraploid Ler-0 seedlings. The experiment was carried out with pedigree of independently generated and assessed tetraploid Ler-0 lines. Samples 13-24: Arabidopsis thaliana Col-0 tetraploid transcriptome. Transcriptional profiling and comparison of diploid vs. tetraploid Col-0 leaves (6th - 8th). The experiment was carried out with pedigree of independently generated and assessed tetraploid Col-0 lines. Samples 25-32: Arabidopsis thaliana Ler-0 tetraploid transcriptome. Transcriptional profiling and comparison of diploid vs. tetraploid Ler-0 leaves (6th - 8th). The experiment was carried out with pedigree of independently generated and assessed tetraploid Ler-0 lines. Samples 33-36: Arabidopsis thaliana Ler-0 tetraploid transcriptome. Transcriptional profiling and comparison of tetraploid vs. tetraploid Ler-0 seedlings from the second (F2) and third (F3) generation after induction, respectively. The experiment was carried out with pedigree of independently generated and assessed tetraploid Ler-0 lines. Samples 37-40: Arabidopsis thaliana Col-0 tetraploid transcriptome. Transcriptional profiling and comparison of tetraploid vs. tetraploid Col-0 seedlings from the second (F2) and third (F3) generation after induction, respectively. The experiment was carried out with pedigree of independently generated and assessed tetraploid Col-0 lines. Samples 41-44: Arabidopsis thaliana Col-0/Ler-0 diploid transcriptome. Transcriptional profiling and comparison of diploid Col-0 vs. diploid Ler-0 seedlings. The experiment was carried out with pedigree of esrablished lines. Samples 45-48: Arabidopsis thaliana Col-0/Ler-0 tetraploid transcriptome. Transcriptional profiling and comparison of tetraploid Col-0 vs tetraploid Ler-0 seedlings. The experiment was carried out with pedigree of independently generated and assessed tetraploid Col-0 and Ler-0 lines.
2010-05-01 | GSE18482 | GEO
Project description:Arabidopsis thaliana is a well-established model system for the analysis of the basic physiological and metabolic pathways of plants. The presented model is a new semi-quantitative mathematical model of the metabolism of Arabidopsis thaliana. The Petri net formalism was used to express the complex reaction system in a mathematically unique manner. To verify the model for correctness and consistency concepts of network decomposition and network reduction such as transition invariants, common transition pairs, and invariant transition pairs were applied. Based on recent knowledge from literature, including the Calvin cycle, glycolysis and citric acid cycle, glyoxylate cycle, urea cycle, sucrose synthesis, and the starch metabolism, the core metabolism of Arabidopsis thaliana was formulated. Each reaction (transition) is experimentally proven. The complete Petri net model consists of 134 metabolites, represented by places, and 243 reactions, represented by transitions. Places and transitions are connected via 572 edges.
2020-04-09 | MODEL1801090001 | BioModels
Project description:Plants have developed a complicated resistance system, and they exhibit various defense patterns in response to different attackers. However, the determine factors of plant defense patterns are still not clear. Here, we hypothesized that damage patterns of plant attackers play an important role in determining the plant defense patterns. To test this hypothesis, we selected leafminer, which has a special feeding pattern more similar to pathogen damage than chewing insects, as our model insect, and Arabidopsis thaliana as the response plants. The local and systemic responses of Arabidopsis thaliana to leafminer feeding were investigated using the Affymetrix ATH1 genome array. Damaged leaves of Arabidopsis thaliana for local damage analysis and the intact leaves on the same plant for systemic damage analysis were separately frozen by liquid nitrogen. Then, we used an Affymetrix ATH1 Arabidopsis microarray to study the expression changes pattern of Arabidopsis thaliana to pea leafminers damage, both locally (LI) and systemically (SI). We downloaded data from the web database and used hierarchical clustering to explore the relationships of Arabidopsis thaliana expression pattern to different kinds of attackers.
2014-05-26 | E-GEOD-38281 | biostudies-arrayexpress
Project description:We here present an investigation of the Arabidopsis thaliana energy metabolism taking place in the chloroplasts. Thylakoids were purified from Arabidopsis thaliana leaves and membrane bound protein complexes characterized by Blue native polyacrylamide gel electrophoresis as well as by the complexome profiling approach. Proteins were systematically identified by label-free quantitative shotgun proteomics.
2022-08-18 | PXD035871 | Pride
Project description:Light is the most important cue for plant metabolism since its presence enables photosynthesis. Mitochondria respond to light conditions by adjusting flow through the citric acid cycle and the respiratory chain to support photosynthesis in the light and provide the cell with ATP in the light and in the dark. The data presented here serve in identifying changes in protein:protein interactions (PPIs) of Arabidopsis thaliana leaf mitochondria in response to illumination and pave the way towards an understanding how PPIs affect and regulate mitochondrial metabolism.
2021-05-17 | PXD019253 | Pride
Project description:Brevicompanines are natural products isolated from the culture filtrate of the fungus Penicillium brevicompactum. They showed plant growth regulating properties in several species including lettuce, rice or Arabidopsis thaliana. We used microarrays to gather information about the reprogramming of gene transcription when Arabidopsis leaves were treated with Brevicompanine C (BrvC) that showed significant activity in plant growth assays.
2016-11-22 | GSE90096 | GEO