Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

17 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptomic response of tomato (Solanum lycopersicum) plants to ammonium toxicity at elevated CO2 conditions

ABSTRACT: This work aims to study the effect of the elevated CO2 concentration on the tomato plant response to the toxicity provoked by ammonium nutrition. Tomato plants (Solanum lycopersicum L. cv. Agora Hybrid F1, VilmorinÂ®) were grown for 4 week with 15 mM of nitrogen, supplied as nitrate or ammonium, at ambient or elevated CO2 conditions (400 ppm or 800 ppm). Transcription profiling by array was carried out in roots for the four growth conditions assayed and gene expression comparisons were done between N sources and CO2 conditions: i) genes differentially expressed in response to the atmospheric CO2 concentration (800 ppm vs 400 ppm CO2) under nitrate or ammonium nutrition; ii) genes differentially expressed in response to the N source (ammonium vs nitrate) under ambient or elevated condition. 3 biological replicates for each growth condition were analysed.CO2).

ORGANISM(S): Solanum lycopersicum

SUBMITTER: Izargi Vega-Mas

PROVIDER: E-MTAB-5558 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Interaction between CO2 levels and nitrogen nutrition in Pinus pinaster

Project description:The main objective of the present work is the transcriptomic analysis of the interaction between nitrogen nutrition and CO2 levels in maritime pine. For this purpose, seedlings were fertilized with nitrate or ammonium and grown in two different CO2 levels: normal (400 ppm) and high (720ppm).

2022-04-03 | GSE199908 | GEO

Root-shoot mineral transport as a key target processes involved in Arabidopsis responsiveness to elevated [CO2] conditions

Project description:In this study we explain the physiological, biochemical and gene expression mechanisms adopted by nitrate-fed Arabidopsis thaliana plants growing under elevated [CO2], highlighting the importance of root-to-shoot interactions in these responses The transcriptomic approach (conducted at the root and shoot level) revealed that exposure to 800 ppm [CO2] conditioned the expression of genes involved in the transport of nitrate and mineral elements.

2017-01-01 | GSE64694 | GEO

Comparison of root transcriptomes in Arabidopsis thaliana plants supplied with different forms of inorganic nitrogen

Project description:Plants aquire nitrogen from the soil, most commonly in the form of either nitrate or ammonium. Unlike ammonium, nitrate must be reduced (with NADH and ferredoxin as electron donors) prior to assimilation. Thus, nitrate nutrition imposes a substantially greater energetic cost than ammonium nutrition. Our goal was to compare the transcriptomes of nitrate-supplied and ammonium-supplied plants, with a particular interest in characterizing the differences in redox metabolism elicited by different forms of inorganic nitrogen. We used microarrays to compare the short-term transcriptional response to either nitrogen supply or ammonium supply in Arabidopsis roots. Genes upregulated or downregulated by nitrate only, ammonium only, or both ammonium and nitrate were identified and analyzed. Arabidopsis thaliana (Col-0) plants were grown hydroponically until they reached growth stage 5.10. They were then transferred to a nitrogen-free medium for 26 hr and then supplied with 1 mM nitrate or 1 mM ammonium. RNA isolation (and subsequent microarray analysis) was performed on root tissue isolated just before nitrogen supply (time 0) and at 1.5 hr and 8 hr after nitrogen supply (1.5 hr nitrate, 8 hr nitrate, 1.5 hr ammonium, 8 hr ammonium).

2011-05-28 | E-GEOD-29589 | biostudies-arrayexpress

Developmental stage specificity of transcriptional, biochemical and CO2 efflux responses of leaf dark respiration to growth of Arabidopsis thaliana at elevated [CO2]

Project description:Plant respiration responses to elevated growth [CO2] are key uncertainties in predicting future crop and ecosystem function. In particular, the effects of elevated growth [CO2] on respiration over leaf development are poorly understood. This study tested the prediction that, due to greater whole-plant photoassimilate availability and growth, elevated [CO2] induces transcriptional reprogramming and a stimulation of nighttime respiration in leaf primordia, expanding leaves, and mature leaves of Arabidopsis thaliana. In primordia, elevated [CO2] altered transcript abundance, but not for genes encoding respiratory proteins. In expanding leaves, elevated [CO2] induced greater glucose content and transcript abundance for some respiratory genes, but did not alter respiratory CO2 efflux. In mature leaves, elevated [CO2] led to greater glucose, sucrose and starch content, plus greater transcript abundance for many components of the respiratory pathway, and greater respiratory CO2 efflux. Therefore, growth at elevated [CO2] stimulated dark respiration only after leaves transitioned from carbon sinks into carbon sources. This coincided with greater photoassimilate production by mature leaves under elevated [CO2] and peak respiratory transcriptional responses. It remains to be determined if biochemical and transcriptional responses to elevated [CO2] in primordial and expanding leaves are essential prerequisites for subsequent alterations of respiratory metabolism in mature leaves. Arabidopsis plants were grown in either ambient (370 ppm) or elevated (750 ppm) CO2. Leaf number 10 was harvested when it was a primordia, expanding, or mature in each of the CO2 treatments.

2014-04-04 | E-GEOD-56480 | biostudies-arrayexpress

Comparison of root transcriptomes in Arabidopsis thaliana plants supplied with different forms of inorganic nitrogen

2011-05-28 | GSE29589 | GEO

Expression data from leaf of (P. tomentosa x P. bolleana) x P. tomentosa under elevated CO2 concentrations

Project description:The atmosphere CO2 concentration keeps increasing every year. Use the Affymetrix poplar gene chip to confirm the expression changes in key genes in the triploid white poplar due to the influence of elevated CO2 concentrations. We used microarrays to detail the global programme of gene expression under normal and elevated CO2 concentrations. Gene expression of triploid white poplar ((P. tomentosa Ã? P. bolleanaï¼?Ã? P. tomentosa) leaves were investigated by using the Affymetrix poplar genome gene chip, after grown in controlled environment chambers under three different CO2 concentrations. Poplar leaves were subjected to normal CO2 concentrations (T0) and elevated CO2 concentrations (T1, 550 ppm and T2, 720 ppm) treatments three months.

2014-05-24 | E-GEOD-55216 | biostudies-arrayexpress

Transgenic GS1a poplar under different nitrate nutrition level.

Project description:Transcriptional profile of leaves from poplar plants transformed with a pine GS1a gene under two different nitrate nutrition level (50mM and 10mM). Two conditions: nitrate nutrition (50mM and 10 mM) and genotype (GS1a transgenic poplar vs WT poplar)

2015-04-02 | E-GEOD-62449 | biostudies-arrayexpress

Transcriptional reprogramming and stimulation of leaf respiration by elevated CO2 concentration is diminished, but not eliminated, under limiting nitrogen supply.

Project description:Transcriptional reprogramming and stimulation of leaf respiration by elevated CO2 concentration is diminished, but not eliminated, under limiting nitrogen supply. Arabidopsis plants were grown in either ambient (370 ppm) or elevated (750 ppm) CO2 with either ample N supply or limiting N supply. Leaf tissue was harvested from youngest most fully expanded leaves 35 days after plant germination at either midday or midnight.

2013-10-15 | E-GEOD-50966 | biostudies-arrayexpress

Root and shoot performance of Arabidopsis thaliana exposed to elevated CO2: a physiologic, metabolic and transcriptomic response

Project description:In this study we explain the physiological, biochemical and gene expression mechanisms adopted by ammonium nitrate-fed Arabidopsis thaliana plants growing under elevated [CO2], highlighting the importance of root-to-shoot interactions in these responses A transcriptomic analysis enabled the identification of photoassimilate allocation and remobilization as fundamental process used by the plants to maintain the outstanding photosynthetic performance. Moreover, based on the relationship between plant carbon status and hormone functioning, the transcriptomic analyses provided an explanation of why phenology accelerates in elevated [CO2] conditions.

2017-07-01 | GSE70560 | GEO

Root and shoot performance of Arabidopsis thaliana exposed to elevated CO2: a physiologic, metabolic and transcriptomic response.

2017-01-02 | GSE64994 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data