Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription profiling of Arabdiopsis wild type and G'4-3 seeds grown with different nitrate concentrations to investigate effects on seed dormancy

ABSTRACT: Freshly harvested Arabidopsis seeds (ecotype Col0 obtained under 10 mM nitrate nutrition, referred to as C10 seeds) are dormant and do not germinate when sown on an agarose-based medium. However, when C10 seeds are sown on 10mM nitrate or when Col0 mother plants are grown on 50 mM nitrate (referred to as C50 seeds), the produced seeds are non dormant and germinate readily on agarose. The G4-3 arabidopsis mutant which is impaired in nitrate assimilation and accumulates nitrate produces likewise non dormant seeds when grown on 10mM nitrate (referred to as G4-3 seeds). The goals of these experiments are to better understand the effects of nitrate feeding of mother plants on the produced seed dormancy.

INSTRUMENT(S): Axon GenePix 4000A scanning hardware

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Olivier Pichon

PROVIDER: E-MEXP-447 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

The Arabidopsis abscisic acid catabolic gene CYP707A2 plays a key role in nitrate control of seed dormancy.

Matakiadis Theodoros T Alboresi Alessandro A Jikumaru Yusuke Y Tatematsu Kiyoshi K Pichon Olivier O Renou Jean-Pierre JP Kamiya Yuji Y Nambara Eiji E Truong Hoai-Nam HN

Plant physiology 20081212 2

Nitrate releases seed dormancy in Arabidopsis (Arabidopsis thaliana) Columbia accession seeds in part by reducing abscisic acid (ABA) levels. Nitrate led to lower levels of ABA in imbibed seeds when included in the germination medium (exogenous nitrate). Nitrate also reduced ABA levels in dry seeds when provided to the mother plant during seed development (endogenous nitrate). Transcript profiling of imbibed seeds treated with or without nitrate revealed that exogenous nitrate led to a higher ex ...[more]

PMID: 19074630

Similar Datasets

arcole / pgpr-Nitrogenous nutrition efficiency of canola in spring : identification of targets for plant breeding

Project description:pc_arcole - arcole / pgpr - What are the genes implicated in the efficiency of nitrogenous nutrition when A.thaliana is inoculated with a PGPR (Plant Growth Promoting Rhizobacteria)? - A.thaliana seeds germinated and grew during ten days until they were transfered in 6 different media: 0,5 mM nitrate with PGPR (Plant Growth Promoting Rhizobacteria), 0,5mM nitrate without PGPR, 2mM nitrate with PGPR, 2mM nitrate without PGPR, 20 mM nitrate with PGPR, 20 mM nitrate without PGPR. Young plantlets grew 7 days in these new mediums. Shoots are collected in eppendorf. 6 dye-swap - dose response,organ comparison,treated vs untreated comparison

2012-05-31 | E-GEOD-36730 | biostudies-arrayexpress

transcriptome and translatome of arabidopsis wt seeds according to dormancy-transcriptomic and translatomic analysis of Arabidopsis seeds

Project description:au13-12_polysome - transcriptome and translatome of arabidopsis wt seeds according to dormancy - Identification of transcripts that are differentially abundant (transcriptome) and transcripts that are addressed to translation (translatome) in imbibed Arabidopsis seeds in relation with dormancy. During imbibition of seeds (16h and 24h in darkness at 25Â°C, dormant and non-dormant seeds), transcriptome analysis is done on total RNA and translatome analysis on polysomal RNA. - At harvest seeds are dormant. They stay dormant if they are stored at -20Â°C (D) and become non-dormant (ND) if they are stored 3 weeks at +20Â°C. Arabidopsis dormant seeds do not germinate at 25Â°C in darkness while non-dormant seeds do. Total RNA and polysomal RNA (polysomal fractions purified on sucrose gradients) were extracted from imbibed seeds for 16h or 24h at 25Â°C in darkness (3 biological replicates). Transcriptome and translatome are compared for Dormant vs Non-Dormant for 16h and 24 imbibition. In silico comparison will allow to compare transcriptome and translatome for each point and type of seeds and to compare the time points (16 vs 24h) for each type of sample. 12 dye-swap - time course

2014-09-27 | E-GEOD-61809 | biostudies-arrayexpress

nitrate induction - nlp mutants-Nitrate induction - nlp mutants

Project description:bra-inra09-02_bioen_nitrogen - nitrate induction - nlp mutants - Short term nitrate induction kinetics in wildtype, nlp7-1, nlp7-3 and nlp6nlp7 - 10 days old seedling grown in liquid culture on 3mM nitrate wer starvec for N for 3 days and the kinetic for the resupply of nitrate was studied during a short kinetic (0,5, 10,20 minutes). 26 dye-swap - gene knock out,time course

2012-12-01 | E-GEOD-39261 | biostudies-arrayexpress

Nitrate control of Arabidopsis seed dormancy

Project description:Freshly harvested Arabidopsis seeds (ecotype Col0 obtained under 10 mM nitrate nutrition, referred to as C10) are dormant and do not germinate when sown on an agarose-based medium. This experiment was performed to analyze the genes that are differentially expressed in freshly harvested C10 seeds sown on agarose (dormant) versus freshly harvested C10 dry seeds (dormant) to analyze differential expression of genes during the first 6 hrs of imbibition of dormant seeds. Reference: Alboresi et al. Plant Cell Environ (2005) 28 : 500-512 - 16 DAP siliques were harvested from Col 0 plants grown on 10 or 50 mM nitrate or from G4 3 mutant grown on 10 mM nitrate in growth chambers. Keywords: treated vs untreated comparison

2007-05-31 | GSE7934 | GEO

Nitrate Stress in Desulfovibrio vulgaris Hildenborough (Fur knockout : JW707)

Project description:Using data from microarray experiments, we investigated the effects of excess sodium nitrate on D. vulgaris. Keywords: stress response, time course Comparison of cells treated with 105 mM sodium nitrate to untreated cells at times of 0, 30, 60, 120, and 240 min.

2011-02-01 | E-GEOD-20092 | biostudies-arrayexpress

RNA-Seq of seed dormancy in red rice

Project description:Red rice fully dormant seeds do not germinate even under favourable germination conditions. In several species, including rice, seed dormancy can be removed by dry-afterripening (warm storage); thus, dormant and nondormant seeds can be compared for the same genotype. A weedy (red) rice genotype with strong dormancy was used for mRNA expression profiling, by RNA-Seq, of dormant and nondormant dehulled caryopses (here addressed as seeds) at two temperatures (30 °C and 10 °C) and two durations of incubation in water (8 hours and 8 days). Aim of the study was to highlight the differences in the transcriptome of dormant and nondormant imbibed seeds.

2018-05-10 | E-MTAB-6740 | biostudies-arrayexpress

Transcription profiling of Arabidopsis wild type and PII deficient plants grown on different nitrogen sources

Project description:In E.Coli, PII protein is known to be a sensor of medium nitrogen status and to regulate some nitrogen metabolism steps (e.g.glutamin synthase and ammonium transporter regulations). Arabidopsis PII protein is the only homolog gene found in the arabidopsis genome and its role is still unclear. The goal of this sudy is to obtain transcriptional information from PII mutants grown on different nitrogen sources. Wild type and PII mutant were grown hydroponically in a growth chamber under 1mM nitrate for 5 weeks then they were submitted to N-deficiency for 5 days followed by a resupply of 1 mM or 5mM NH4. The rosette leaves of three plants were harvested and pooled for each genotype and treatment.

2007-01-13 | E-MEXP-446 | biostudies-arrayexpress

Nitrate Stress in Desulfovibrio vulgaris Hildenborough

Project description:Using data from microarray experiments, we investigated the effects of excess sodium nitrate on Desulfovibrio vulgaris. Keywords: stress response, time course Comparison of cells treated with 105 mM sodium nitrate to untreated cells at times of 0, 30, 60, 120, and 240 min.

2010-06-22 | E-GEOD-20079 | biostudies-arrayexpress

affy_dormance_totalrna_sunflower-Molecular mechanisms of seed dormancy release: transcriptome evolution and ROS signalling during sunflower seed after-ripening.

Project description:affy_dormance_sunflower - affy_dormance_totalrna_sunflower - We focus our research on the release of embryonic dormancy in sunflower seeds and more precisely on the molecular mechanisms controlling seed dormancy release during dry after-ripening. Our data show an increase of ROS during dormancy release associated with an increase of stored mRNA oxidation during after-ripening as shown with determination of the RNA oxidation marker : 8-hydroxyguanosine (8OHG) To assess to role of mRNA oxidation in this process, we isolated 8OHG-containing mRNA to identify oxidized transcript using microarray analysis.-The samples compared are the following: 1) Population of 50 embryonic axis from dry dormant seed (D) ie. Seed which have been frozen at -30°C after harvest to keep dormancy 2) Population of 50 embryonic axis from dry non dormant ie. Seeds which have been after-ripened (stored) at 70% RH during 2 month. 3) Embryonic axis from dry dormant seed but after ripened at very low relative humidity (2% RH) (control of storage: S). Replicates correspond to different batches of seeds from the same harvest which have been treated (after ripened) independently. - We want to compare D vs ND; D vs S and ND vs S. 6 arrays - SUNFLOWER; dormant vs non dormant seed embryo

2011-07-19 | E-GEOD-23046 | biostudies-arrayexpress

Transcription profiling of wild type and atNRT2.7 genotype Arabidopsis leaves and roots grown in high or low nitrate conditions

Project description:Does the NRT2.7 participate to the HATS?<br> We would like to understand the function of the AtNRT2.7 in nitrate transport under limiting and non limiting nitrate conditions.<br> Plants were harvested after 32 days for plants under high nitrogen nutrition and 42 days for low nitrogen nutrition. Plants were grown hydroponic condition (short day, 170 uE).

2007-07-01 | E-MEXP-801 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

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