Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

49 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptome profiling of Arabidopsis mutants of the chlorophyll degradation PAO/Phyllobilin pathway

ABSTRACT: Detoxification of chlorophyll during leaf senescence in higher plants is a complex and tightly regulated process. It aims at opening the chlorophyll porphyrin ring to produce non-photoreactive degradation products, termed phyllobilins, which are stored in the vacuole. Here we are describing the influence on the transcriptome of dark-induced senescing leaf of the removal of three key enzymes of the PAO/phyllobilin pathway (namely: PAO, PPH and NYE/SGR).

INSTRUMENT(S): Illumina Genome Analyzer II

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Sylvain Aubry

PROVIDER: E-MTAB-6965 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

ANAC046, a NAC family transcription factor, is involved in leaf senescence by controlling the chlorophyll catabolic gene expression in Arabidopsis

Project description:Chlorophyll (Chl) degradation is an important process during leaf senescence, bud breaking and fruit ripening. Chlorophyll catabolic pathway has been intensively studied and nearly all the enzymes involved in the pathway are characterized. However, regulatory mechanism of the pathway is largely unknown at the molecular level. In this study, we performed a yeast one-hybrid screening using a library composed only of transcription factor cDNAs to search for factors controlling expression of the chlorophyll catabolic genes. We identified a common regulator, ANAC046, that directly binds to the promoter regions of NON-YELLOW COLORING 1, STAY-GREEN 1 (SGR1), SGR2, and pheophorbide a oxygenase. Transgenic plants overexpressing ANAC046 exhibited an early senescence phenotype with lower chlorophyll content as compared with the wild-type plants, while loss-of-function mutants exhibited a delayed senescence phenotype with higher chlorophyll content. Microarray analysis of ANAC046 showed that not only chlorophyll catabolic genes but also senescence-associated genes were positively regulated by ANAC046. Here, we demonstrate that ANAC046 is a novel positive regulator of Arabidopsis leaf senescence and exerts its effect through controlling the expressions of Chl catabolic genes and senescence-associated genes. Transcriptomes of leaf of ANAC046-overexpression plant (50 days after seed sawing), seedling of ANAC046-SRDX-overexpression plant (5 days after dark treatment), and seedling of ANAC046-knockout plant (5 days after dark treatment) were measured together with their respective wild-type controls.

2016-04-01 | E-GEOD-71767 | biostudies-arrayexpress

Transcription profiling of degreening transgenic Arabidopsis over time

Project description:Transgenic Arabidopsis thaliana bearing a synthetic degreening circuit were induced to degrade their chlorophyll, and the transcriptomes were profiled at 0, 24, and 48h after degreening induction, as well as in 48h plants that were subsequently allowed to "regreen". Induction of transgene expression resulted in overexpression of the chlorophyll degrading enzymes chorophyllase and PAO (pheide a oxygenase), as well as expression of a diRNA construct to the chlorophyll biosynthetic POR enzymes (NADPH:protochlorophyllide oxidoreductase).

2006-04-01 | E-MEXP-505 | biostudies-arrayexpress

Arabidopsis leaf senescence

Project description:Monitor changes in the proteome of senescing leaves, using protein MS data obtained from the same leaf groups used for imaging. Arabidopsis thaliana mature leaves were grouped according to their chlorophyll content: Dark Green (DG), Green (G), Light Green (LG) and Yellow (Y), containing 100, 45, 25 and 6.5% chlorophyll relative to DG, respectivelyArabidopsis thaliana mature leaves were grouped according to their chlorophyll content: Dark Green (DG), Green (G), Light Green (LG) and Yellow (Y), containing 100, 45, 25 and 6.5% chlorophyll relative to DG, respectively

2022-03-02 | PXD010465 | Pride

ANAC046, a NAC family transcription factor, is involved in leaf senescence by controlling the chlorophyll catabolic gene expression in Arabidopsis

2016-04-01 | GSE71767 | GEO

Chlorophyll degradation

Project description:Chlorophyll degradation by aerobic marine bacterium

| PRJEB15523 | ENA

Transcriptome profiling of Arabidopsis mutants of the chlorophyll degradation PAO/Phyllobilin pathway

Project description:Transcriptome profiling of Arabidopsis mutants of the chlorophyll degradation PAO/Phyllobilin pathway

| PRJEB27631 | ENA

Transcriptome analysis of A661 leaves

Project description:The maize inbred line A661 shows a characteristic phenotype when grown at suboptimal temperatures for three weeks and then is exposed to optimal temperatures for one extra week. After this period the third leaf showed two well defined sections: distal (chlorophyll-less; CL) and proximal (chlorophyll-containing; CC) sections. To further investigate the performance of the inbred line A661 under cold conditions a gene expression profiling analysis was conducted using large scale maize microarrays. A total of 1002 transcripts change their expression between both leaf sections and the majority of these codify for proteins located to the chloroplast. Three biological replicates of each leaf sections were analysed. The CC section was used as control.

2013-08-02 | E-GEOD-41956 | biostudies-arrayexpress

Transcriptome analysis in petals and leaves of chrysanthemums with different chlorophyll levels

Project description:To identify the regulatory steps that control chlorophyll accumulation, we compared gene expression in petals and leaves of chrysanthemum cultivars with different chlorophyll levels. Microarray analyses showed that the expression levels of chlorophyll biosynthesis genes encoding glutamyl-tRNA reductase, Mg-protoporphyrin IX chelatase, Mg-protoporphyrin IX monomethylester cyclase, and protochlorophyllorophyllide oxidoreductase were well associated with chlorophyll content: their expression levels were lower in white petals than in green petals, and were highest in leaves. Among chlorophyll catabolic genes, expression of STAY-GREEN, encoding Mg-dechelatase, which is a key enzyme controlling chlorophyll degradation, was considerably higher in white and green petals than in leaves. We searched for transcription factor genes whose expression was well related to chlorophyll level in petals and leaves and found several such genes.

2017-08-19 | GSE102752 | GEO

Suppressing the barley uroporphyrinogen gene by Ds activation tagging element generates developmental photosensitivity

Project description:Chlorophyll production involves the synthesis of photoreactive intermediates that are toxic when in excess due to the production of reactive oxygen species (ROS). A novel activation tagged barley mutant is described that results from antisense suppression of a uroporphyrinogen III synthase (Uros) gene, the product of which catalyses the sixth step in the synthesis of chlorophyll and heme. In homozygous mutant plants uroporphyrin(ogen) I accumulates by spontaneous cyclization of hydroxyl methylbilane, the substrate of Uros. Accumulation of this tetrapyrrole intermediate results in photosensitive cell death due to the production of reactive oxygen species. The efficiency of Uros gene suppression is developmentally regulated, being most effective in mature seedling leaves compared with newly emergent leaves. A comparison of RNA from mutant and wild type seedlings grown under 30% and 3% light, shows reduced transcript accumulation of a number of nuclear-encoded photosynthesis genes occurs in the mutant even under 3% light conditions. This is consistent with a retrograde plastid-nuclear signalling mechanism arising from Uros gene suppression. No evidence for a direct signalling role by uroporphyrin I was observed suggesting that nuclear gene transcriptional suppression was mediated by ROS accumulation. Two replicates samples were used for barley mutant 70a3 grown under 3% and 2 replicate sample of the mutant grown under 30% light, barley cv Golden Promise was used as the control.

2009-04-23 | E-GEOD-11776 | biostudies-arrayexpress

Side chain modifications of phyllobilins are not essential for chlorophyll degradation during dark-induced senescence in Arabidopsis

Project description:Detached leaf of mutants from Arabidopsis thaliana mutants from WTcol, TIC55, CYP89a9, MES16 and triple mutant CYP89a9 TIC55 and MES16 incubated in the dark for 3 days.

2022-07-01 | E-MTAB-11614 | 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