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Global transcriptome analysis in fast-growing Arabidopsis thaliana with elevated level of ATP

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE40307 | GEO | 2014/08/25

SECONDARY ACCESSION(S): PRJNA173484

REPOSITORIES: GEO

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Global transcriptome analysis in fast-growing Arabidopsis thaliana with elevated level of ATP

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2014-08-25 | E-GEOD-40307 | biostudies-arrayexpress

Global transcriptome analysis in fast-growing Arabidopsis thaliana with elevated level of ATP [shoots]

2014-08-25 | GSE40306 | GEO

Global transcriptome analysis in fast-growing Arabidopsis thaliana with elevated level of ATP [roots]

2014-08-25 | GSE40305 | GEO

Global transcriptome analysis in fast-growing Arabidopsis thaliana with elevated level of ATP [roots]

Project description:Higher ATP supply in AtPAP2 overexpression line is the driving force for its fast-growth phenotypes, leading to massive changes in its transcriptome and metabolome. The OE lines are previously described in Sun et al., New Phytol. 2012 Apr;194(1):206-19. 20-day-old Arabidopsis seedlings at middle of day under long day growth conditions were collected for RNA extraction and microarray analysis

2014-08-25 | E-GEOD-40305 | biostudies-arrayexpress

Global transcriptome analysis in fast-growing Arabidopsis thaliana with elevated level of ATP [shoots]

2014-08-25 | E-GEOD-40306 | biostudies-arrayexpress

Global small RNA analysis in fast-growing Arabidopsis thaliana with elevated concentrations of ATP and sugars.

Project description:BackgroundIn higher eukaryotes, small RNAs play a role in regulating gene expression. Overexpression (OE) lines of Arabidopsis thaliana purple acid phosphatase 2 (AtPAP2) were shown to grow faster and exhibit higher ATP and sugar contents. Leaf microarray studies showed that many genes involved in microRNAs (miRNAs) and trans-acting siRNAs (tasiRNAs) biogenesis were significantly changed in the fast-growing lines. In this study, the sRNA profiles of the leaf and the root of 20-day-old plants were sequenced and the impacts of high energy status on sRNA expression were analyzed.Results9-13 million reads from each library were mapped to genome. miRNAs, tasiRNAs and natural antisense transcripts-generated small interfering RNAs (natsiRNAs) were identified and compared between libraries. In the leaf of OE lines, 15 known miRNAs increased in abundance and 9 miRNAs decreased in abundance, whereas in the root of OE lines, 2 known miRNAs increased in abundance and 9 miRNAs decreased in abundance. miRNAs with increased abundance in the leaf and root samples of both OE lines (miR158b and miR172a/b) were predicted to target mRNAs coding for Dof zinc finger protein and Apetala 2 (AP2) proteins, respectively. Furthermore, a significant change in the miR173-tasiRNAs-PPR/TPR network was observed in the leaves of both OE lines.ConclusionIn this study, the impact of high energy content on the sRNA profiles of Arabidopsis is reported. While the abundance of many stress-induced miRNAs is unaltered, the abundance of some miRNAs related to plant growth and development (miR172 and miR319) is elevated in the fast-growing lines. An induction of miR173-tasiRNAs-PPR/TPR network was also observed in the OE lines. In contrast, only few cis- and trans-natsiRNAs are altered in the fast-growing lines.

| S-EPMC3925372 | biostudies-literature

Global small RNA analysis in fast-growing Arabidposis thaliana with elevated level of ATP and sugars

Project description:The sRNA profiles of the leaf and the root of 20-day-old plants were sequenced and the impacts of high energy status on sRNA expression were analyzed

2013-08-07 | GSE48309 | GEO

Global transcriptome analysis in fast-growing Arabidopsis thaliana with elevated level of ATP

Project description:Global transcriptome analysis in fast-growing Arabidopsis thaliana with elevated level of ATP

| PRJNA173484 | ENA

Global transcriptome analysis of AtPAP2--overexpressing Arabidopsis thaliana with elevated ATP.

Project description:BACKGROUND: AtPAP2 is a purple acid phosphatase that is targeted to both chloroplasts and mitochondria. Over-expression (OE) lines of AtPAP2 grew faster, produced more seeds, and contained higher leaf sucrose and glucose contents. The present study aimed to determine how high energy status affects leaf and root transcriptomes. RESULTS: ATP and ADP levels in the OE lines are 30-50% and 20-50% higher than in the wild-type (WT) plants. Global transcriptome analyses indicated that transcriptional regulation does play a role in sucrose and starch metabolism, nitrogen, potassium and iron uptake, amino acids and secondary metabolites metabolism when there is an ample supply of energy. While the transcript abundance of genes encoding protein components of photosystem I (PS I), photosystem II (PS II) and light harvesting complex I (LHCI) were unaltered, changes in transcript abundance for genes encoding proteins of LHCII are significant. The gene expressions of most enzymes of the Calvin cycle, glycolysis and the tricarboxylic acid (TCA) cycle were unaltered, as these enzymes are known to be regulated by light/redox status or allosteric modulation by the products (e.g. citrate, ATP/ADP ratio), but not at the level of transcription. CONCLUSIONS: AtPAP2 overexpression resulted in a widespread reprogramming of the transcriptome in the transgenic plants, which is characterized by changes in the carbon, nitrogen, potassium, and iron metabolism. The fast-growing AtPAP2 OE lines provide an interesting tool for studying the regulation of energy system in plant.

| S-EPMC3829102 | biostudies-literature

Global small RNA analysis in fast-growing Arabidposis thaliana with elevated level of ATP and sugars

Project description:The sRNA profiles of the leaf and the root of 20-day-old plants were sequenced and the impacts of high energy status on sRNA expression were analyzed 8 samples consisting of wild type, overexpressed line 7 and 21, and AtPAP2-mutant.

2013-08-07 | E-GEOD-48309 | biostudies-arrayexpress

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