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

ABSTRACT: 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

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE48309 | GEO | 2013/08/07

SECONDARY ACCESSION(S): PRJNA209644

REPOSITORIES: GEO

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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

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

Project description:This SuperSeries is composed of the SubSeries listed below.

2014-08-25 | GSE40307 | GEO

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 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

sRNAseq of Magnaporthe oryzae - Brachypodium distachyon pathosystems

Project description:Concomitant sRNA and mRNAseq was carried out to elucidate the reprogramming occurring during Magnaporthe oryzae - Brachypodium distachyon interaction in three different setups: biotrophic stage of leaf infection (Leaf 2 DPI), necrotrophic stage of leaf infection (Leaf 4 DPI) and finally root infection (Root).

2021-01-17 | E-MTAB-9984 | biostudies-arrayexpress

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