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Next Generation Sequencing of Wild Type (Col-0) , fio1-1 and fio1-2 Transcriptomes in Arabidopsis thaliana

ABSTRACT: Plants were grown on 1/2 MS for 14 days under LD conditions and RNA was extracted and sequenced

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE171926 | GEO | 2022/08/24

REPOSITORIES: GEO

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Next Generation Sequencing of Wild Type (Col-0), fio1-1 and fio1-2 methylated RNA immunoprecipitation sequencing in Arabidopsis thaliana

Project description:Plants were grown on 1/2 MS for 14 days under LD conditions and RNA was extracted and sequenced

2022-08-24 | GSE171924 | GEO

Next Generation Sequencing of Wild Type (Col-0) , LNJ overexpressor and jazD Transcriptomes in Arabidopsis thaliana

Project description:Plants were grown for 21 days under LD conditions and RNA was extracted and sequenced

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Bisulfte sequnencing of Wild Type (Col-0), and miP1aOX in Arabidopsis thaliana

Project description:Plants were grown on 1/2 MS for 12 days under LD conditions and DNA was extracted and sequenced

2021-04-24 | GSE173190 | GEO

Next Generation Sequencing of miP1aOX and sum20.1 in Arabidopsis thaliana

Project description:Plants were grown on 1/2 MS for 12 days under LD conditions and DNA was extracted and sequenced

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Mapping QTLs for 15 morpho-metric traits in <i>Arabidopsis thaliana</i> using Col-0 × Don-0 population.

Project description:Genome wide quantitative trait loci (QTL) mapping was conducted in Arabidopsis thaliana using F2 mapping population (Col-0 × Don-0) and SNPs markers. A total of five linkage groups were obtained with number of SNPs varying from 45 to 59 per linkage group. The composite interval mapping detected a total of 36 QTLs for 15 traits and the number of QTLs ranged from one (root length, root dry biomass, cauline leaf width, number of internodes and internode distance) to seven (for bolting days). The range of phenotypic variance explained (PVE) and logarithm of the odds ratio of these 36 QTLs was found be 0.19-38.17% and 3.0-6.26 respectively. Further, the epistatic interaction detected one main effect QTL and four epistatic QTLs. Five major QTLs viz. Qbd.nbri.4.3, Qfd.nbri.4.2, Qrdm.nbri.5.1, Qncl.nbri.2.2, Qtd.nbri.4.1 with PVE > 15.0% might be useful for fine mapping to identify genes associated with respective traits, and also for development of specialized population through marker assisted selection. The identification of additive and dominant effect QTLs and desirable alleles of each of above mentioned traits would also be important for future research.

| S-EPMC7196571 | biostudies-literature

Artificial Autopolyploidization Modifies the Tricarboxylic Acid Cycle and GABA Shunt in Arabidopsis thaliana Col-0.

Project description:Autopolyploidy is a process whereby the chromosome set is multiplied and it is a common phenomenon in angiosperms. Autopolyploidy is thought to be an important evolutionary force that has led to the formation of new plant species. Despite its relevance, the consequences of autopolyploidy in plant metabolism are poorly understood. This study compares the metabolic profiles of natural diploids and artificial autotetraploids of Arabidopsis thaliana Col-0. Different physiological parameters are compared between diploids and autotetraploids using nuclear magnetic resonance (NMR), elemental analysis (carbon:nitrogen balance) and quantitative real-time PCR (qRT-PCR). The main difference between diploid and autotetraploid A. thaliana Col-0 is observed in the concentration of metabolites related to the tricarboxylic acid cycle (TCA) and ?-amino butyric acid (GABA) shunt, as shown by multivariate statistical analysis of NMR spectra. qRT-PCR shows that genes related to the TCA and GABA shunt are also differentially expressed between diploids and autotetraploids following similar trends as their corresponding metabolites. Solid evidence is presented to demonstrate that autopolyploidy influences core plant metabolic processes.

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RNA sequencing of progenies of Col-0 grafted on msh1; Col-0 grafted on dcl2,3,4,msh1 quadruple mutant in Arabidopsis [msh1_graft_root_RNA-seq]

Project description:Col-0 floral stem was grafted on the msh1 mutant (Col-0/msh1) and on the dcl2,3,4,msh1 quadruple mutant (Col-0/dcl2,3,4,msh1). Seeds were collected from the grafted Col-0 scion after grafts were established. Seed coming from the graft then were grown on 0.5M MS growth medium and root tissue was collected after 12 days and used for the RNA sequencing.

2020-09-20 | GSE152566 | GEO

Diurnal gene expression in Arabidopsis thaliana Col-0 rosette leaves

Project description:How do the transcript levels of leaf-expressed genes change in a normal day-night cycle? The interest is in genes that are regulated by the circadian clock and the diurnal component (i.e. light, metabolite changes). Plants were grown on soil in a 12/12 h light/dark rythm at 20°C day and night. 5 weeks after germination the rosettes of the non-flowering plants were harvested, 15 plants per sample. Plants were harvested at 6 timepoints every 4 hours beginning with the end of the night (still in darkness). Keywords: repeat

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Comparison of SND2-overexpressing and wild type Arabidopsis thaliana Col-0 inflorescence stems

Project description:Homozygous T4 SND2-overexpressing Arabidopsis plants were grown alongside the wild type and the lower 100 mm of primary inflorescence stems sampled at 4 and 8 weeks of age

2011-11-30 | GSE29693 | GEO

Arabidopsis thaliana strain:Col-0 Epigenomics

Project description:Cytosine DNA methylation (mC) is a genome modification that can regulate the expression of coding and non-coding genetic elements. However, little is known about the involvement of mC in response to environmental cues. We performed whole genome bisulfite sequencing to assess the spatio-temporal dynamics of mC in Arabidopsis grown under phosphate starvation.

2015-05-02 | E-MTAB-4211 | biostudies-arrayexpress

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