Arabidopsis thaliana
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA377558 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR5304370_1.fastq.gz | Fastqsanger.gz | |||
| SRR5304370_2.fastq.gz | Fastqsanger.gz | |||
| SRR5304380_1.fastq.gz | Fastqsanger.gz | |||
| SRR5304380_2.fastq.gz | Fastqsanger.gz | |||
| SRR5304390_1.fastq.gz | Fastqsanger.gz |
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Project description:The wild type Col-0 plants and the Sku-6 mutant plants of the Col-0 background were germinated on ISS or on the ground and the gene expression profiles in roots at 4 days or 8 days were established. The Sku6 gene (At2g03680) codes for a protein that localizes to microtubule within the cortical array and putatively acting as an intramolecular linker. The development of Col-0 and Sku-6 plants on orbit differs from that on the ground as demonstrated by the comparison of the gene expression profiles between 4 days old to 8 days old plant in the two environments. However the development of Sku-6 mutant plants also differs from Col-0 at either age and in either environment, suggesting the role of the genetic background in these developmental decisions. The 4 days old Sku-6 roots in orbit engaged more genes than the 4 days old Col-0 roots in orbit but also more than the 4 days old Sku-6 roots on the ground. Overall the 4 days old roots differentially expressed more genes in spaceflight relative to ground than the 8 days old roots of either genotype.
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Project description:During development, the Sku5 mutant roots engage different genes than wild type WS roots, either on the ground or in spaceflight.
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Project description:The development of Col-0 and WS plants on orbit differs from that on the ground as demonstrated by the comparison of the gene expression profiles between 4 days old to 8 days old plant in the two environments. The Col-0 plants used different genes reflecting different physiological processes than WS plants, suggesting the role of the genetic background in the developmental decisions. The 4 days old Col-0 plant in orbit showed deficit in wax and suberin production relatively to the 8 days old plants, the difference unregistered on the ground. There was more dramatic difference in the overexpression of the root system development and anatomical structure development genes in 8 days old plants than in 4 days old plant in both genotypes on the ground than in flight, implying smaller root developmental gap between 4 days and 8 days old roots in orbit. The WS plant uniquely showed overexpression of the photosynthesis related genes in the 4 days old roots relative to 8 days old root in the spaceflight environment but not on the ground. The seeds germinated in the novel growth environment of ISS implemented different developmental strategies as captured by the genes expression patterns, than seeds developing on the ground.
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Project description:Microarray analysis was performed on seedling roots of wild-type Col-0 and axs1-1 axs2-1/+ mutant
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Project description:The total mRNA and polysomal RNA expression profiles of wild type (Col-0) and the quadruple spa mutant (spaQ) were analyzed under dark or in 4 hour light treated condition. The gene expression changed in spaQ mutant was analyzed and compared with Col-0.
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Project description:Experimentation on the International Space Station has reached the stage where repeated and nuanced transcriptome studies are beginning to illuminate the structural and metabolic differences between plants grown in space compared to plants on the Earth. Genes that are important in setting up the spaceflight responses are being identified; their role in spaceflight physiological adaptation are increasingly understood, and the fact that different genotypes adapt differently is recognized. However, the basic question of whether these spaceflight responses are required for survival has yet to be posed, and the fundamental notion that spaceflight responses may be non-adaptive has yet to be explored. Therefore the experiments presented here were designed to ask if portions of the plant spaceflight response can be genetically removed without causing loss of spaceflight survival and without causing increased stress responses. The CARA experiment compared the spaceflight transcriptome responses of two Arabidopsis ecotypes, Col-0 and WS, as well as that of a PhyD mutant of Col-0. When grown with the ambient light of the ISS, phyD displayed a significantly reduced spaceflight transcriptome response compared to Col-0, suggesting that altering the activity of a single gene can actually improve spaceflight adaptation by reducing the transcriptome cost of physiological adaptation. The WS genotype showed and even simpler spaceflight transcriptome response in the ambient light of the ISS, more broadly indicating that the plant genotype can be manipulated to reduce the transcriptome cost of plant physiological adaptation to spaceflight and suggesting that genetic manipulation might further reduce, or perhaps eliminate the metabolic cost of spaceflight adaptation. When plants were germinated and then left in the dark on the ISS, the WS genotype actually mounted a larger transcriptome response than Col-0, suggesting that the in-space light environment affects physiological adaptation, which further implies that manipulating the local habitat can also substantially impact the metabolic cost of spaceflight adaptation.
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Project description:Transcriptional profiling of roots in Arabidopsis Col-0 with 10 µM AlCl3 6hrs vs w/o AlCl3 6hrs
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Project description:Macrophomina phaseolina (Mp) is a soil-borne pathogenic fungus known to infect more than 500 plants species including important crops. Here we report the use of a novel agar plate-based pathosystem using the model plant Arabidopsis thaliana (Arabidopsis) to study plant defense reponses to Mp, specifically a comparison between wild type Col-0 and double mutant ein2/jar1 roots with and without Mp infection, at two time points, by RNA-seq.
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