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ShareScore release 0.9.0
Dataset results
56 results for “plant physiology”
Differential gene expression and physiological changes during acute or persistent plant virus interactions may contribute to viral symptom differences (RNA-Seq)
GEO Series GSE113773. Solanum lycopersicum. 12 samples. Type: Expression profiling by high throughput sequencing.
Transcriptome and physiological analysis of class III peroxidase family in ice plant seedlings in response to salt-induced oxidative stress
GEO Series GSE277109. Mesembryanthemum crystallinum. 2 samples. Type: Expression profiling by high throughput sequencing.
Physiological stressors and invasive plant infections alter the small RNA transcriptome of the rice blast fungus, Magnaporthe oryzae
GEO Series GSE43277. Oryza sativa; Pyricularia oryzae. 8 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Differential gene expression and physiological changes during acute or persistent plant virus interactions may contribute to viral symptom differences (microarray)
GEO Series GSE113772. Nicotiana benthamiana; Nicotiana tabacum. 12 samples. Type: Expression profiling by array.
Transcriptome profile for roots of the rice plants which showed favorable morpho-physiological adaptation when subjected to severe drought stress
GEO Series GSE78504. Oryza sativa. 23 samples. Type: Expression profiling by array.
Why some rainbow trout genotypes grow better with a complete plant-based diet? A transcriptomic and physiological analyses on three isogenic lines
GEO Series GSE179672. Oncorhynchus mykiss. 55 samples. Type: Expression profiling by array.
Arg1 functions in the physiological adaptation of undifferentiated plant cells to spaceflight
GEO Series GSE81442. Arabidopsis thaliana. 18 samples. Type: Expression profiling by array.
HSFA2 functions in the physiological adaptation of undifferentiated plant cells to spaceflight microgravity environment.
GEO Series GSE95388. Arabidopsis thaliana. 16 samples. Type: Expression profiling by array.
HSFA2 functions in the physiological adaptation of undifferentiated plant cells to spaceflight microgravity environment
The Heat Shock Factor A2 (HsfA2), as a part of the HSF network, is essential to the plant's response to almost any environmental stress and to the cellular homeostatic control mechanisms. Plant cell cultures disabled in HsfA2 function were grown aboard the International Space Station (ISS) in order to ascertain whether or not they use the same terrestrially effective systems to adapt to the novel environment of spaceflight. Cultured lines of Arabidopsis thaliana derived from wild type (WT) cultivar Col-0 and from a knock-out line deficient in the gene encoding HSFA2 (HSFA2 KO) were launched to the ISS on SpaceX-2 as part of the Cellular Expression Logic (CEL) experiment of the BRIC17 spaceflight mission and were fixed in-flight after 10 days on orbit. Microarray gene expression data were analyzed using a two-part comparative approach. First, differentially expressed genes were identified between the environments (spaceflight to ground) within cells of the same genotype, which represented physiological adaptation to the spaceflight environment. Second, gene expression profiles were identified between the genotypes (HSFA2 KO to WT) within the same environment, defining genes uniquely required by the two genotypes in the ground and spaceflight adapted states. The physiological state of the cells as a result of disabling a gene has tremendous control over the mechanisms induced to adapt to the environment of spaceflight. The HsfA2 demonstrated a role in the physiological adaptation to the spaceflight environment since the cells disabled in the HsfA2 gene used substantially different genes to achieve the spaceflight adapted state than the WT cells. The endoplasmic reticulum (ER) stress and unfolded protein response (UPR) define the HSFA2 KO cells' physiological state regardless of the environment and likely result from the deficiency in the chaperone-mediated protein folding machinery. HsfA2 seems to have a universal stress response role but also specific roles in the physiological adaptation to spaceflight through cell wall remodeling, signal perception and transduction and starch biosynthesis. Implementation of knock-out cells identified a set of genes with a required expression level in order for a cell to achieve a spaceflight-adapted state. The HSFA2 KO cells helped to unravel the HsfA2-dependent genes of the adaption of wild type cells to the environment of spaceflight.
Genetic dissection of the Arabidopsis spaceflight transcriptome: Are some responses dispensable for the physiological adaptation of plants to spaceflight?
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 establishing the spaceflight responses are being identified, their roles 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 actually 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 in the root tips 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 plants 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 an 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 cost of spaceflight adaptation, as measured by transcriptional response. These differential genotypic responses suggest that genetic manipulation could 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 implies that manipulating the local habitat can also substantially impact the metabolic cost of spaceflight adaptation.
Arg1 functions in the physiological adaptation of undifferentiated plant cells to spaceflight
In this study transcriptome profiling was used to gain insight into the spaceflight adaptation role of Altered response to gravity-1 (Arg1), a gene known to affect gravity responses in plants on Earth. The study compared expression profiles of cultured lines of Arabidopsis thaliana derived from wild type (WT) cultivar Col-0 to profiles from a knock-out line deficient in the gene encoding (ARG1 KO), both on the ground and in space. The cell lines were launched on SpaceX CRS-2 as part of the Cellular Expression Logic (CEL) experiment of the BRIC17 spaceflight mission. The cultured cell lines were grown within 60mm Petri plates in Petri Dish Fixation Units (PDFUs) that were housed within the Biological Research In Canisters (BRIC) hardware. Spaceflight samples were fixed on orbit. Differentially expressed genes were identified between the two environments (spaceflight and comparable ground controls) and the two genotypes (WT and ARG1 KO). Each genotype engaged unique genes during physiological adaptation to the spaceflight environment, with little overlap. Most of the genes altered in expression in spaceflight in WT cells were found to be Arg1-dependent, suggesting a major role for that gene in the physiological adaptation of undifferentiated cells to spaceflight.
Transcriptional analysis of physiological pathways in a generalist herbivore: responses to different host plants and plant structures by the cotton bollworm (CBW) Helicoverpa armigera [CottonStructure
GEO Series GSE34344. Helicoverpa armigera. 40 samples. Type: Expression profiling by array.
Transcriptional analysis of physiological pathways in a generalist herbivore: responses to different host plants and plant structures by the cotton bollworm (CBW) Helicoverpa armigera [DifferentHost]
GEO Series GSE34346. Helicoverpa armigera. 48 samples. Type: Expression profiling by array.
Changes in Physiology of Burley Tobacco Plants Genetically Engineered to Express a Functional NtEGY2 Gene
GEO Series GSE236277. Nicotiana tabacum. 12 samples. Type: Expression profiling by high throughput sequencing.
Transcriptional analysis of physiological pathways in a generalist herbivore: responses to different host plants and plant structures by the cotton bollworm (CBW) Helicoverpa armigera
GEO Series GSE34349. Helicoverpa armigera. 72 samples. Type: Expression profiling by array.
Cytb1-1-Ascorbate metabolism in plants: physiological function and biochemical properties of cytochrome b561
GEO Series GSE19739. Arabidopsis thaliana. 8 samples. Type: Expression profiling by array.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.