Ontology highlight
ABSTRACT:
PROVIDER: PRJNA787371 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:The aim of the project was to elucidate the inter-organellar interplay of plastids, mitochondria, and peroxisomes during storage reserve mobilization in the endosperm to supply the growing seedling with nutrients upon germination. Organelles from endosperm of etiolated castor bean seedlings were isolated and subjected to liquid chromatography-tandem mass spectrometry. The data were used to build a comprehensive metabolic model for plastids, mitochondria, and peroxisomes.
2024-01-09 | PXD040932 | Pride
Project description:To examine the differential gene expression of genes invovled in hydroxy fatty acid accumulation within the endosperm and embryo tissues of castor seeds
2019-04-11 | GSE119624 | GEO
Project description:Many genes involve in pathogenicity and virulence are induced only in plant or in the presence of host components. Bean leaf extract was obtained from healthy bean leaves. In this work we investigated the effect of bean leaf extract on the transcriptomic profile of the bacterium, when grown at low temperature in minimal medium with or without extract from healthy bean leaves.
2009-03-03 | GSE14998 | GEO
Project description:RNA-seq for castor bean seedling under heat stress
| PRJNA803603 | ENA
Project description:To dissect the gene regulatory networks operating during Scarlet Runner Bean seed development, we identified the binding sites genome-wide for transcription factor in Scarlet Runner Bean seeds during seed development using ChIP-seq
2020-07-13 | GSE153644 | GEO
Project description:Small noncoding RNA (sncRNA), including microRNAs (miRNAs) and endogenous small-interfering RNAs (endo-siRNAs) are key gene regulators in eukaryotes, playing critical roles in plant development and stress tolerance. Trans-acting siRNAs (ta-siRNAs), which are secondary siRNAs triggered by miRNAs, and siRNAs from natural antisense transcripts (nat-siRNAs) are two well-studied classes of endo-siRNAs. In order to understand sncRNAs’ roles in plant cold response and stress acclimation, we studied miRNAs and endo-siRNAs in Cassava (Manihot esculenta), a major source of food for the world populations in tropical regions. Combining Next-Generation sequencing and computational and experimental analyses, we profiled and characterized sncRNA species and mRNA genes from the plants that experienced severe and moderate cold stresses, that underwent further severe cold stress after cold acclimation at moderate stress, and that grew under the normal condition. We also included Castor bean (Ricinus communis) to understand conservation of sncRNAs. In addition to known miRNAs, we identified dozens of novel miRNAs as well as ta-siRNA-yielding and nat-siRNA-yielding loci in Cassava and Castor bean, respectively. Among the expressed sncRNAs, many sncRNAs were differentially expressed under cold stresses. Our study provided the results on gene regulation by sncRNAs in cold acclimation of Euphorbiaceous plants and the role of sncRNA-mediated pathways affected by cold stress and stress acclimation in Cassava.
2014-07-05 | GSE52177 | GEO
Project description:Small noncoding RNA (sncRNA), including microRNAs (miRNAs) and endogenous small-interfering RNAs (endo-siRNAs) are key gene regulators in eukaryotes, playing critical roles in plant development and stress tolerance. Trans-acting siRNAs (ta-siRNAs), which are secondary siRNAs triggered by miRNAs, and siRNAs from natural antisense transcripts (nat-siRNAs) are two well-studied classes of endo-siRNAs. In order to understand sncRNAsM-bM-^@M-^Y roles in plant cold response and stress acclimation, we studied miRNAs and endo-siRNAs in Cassava (Manihot esculenta), a major source of food for the world populations in tropical regions. Combining Next-Generation sequencing and computational and experimental analyses, we profiled and characterized sncRNA species and mRNA genes from the plants that experienced severe and moderate cold stresses, that underwent further severe cold stress after cold acclimation at moderate stress, and that grew under the normal condition. We also included Castor bean (Ricinus communis) to understand conservation of sncRNAs. In addition to known miRNAs, we identified dozens of novel miRNAs as well as ta-siRNA-yielding and nat-siRNA-yielding loci in Cassava and Castor bean, respectively. Among the expressed sncRNAs, many sncRNAs were differentially expressed under cold stresses. Our study provided the results on gene regulation by sncRNAs in cold acclimation of Euphorbiaceous plants and the role of sncRNA-mediated pathways affected by cold stress and stress acclimation in Cassava. Examination of small RNA populations in Cassava cultivar SC124 under the normal condition (NC), gradual cold acclimation (CA), cold shock (CS) and stress acclimation Cold stress after cold acclimation (CCA).
2014-07-05 | E-GEOD-52177 | biostudies-arrayexpress
Project description:Analysis of Castor bean response to drought stress
| PRJNA401329 | ENA
Project description:Higher-order chromatin structure undergoes dramatic changes in response to various developmental and environmental signals, wherein distinct cell types posses specific chromatin organization. High throughput chromatin conformation capture assays (Hi-C) allows study of higher-order chromatin structure; however, it requires a large number of cells. This requirement has so far limited the establishment of cell type-specific higher-order chromatin structure in the plant. To overcome this limitation, we modified the Hi-C protocol (mHi-C) to be applicable to a limited amount of starting material. For this, mHi-C libraries were generated from INTACT-purified endosperm and leaf nuclei. Correlation plots showed that our mHi-C data from INTACT-leaf accurately reiterate chromatin interaction patterns derived from conventional leaf Hi-C data. We further identified compacted structural domains (CSDs) and loose structural domains (LSDs) in leaf and endosperm and their differential patterns revealed distinct higher-order chromatin organization in leaf and endosperm. Our analysis revealed that DNA methylation and repressive histone marks positively correlate with the chromatin compaction level. We discovered increased chromatin interactions frequencies in the endosperm in comparison to leaf tissue. Using cell-specific Hi-C and INTACT-RNA-seq, on a genome-wide scale higher expression of self-looped interacting genes was observed. It was further identified that interacting intergenic regions act as a negative regulator and influence the gene expression in a specific cells in the plant. Our study provides evidence that the higher-order chromatin structure differs between cell types in plants and these interactions could influence the transcription activity positively as well as negatively.
2021-03-04 | GSE145769 | GEO