Ontology highlight
ABSTRACT:
PROVIDER: PRJNA602418 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR10947562.fastq.gz | Fastqsanger.gz | |||
| SRR10947563.fastq.gz | Fastqsanger.gz | |||
| SRR10947564.fastq.gz | Fastqsanger.gz | |||
| SRR10947565.fastq.gz | Fastqsanger.gz | |||
| SRR10947566.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 32 |
Similar Datasets
Project description:Laser Capture Microdissection (LCM) was used for expression analysis of three contrasted fungal tissues of uredinia corresponding respectively to spores and sporogenous hyphae, fungal structures in the spongy mesophyll and fungal infection structures in the palisade mesophyll. The array probes were designed from gene models taken from the Joint Genome Institute (JGI, Department of Energy) Melampsora larici-populina genome sequence version 1. The aim of this study was to identify tissue-specific gene expression to gain insights into the genes specifically associated with the biotrophic phase and the sporulation phase of the rust fungus. We performed 9 hybridizations (NimbleGen) with samples derived from Laser Capture Microdissection (LCM) of three contrasted fungal tissues of uredinia, corresponding respectively to spores and sporogenous hyphae, fungal structures in the spongy mesophyll and fungal infection structures in the palisade mesophyll. Three replicates per tissue. All samples were labeled with Cy3.
2010-07-22 | E-GEOD-21487 | biostudies-arrayexpress
Project description:<p><strong>INTRODUCTION:</strong> The production of high quality and safe food represents a main priority for the agri-food sector in the effort to sustain the exponentially growing human population. Nonetheless, there are major challenges that require the discovery of new, alternative, and improved plant protection products (PPPs). Focusing on fungal plant pathogens, the dissection of mechanisms that are essential for their survival provides insights that could be exploited towards the achievement of the aforementioned aim. In this context, the germination of fungal spores, which are essential structures for their dispersal, survival, and pathogenesis, represents a target of high potential for PPPs. To the best of our knowledge, no PPPs that target the germination of fungal spores currently exist.</p><p><strong>OBJECTIVES:</strong> Within this context, we have mined for changes in the metabolite profiles of the model fungus Aspergillus nidulans FGSC A4 conidiospores during germination, in an effort to discover key metabolites and reactions that could potentially become targets of PPPs.</p><p><strong>METHODS:</strong> Untargeted GC/EI-TOF/MS metabolomics and multivariate analyses were employed to monitor time-resolved changes in the metabolomes of germinating A. nidulans conidiospores.</p><p><strong>RESULTS:</strong> Analyses revealed that trehalose hydrolysis plays a pivotal role in conidiospore germination and highlighted the osmoregulating role of the sugar alcohols, glycerol, and mannitol.</p><p><strong>CONCLUSION:</strong> The ineffectiveness to introduce active ingredients that exhibit new mode(s)-of-action as fungicides, dictates the urge for the discovery of PPPs, which could be exploited to combat major plant protection issues. Based on the crucial role of trehalose hydrolysis in conidiospore dormancy breakage, and the subsequent involvement of glycerol in their germination, it is plausible to suggest their biosynthesis pathways as potential novel targets for the next-generation antifungal PPPs. Our study confirmed the applicability of untargeted metabolomics as a hypothesis-generation tool in PPPs' research and discovery.</p>
2020-09-08 | MTBLS1565 | MetaboLights
Project description:Laser Capture Microdissection (LCM) was used for expression analysis of three contrasted fungal tissues of uredinia corresponding respectively to spores and sporogenous hyphae, fungal structures in the spongy mesophyll and fungal infection structures in the palisade mesophyll. The array probes were designed from gene models taken from the Joint Genome Institute (JGI, Department of Energy) Melampsora larici-populina genome sequence version 1. The aim of this study was to identify tissue-specific gene expression to gain insights into the genes specifically associated with the biotrophic phase and the sporulation phase of the rust fungus.
2010-07-22 | GSE21487 | GEO
Project description:To identify candidate secreted proteins by the plant symbiont Serendipita indica, we infected the roots of the model plant Arabidopsis thaliana with fungal spores. We then performed gene expression profiling analysis using data obtained from RNA-seq of 2 conditions (mock and treated) and 2 timepoints (3 and 10 days after infection).
2023-06-07 | GSE222356 | GEO
Project description:Transcriptionally active enhancers in human cancer cells
| PRJNA638913 | ENA
Project description:In order to dissect the response from different fungal cell wall components, monocyte-derived dendritic cells obtained from healthy donors were collected and either left untreated, or treated for four hours with either mannan, zymosan, curdlan, whole yeast, or yeast spores. This experiment is related to E-MTAB-1213.
2012-08-28 | E-MTAB-750 | biostudies-arrayexpress
Project description:Arbuscular mycorrhiza (AM) interactions between plants and Glomeromycota fungi primarily support phosphate aquisition of most terrestrial plant species. To unravel gene expression during early stages of Medicago truncatula root colonization by AM fungi, we used genome-wide transcriptome profiling based on mycorrhizal root fragments enriched for early fungal infection stages. We used Medicago GeneChips to detail the global programme of gene expression in response to early stages of colonization by arbuscular mycorrhizal fungi and identified genes differentially expressed during these early stages. Medicago truncatula GFP-HDEL hairy roots (genotypes A17 and DMI3) were grown in vertically-oriented petri dishes, incubated at 26M-BM-0C and inoculated with 8 Gigaspora margarita spores, which were positioned between the lateral roots. G.margarita spores germinated in 2 to 4 days. Hyphopodia were observed after 5-6 days. Root fragments which reacted to the fungal contact were collected and frozen. Non-inoculated control root fragments were harvested at a comparable age.
2012-03-27 | E-GEOD-34617 | biostudies-arrayexpress
Project description:To test the impacts of drought on the host and fungus, we inoculated carrots (Daucus carota cv. ‘Napoli’) with spores of Rhizophagus irregularis DAOM 197198. Carrots grew in a greenhouse, and at the beginning of taproot development, were exposed to a 10-day water restriction. We evaluated plant growth and physiological responses, colonization level, and plant and fungal gene expression.
2023-06-30 | GSE189806 | GEO
Project description:Asexual development is fundamental to the ecology and lifestyle of filamentous fungi and can facilitate both plant and human infection. In the filamentous fungal genus Aspergillus, the production of asexual spores is primarily governed by the BrlA-AbaA-WetA central regulatory cascade. The final step in this cascade, which is controlled by the WetA protein, not only governs cellular development (i.e., the morphological differentiation of spores) but also ensures its coupling with chemical development (i.e., the coordinated production and deposition of diverse secondary metabolites, such as aflatoxins, into spores). While the wetA gene is conserved across the genus Aspergillus, the structure and degree of conservation of the BrlA-AbaA-WetA regulatory cascade and the broader wetA gene regulatory network (GRN) remain largely unknown. We carried out comparative transcriptome analyses between wetA null mutant and wild type (WT) asexual spores in three representative species spanning the diversity of the genus Aspergillus: the genetic model A. nidulans, the agricultural pest A. flavus, and the human pathogen A. fumigatus. We discovered that WetA regulates asexual sporulation in all three species via a negative feedback loop that represses BrlA, the cascade’s first step. Furthermore, ChIP-seq experiments in A. nidulans asexual spores suggest that WetA is a DNA-binding protein that interacts with a novel regulatory element, which we term the WetA Response Element (WRE). Interestingly, the WRE is found completely conserved in the non-coding region upstream of the wetA translation start site of many diverse Aspergillus genomes. In contrast, several global transcriptional regulators, most notably those in the velvet complex (veA, velB, and laeA) known to regulate the coupling between asexual development and production of secondary metabolites, show species-specific regulatory patterns. These results suggest that the BrlA-AbaA-WetA cascade’s regulatory role in cellular and chemical development of asexual spores is functionally conserved, but that the WetA-associated GRN has diverged during Aspergillus evolution. This entry is for the ChIP-seq data.
2018-07-24 | GSE114141 | GEO
Project description:Microarray experiments allow the dissection genome wide patterns of mRNA abundances and improve understanding of the molecular basis of the plant defense responses. These global and simultaneous analyses of TA profiles enable variations in mRNA abundances under specific treatments to be compared. In order to compare the plant resistance mechanism to DON toxicity and infection of Fusarial pathogens, microarray data from Arabidopsis thaliana cells challenged with the mycotoxin DON was compared to the data from the plants responding to F. virguliforme infestations. The microarray chip contained over 10,000 different ESTs (AFGC) was employed in both analyses. The first objective of this approach was to identify genes that were transcriptionally regulated when plants were treated with the toxin. The second objective using the microarray data was to identify resistance pathways where these co-regulated genes were positioned. The parallel comparison on transcriptional activities among soybean and Arabidopsis after fungal pathogen Fsg pathogenesis and Arabidopsis with DON treatment was also performed. Infection: Using F. virguliforme spores Compound Based Treatment: Time seedlings were exposed to Deoxynivalenol time_series_design
2012-04-11 | E-GEOD-37193 | biostudies-arrayexpress