Seed metagenome
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA635871 | ENA |
REPOSITORIES: ENA
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Project description:Common bean (Phaseolus vulgaris L.) is the most consumed grain legume in developing countries in Latin America and Sub-Saharan Africa1. Like other legumes, common bean seeds are rich in protein, carbohydrates, fibers and other health-promoting phenolic compounds thus being vital for food security and income source for local small farmers2. Seed quality traits depend on accumulation of various storage molecules during the seed development (SD) process and influenced by the genotype and adaptive changes to environment3. Concerning common bean, there is still a lack of a deeper molecular knowledge of SD that is hampering the development of new biotech approaches for seed trait modulation and could timely address challenges of agriculture or industry. Our present work aims to unravel the molecular mechanisms underlying SD using a proteomic approach. To achieve this goal, we characterized SD in terms biomass, seed length and weight in the genotype SER16, one of the most promissory drought-resistant release of the CIAT-CGIAR. Seed samples were collected at the 4 main SD stages: Late-Embryogenesis (10 days after anthesis, d.a.a.), Early (20 d.a.a.) and Late Maturation (30 d.a.a.) and Desiccation (40 d.a.a.). The analysis of bean proteome was conducted using a gel-free proteomic analysis (LC-MS/MS) under the scope of EU-FP7-PRIME-XS project. A total of 410 unique proteins were differentially expressed throughout the 4 major seed development stages, in which most of the identified proteins belong in the ‘protein metabolism’ (31,98%) functional category, that includes synthesis, regulation, folding. Other functional categories are represented such as carbohydrate and lipid metabolism (11,26%) and stress/defense and redox metabolism (11,04%). We identified 93 proteins were unique to the first (10-20 d.a.a.), 22 to the second (20-30 d.a.a.) and 40 to the last (30-40 d.a.a.) phase transition, reflecting the major biological processes occurring at this specific seed developmental stage. This study will contribute to reveal key metabolic pathways and mechanisms with potential role in modulating common bean seed development and quality traits.
2018-01-05 | PXD002254 | Pride
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:Oilseed rape seed microbiome raw sequence reads
| PRJNA358488 | ENA
Project description:Interventions: Black seed capsule (containing fresh black seed powder) in the amount of 1000 mg three times a day (it is better to take black seed capsule 2 hours before or 2 hours after a meal)..
Primary outcome(s): Cancer antigen 19-9 (CA19-9). Timepoint: Baseline, 3 months following the treatment and the end of treatment. Method of measurement: Blood test.;Carcino Embryonic Antigen (CEA). Timepoint: Baseline, 3 months following the treatment and the end of treatment. Method of measurement: Blood test.
Study Design: Randomization: N/A, Blinding: Not blinded, Placebo: Not used, Assignment: Single, Purpose: Treatment.
| 2496470 | ecrin-mdr-crc
Project description:Changes on the seed microbiome in response to invasion by phytopathogenic microorganisms
| PRJNA454584 | ENA
Project description:Seeds are crucial for plant reproduction, dispersal, and agriculture. Seed quality and vigour greatly impact crop production, referring to their ability to germinate rapidly and uniformly under varying environmental conditions, producing healthy seedlings that can withstand biotic and abiotic stress accentuated by global climate change. During germination, seeds release exudates, complex mixtures of organic and inorganic molecules, into the micro-environment surrounding them, known as the spermosphere. These exudates play a pivotal role in seedling development and overall plant fitness by influencing microbial selection, growth, and interactions in the spermosphere, ultimately shaping the plant's microbiome. Our research demonstrated that germinating seeds release diverse metabolites, peptides, proteins, and small RNAs in the exudates, some with functional properties like antimicrobial or antioxidant activities. To understand the composition and functional properties of germinating seed exudates, we conducted our study using eight common bean seed genotypes produced under two contrasted locations in France. We investigated the diversity of peptides in the spermosphere.
2024-04-19 | PXD051625 | iProX
Project description:Transcriptome profiling during seed development in important common bean cvs. Rosecoco, Pinto and Canadian wonder
| PRJEB45523 | ENA