Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1058980 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR27379100_1.fastq.gz | Fastqsanger.gz | |||
| SRR27379100_2.fastq.gz | Fastqsanger.gz | |||
| SRR27379101_1.fastq.gz | Fastqsanger.gz | |||
| SRR27379101_2.fastq.gz | Fastqsanger.gz | |||
| SRR27379102_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 376 |
Similar Datasets
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: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. To understand the composition and functional properties of germinating seed exudates, we conducted our study using different common bean (Phaseolus vulgaris L.) genotypes. Seeds were harvested in the year 2020 from eight different common bean genotypes (French commercial cultivars of Phaseolus vulgaris) cultivated in two different locations from the FNAMS field experimental stations: Gers in South-west of France (43.956991, 0.392127) and Maine et Loire (47.470532, -0.394526) in the Loire Valley. The common bean genotypes namely, VEZ, CON, CAP, FAC, FLA, LIN, DEE and VAN were chosen to represent the highest diversity among breeding programmes and qualitative seed traits in France by the seed company Vilmorin-Mikado SAS (Limagrain group). One seed lot corresponds to seeds from one genotype produced in one location. Independent biological replicates were conducted for each seed lot. Thus, 48 samples were analyzed, corresponding to three replicates of eight genotypes produced in two locations. Spermosphere collection of germinating seeds involved the imbibition of 30 seeds for each sample at four distinct time intervals: 2, 8, 16, and 24 hours. The collected spermosphere, consisting of the water surrounding germinating seeds, was gathered for each time interval and subsequently pooled. Subsequently we investigated the diversity of metabolites of each pooled spermosphere using untargetted metabolomic (LC-MS/MS) analysis.
2024-04-23 | MSV000094600 | MassIVE
Project description:To understand the molecular basis for differences of common bean wild-type and mutant in sulphur amino acid content, transcripts were profiled at four developmental stages of seeds from wild-type SARC1 and major seed storage protein-deficient line SMARC1N-PN1 using a CustomArray 90K array. Microarray data confirmed that transcripts of storage and sulphur-rich proteins and sulphur-metabolism related genes were differentially expressed between the lines. The common bean (Phaseolus vulgaris) mutant line, SMARC1N-PN1 and its wild type, SARC1 used in the microarray experiment were grown in the field in London, ON, in 2009. Four developmental stages of seeds, based on fresh seed weight, were harvested. The stages of seeds used are Stage IV M-bM-^@M-^S cotyledon, 25 mg seed weight; Stage V M-bM-^@M-^S cotyledon, 50 mg seed weight; Stage VI M-bM-^@M-^S maturation, 150 mg seed weight, corresponding to the most active phase of reserve accumulation; and Stage VIII M-bM-^@M-^S maturation, 380 mg seed weight, corresponding to the onset of desiccation, were harvested for total RNA extraction. Four biological replicates for Stage IV and V and 3 biological replicates for Stage VI and VIII.
2012-11-06 | E-GEOD-34233 | biostudies-arrayexpress