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Small (non coding) RNA profiling in water- versus Xcf-inoculated common bean seeds at two developmental stages

ABSTRACT: Small (non coding) RNA profiling in water- versus Xcf-inoculated common bean seeds at two developmental stages

PROVIDER: PRJNA942256 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR23746571.fastq.gz	Fastqsanger.gz
	SRR23746572.fastq.gz	Fastqsanger.gz
	SRR23746573.fastq.gz	Fastqsanger.gz
	SRR23746574.fastq.gz	Fastqsanger.gz
	SRR23746575.fastq.gz	Fastqsanger.gz

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Small (non coding) RNA profiling in water- versus Xcf-inoculated common bean seeds at two developmental stages

Project description:Transcriptome approach of small RNA was performed at two stages of seed development during early maturation (24DAP) and seed maturity (42DAP) to differentially profile smallRNA accumulation from Xcf-inoculated and water-inoculated seeds.

2024-09-03 | GSE226920 | GEO

Transcriptomic analysis of water- versus Xcf-inoculated common bean seeds at three developmental stages

Project description:transcriptome approach was performed at three stages of seed development during seed filling, seed maturation and seed maturity to compare between seed transcriptomes from Xcf-inoculated and water-inoculated seeds.

2024-09-03 | GSE226918 | GEO

Transcriptomic analysis of water- versus Xcf-inoculated common bean seeds at three developmental stages

Project description:Transcriptomic analysis of water- versus Xcf-inoculated common bean seeds at three developmental stages

| PRJNA942258 | ENA

Methylome analysis of water- versus Xcf-inoculated common bean seeds at seed maturity stage

Project description:DNA Methylation profiling was performed at seed maturity to compare between seed methylomes from Xcf-inoculated and water-inoculated seeds.

2024-09-03 | GSE226919 | GEO

Identification of Scarlet Runner Bean WOX9-like binding sites in Scarlet Runner Bean seeds during seed development

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

Methylome analysis of water- versus Xcf-inoculated common bean seeds at seed maturity stage

Project description:Methylome analysis of water- versus Xcf-inoculated common bean seeds at seed maturity stage

| PRJNA942257 | ENA

Profiling of transcripts in developing seeds of common bean (Phaseolus vulgaris) lines differing in major storage proteins

2012-11-06 | GSE34233 | GEO

Profiling of transcripts in developing seeds of common bean (Phaseolus vulgaris) lines differing in major storage proteins

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

Transcript Profiling of the Common Bean - Rhizobium Symbiosis under Oxidative Stress

2012-07-01 | GSE37638 | GEO

Transcript Profiling of the Common Bean - Rhizobium Symbiosis under Oxidative Stress

Project description:A wide range of environmental stresses lead to an elevated production of reactive oxygen species (ROS) in plant cells thus resulting in oxidative stress. The biological nitrogen fixation in the legume - Rhizobium symbiosis is at high risk of damage from oxidative stress. Common bean (Phaseolus vulgaris) active nodules exposed to the herbicide Paraquat (1,1 '-Dimethyl-4, 4'-bipyridinium dichloride hydrate) that generates ROS accumulation, showed a reduced nitrogenase activity and ureide content. We analyzed the global gene response of stressed nodules using the Bean CombiMatrix Custom Array 90K, that includes probes from some 30,000 expressed sequence tags (EST). A total of 4,280 ESTs were differentially expressed in oxidative stressed bean nodules; of these 2,218 were repressed. These genes were grouped in 44 different biological processes as defined by Gene Onthology. Analysis with the PathExpress bioinformatic tool, adapted for bean, identified five significantly repressed metabolic path This work presents the transcriptional profile of bean nodules, induced by strain Rhizobium tropici CIAT 899, under oxidative stress, generated experimentally by adding the herbicide Paraquat (1,1 '-Dimethyl-4, 4'-bipyridinium dichloride hydrate) for 48 hours. We analyzed the transcript profile, via microarray hybridization, using the Bean CombiMatrix Custom Array 90K, that includes probes from some 30,000 expressed sequence tags (EST). A total of 4,280 ESTs were differentially expressed in oxidative stressed bean nodules; of these 2,218 were repressed.

2012-06-30 | E-GEOD-37638 | biostudies-arrayexpress

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