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ABSTRACT: SeedAdapt core SSR

PROVIDER: PRJNA639399 | ENA |

REPOSITORIES: ENA

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Dataset's files

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			Action	DRS
	SRR12011500.fastq.gz	Fastqsanger.gz
	SRR12011501.fastq.gz	Fastqsanger.gz
	SRR12011502.fastq.gz	Fastqsanger.gz
	SRR12011503.fastq.gz	Fastqsanger.gz
	SRR12011504.fastq.gz	Fastqsanger.gz

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Desumoylation of the RNA polymerase III lies at the core of the Sumo-Stress Response

Project description:Posttranslational modification by the small ubiquitin-like modifier Sumo regulates many cellular processes including the adaptive response to various types of stress, which has been referred to as Sumo Stress Response (SSR). However, it remains unclear whether the SSR involves a common set of core proteins regardless of the type of stress, or whether each particular type of stress induces a stress-specific SSR that targets a unique, largely non-overlapping set of Sumo substrates. In this study we used mass spectrometry to identify differentially sumoylated proteins during heat shock, hyperosmotic stress, oxidative stress, nitrogen starvation and DNA alkylation in Saccharomyces cerevisiae. Our results show that each stress triggers a specific SSR signature centered on proteins involved in transcription, translation, and chromatin regulation. Strikingly, while the various stress-specific SSRs were largely non-overlapping, all types of stresses tested here resulted in desumoylation of subunits of RNA polymerase III, which correlated with a decrease in tRNA synthesis. We conclude that desumoylation and subsequent inhibition of RNA polymerase III constitutes the core of all stress-specific SSRs.

2019-11-01 | PXD013884 | Pride

Project description:SeedAdapt IsoSeq

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Project description:SeedAdapt Flower development

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Simple sequence repeat identification for RBOHB gene in multiple varieties of Oryza sativa

Project description:Studies have shown that Respiratory Burst Oxidase Homolog B (RBOHB) are involved in stress response in rice plants. Primers were developed for amplification via Polymerase Chain Reaction (PCR) of a region that contained a simple sequence repeat (SSR) in RBOHB. PCR was performed on 6 different varieties of Oryza sativa. PCR product was sequenced on an ABI 3730 capillary sequence machine. Sequence data was aligned to observe differences in SSR length between each rice variety.

2017-12-31 | E-MTAB-5560 | biostudies-arrayexpress

Simple sequence repeat identification for RSS1 gene in multiple varieties of Oryza sativa

Project description:Studies have shown that Rice Salt Sensitive 1 (RSS1) is involved in stress response in rice plants. Primers were developed for amplification via Polymerase Chain Reaction (PCR) of a region that contained a simple sequence repeat (SSR) in RSS1. PCR was performed on 6 different varieties of Oryza sativa. PCR product was sequenced on an ABI 3730 capillary sequence machine. Sequence data was aligned to observe differences in SSR length between each rice variety.

2017-12-31 | E-MTAB-5583 | biostudies-arrayexpress

Expression data from human skin exposed to solar-simulated radiation with or without sunscreen

2011-10-19 | GSE22083 | GEO

Expression data from human skin exposed to solar-simulated radiation with or without sunscreen

Project description:Despite widespread use of sunscreens that minimize erythema by blocking ultraviolet B (UVB) radiation, incidence rates of melanoma continue to rise. In considering this disparity between intervention and disease prevalence, we investigated the in vivo transcriptome of human skin treated with sunscreen and solar-simulated radiation (ssR). A focal skin area of healthy participants was exposed to ssR at 1 minimal erythema dose (MED), 0.1 MED or 100 J/m2 with or without prior application of sunscreen, or to non-UVB-spectrum of ssR (solar-simulated UVA/visible/infrared radiation: ssA). Skin biopsies were analyzed using expression microarrays. Ninety-eight microarrays from 14 healthy human volunteers were analyzed. Focal skin areas of all 14 volunteers were exposed to 0 J/m2, 100 J/m2, 1 minimal erythema dose (MED), and 0.1 MED of solar-simulated radiation (ssR). Eight of the 14 volunteers (Group 1) were also exposed to ssA (ssR minus UVB) that were generated by removing UVB from 0 J/m2, 100 J/m2, 1 minimal erythema dose (MED), and 0.1 MED of ssR. Additionally, 6 of the 14 volunteers (Group 2) were treated with sunscreen of sun protection factor (SPF) 15, and exposed to 0 J/m2, 100 J/m2, 1 minimal erythema dose (MED), and 0.1 MED of ssR. Biopsy was taken 24 hours after exposure from each focal skin area for RNA extraction.

2011-10-18 | E-GEOD-22083 | biostudies-arrayexpress

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