Ontology highlight
ABSTRACT:
PROVIDER: PRJNA911478 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR22751355.fastq.gz | Fastqsanger.gz | |||
| SRR22751356.fastq.gz | Fastqsanger.gz | |||
| SRR22751357.fastq.gz | Fastqsanger.gz | |||
| SRR22751358.fastq.gz | Fastqsanger.gz | |||
| SRR22751359.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 17 |
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Project description:Notoscopelus japonicus isolate:ichthyoplankton survey Genome sequencing
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Project description:Breast cancer is among the most common malignancies and the leading cause of cancer-related deaths in women. SRSF1 proteins belong to an important splicing factor (SF) family and bind to different splicing regulatory elements (SREs) to promote or inhibit splicing. Cyperotundone (CYT) is the major bioactive component of sedge and reported to exhibit multiple biological functions. This study aimed to investigate the effects of CYT on breast cancer drug resistance and to explore the molecular mechanisms. CYT significantly suppressed the in vitro and in vivo growth of BC cells without affect the normal cells, induced cell apoptosis, and inhibited the migration and invasion of drug-resistant BC. In comparison with the mono treatment with CYT, combination of CYT and doxrubicin (Dox) enhanced the effects. CYT treatment regulated the RNA and protein levels of epithelial mesenchymal transition (EMT) biomarkers, suppressed the sphere formation ability and expression of cancer stem cell biomarkers in drug resistant BC cells. Results from transcriptome sequencing analysis and experiments identified significantly decreased SRSF1 level in drug resistant cells after CYT treatment. Knockdown of SRSF1 significantly decreased expression of full-length MYO1B protein in drug-resistant BC cells. Overexpression of SRSF1 and MYO1B revered the inhibitory effects of CYT. In conclusion, CYT repressed the growth and metastasis of BC cells and recovered drug sensitivity, via regulating the alternative splicing of RNAs.
2025-04-09 | GSE291469 | GEO
Project description:The cytochrome b6f (Cyt b6f) complex is a multisubunit protein complex in chloroplast thylakoid membranes required for photosynthetic electron transport. Here we report the isolation and characterization of the new tiny albino (nta1) mutant in Arabidopsis, which had severe defects in Cyt b6f accumulation and chloroplast development. Gene cloning unveiled that the nta1 phenotypes were caused by the disruption of a single nuclear gene, NTA1, which encodes an integral thylakoid membrane protein conserved across green algae and plants. Overexpression of NTA1 completely rescued the nta1 phenotypes, while knockout of NTA1 in wild type plants recapitulated the mutant phenotypes. Loss of NTA1 function severely impaired the accumulation of multiprotein complexes related to photosynthesis in thylakoid membranes, particularly the components of Cyt b6f. Furthermore, NTA1 was shown to directly interact with four subunits (Cyt b6/PetB, PetD, PetG and PetN) of Cyt b6f through the DUF1279 domain and C-terminal sequence to mediate their assembly. Taken together, our study identified NTA1 as a new and key regulator of chloroplast development, which plays essential roles in the assembly of Cyt b6f complex through interacting with multiple Cyt b6f subunits.
2023-02-22 | PXD038714 | Pride
Project description:In this study, we explored the role of IL-1β-mediated hormesis in defending β-cells against dysfunction and death induced by pro-inflammatory cytokines (CYT). Preconditioning β-cells with physiological circulating levels of IL-1β (IL-1βlow) induced a resilient state, protecting them from CYT-induced cell death while preserving glucose-stimulated insulin secretion through hormesis. IL-1βlow-treated INS-1E cells reduced CYT-induced NO secretion by suppressing NF-κB signaling and decreasing iNOS expression, correlating with reduced β-cell death. IL-1βlow conditioning reduced ER stress and upregulated p-eIF2a in response to CYT, thereby enhancing the expression of ER chaperones and biomarkers linked to improved β-cell identity/functionality.
2025-09-05 | GSE305828 | GEO
Project description:It has been recently shown that SNRNP70, a major component of the spliceosome, as well as other splicing regulators are found in axons. To investigate the role of SNRNP70 in axons, we generated a zebrafish null mutant and found motor connectivity defects that can be partially rescued upon transgenic overexpression of cytoplasmic-only human SNRNP70 (cyt-hSNRNP70). To understand the molecular function of the cytoplasmic pool of this splicing protein, we performed this RNA-seq experiment with the aim to identify mRNA transcripts whose expression is regulated by the cytoplasmic pool of SNRNP70. To do that, we crossed heterozygous mutant animals that are also positive for the cyt-SNRNP70 transgene. We then split embryos into four groups: (i) sibling, (ii) siblings/cyt-hSNRNP70, (iii) null, (iv) null/cyt-hSNRNP70. Total RNA was extracted from each one of the four groups (three biological replicates per sample) and sequenced.
2022-10-31 | E-MTAB-12301 | biostudies-arrayexpress
Project description:Calcium acts as a universal second messenger to regulate gene expression in both developmental processes and responses to environmental stresses. Previous studies showed that a number of stimuli can induce calcium increases in the cytoplasm and nucleus, independently. However, the gene expression network deciphering [Ca2+]cyt and/or [Ca2+]nuc signaling pathway remain obscure. Using transgenic Arabidopsis containing a fusion protein, comprising rat parvalbumin (PV) with either a nuclear export sequence (PV-NES) or a nuclear localization sequence (NLS-PV), to selectively buffer the cytosolic or nucleosolic calcium, we identified the [Ca2+]cyt- or /and [Ca2+]nuc-regulated ABA- and MeJA-responsible genes with the Arabidopsis Genome Oligo array.
2018-01-25 | GSE109611 | GEO
Project description:Today, many contaminants of emerging concern can be measured in waters across the United States, including the tributaries of the Great Lakes. However, just because the chemicals can be measured does not mean that they necessarily result in harm to fish and other aquatic species. Complicating risk assessment in these waters is the fact that aquatic species are encountering the chemicals as mixtures, which may have additive or synergistic risks that cannot be calculated using single chemical hazard and concentration-response information. We developed an in vitro effects-based screening approach to help us predict potential liver toxicity and cancer in aquatic organisms using water from specific Great Lakes tributaries: St. Louis River (MN), Bad River (WI), Fox River (WI), Manitowoc River (WI), Milwaukee River (WI), Indiana Harbor Canal (IN), St. Joseph River (MI), Grand River (MI), Clinton River (MI), River Rouge (MI), Maumee River (OH), Vermilion River (OH), Cuyahoga River (OH), Genesee River (NY), and Oswego River (NY). We exposed HepG2 cells for 48hrs to medium spiked with either field collected water (final concentration of environmental samples in the exposure medium were 75% of the field-collected water samples) or purified water. Using a deep neural network we clustered our collection sites from each tributary based on water chemistry. We also performed high throughput transcriptomics on the RNA obtained from the HepG2 cells. We used the transcriptomics data with our Bayesian Inferene for Sustance and Chemical Toxicity (BISCT) Bayesian Network for Steatosis to predict the probability of the field samples yielding a gene expression pattern consistent with predicting steatosis as an outcome. Surprisingly, we found that the probability of steatosis did not correspond to the surface water chemistry clustering. Our analysis suggests that chemical signatures are not informative in predicting biological effects. Furthermore, recent reports published after we obtained our samples, suggest that chemical levels in the sediment may be more relevant for predicting potential biological effects in the fish species developing tumors in the Great Lakes basin.
2022-12-01 | GSE146903 | GEO
Project description:For the detection of tiRNAs accumulated in Cyt c-IP vs tiRNAs in total cell lysates during hyperosmotic stress in the presence of angiogenin Total cell lysates from mouse embryonic fibroblasts treated with angiogenin under hyperosmotic stress. Lysates split into two parts: one part serveed as the total RNA, the other part served as Cyt c-IP fraction. Small RNAs were enriched from both parts and went through deep sequencing followed by bioinformatic analysis.
2014-05-09 | E-GEOD-57435 | biostudies-arrayexpress