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RNA-seq of human Caco-2 cells treated with a nutraceutical formula (solution-3), or vehicle-(saline solution)- control, and infected with SARS-CoV-2 (EG.5)

ABSTRACT: RNA-seq of human Caco-2 cells treated with a nutraceutical formula (solution-3), or vehicle-(saline solution)- control, and infected with SARS-CoV-2 (EG.5)

PROVIDER: PRJEB73998 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR12757337_1.fastq.gz	Fastqsanger.gz
	ERR12757337_2.fastq.gz	Fastqsanger.gz
	ERR12757338_1.fastq.gz	Fastqsanger.gz
	ERR12757338_2.fastq.gz	Fastqsanger.gz
	ERR12757339_1.fastq.gz	Fastqsanger.gz

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RNA-seq of human Caco-2 cells treated with a nutraceutical formula (solution-3), or vehicle-(saline solution)- control, and infected with SARS-CoV-2 (EG.5)

Project description:Caco-2 cells were plated (5x105 cells), treated with a nutraceutical formula (solution-3) at 0.01x concentration or with vehicle (saline solution) as the negative control for the treatment. After 1 hour, the cells were infected with SARS-CoV-2 viral particles (EG.5; MOI, 3). After 48 hours, the cells were lysed, and their RNA were extracted for RNAseq.

2024-06-19 | E-MTAB-13919 | biostudies-arrayexpress

RNA-seq of human uninfected Caco-2 cells treated with a nutraceutical formula (Solution-3), or vehicle-(saline solution)- control

Project description:Caco-2 cells were plated (1000000 cells) and treated with a nutraceutical formula (Solution-3) at 0.01x concentration or with vehicle (saline solution) as the negative control for the treatment. After 24 hours, the cells were lysed, and their RNA was extracted for RNAseq.

2024-06-20 | E-MTAB-14178 | biostudies-arrayexpress

RNA-seq of human HEK-293T cells treated with a nutraceutical formula (solution-3), or vehicle-(saline solution)-treated controls

Project description:HEK-293T cells were plated (1x106 cells) and treated with a nutraceutical formula (solution-3) at 0.01x concentration or with vehicle (saline solution) as the negative control for the treatment. After 24 hours, the cells were lysed, and their RNA was extracted for RNAseq.

2024-06-19 | E-MTAB-13918 | biostudies-arrayexpress

RNA-seq of human uninfected Caco-2 cells treated with a nutraceutical formula (Solution-3), or vehicle-(saline solution)- control

Project description:RNA-seq of human uninfected Caco-2 cells treated with a nutraceutical formula (Solution-3), or vehicle-(saline solution)- control

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RNA-seq of human HEK-293T cells treated with a nutraceutical formula (solution-3), or vehicle-(saline solution)-treated controls

Project description:RNA-seq of human HEK-293T cells treated with a nutraceutical formula (solution-3), or vehicle-(saline solution)-treated controls

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Methanosphaerula subterraneus strain:EG

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RNA-seq of Ideonella sakaiensis 201-F6 when grown on PET, TPA·2Na, and EG

Project description:Poly(ethylene terephthalate) (PET)-degrading bacterium Ideonella sakaiensis produces hydrolytic enzymes that convert PET, via mono(2-hydroxyethyl) terephthalate (MHET), into the monomeric compounds, terephthalic acid (TPA) and ethylene glycol (EG). Understanding PET metabolism is critical if this bacterium is to be engineered for bioremediation and biorecycling. TPA uptake and catabolism in I. sakaiensis have previously been studied, but EG metabolism remains largely unexplored despite its importance. First, we identified two alcohol dehydrogenases (IsPedE and IsPedH) and one aldehyde dehydrogenase (IsPedI) in I. sakaiensis as the homologs of EG metabolic enzymes in Pseudomonas putida KT2440. IsPedE and IsPedH exhibited EG dehydrogenase activities with Ca2+ and a rare earth element (REE) Pr3+, respectively. We further found an upregulated dehydrogenase gene when the bacterium was grown on EG, whose gene product (IsXoxF) displays a minor EG dehydrogenase activity with Pr3+. IsPedE displayed a similar level of activity toward various alcohols. In contrast, IsPedH was more active toward small alcohols, whereas IsXoxF was the opposite. Structural analysis with homology models revealed that IsXoxF had a larger catalytic pocket than IsPedE and IsPedH, which could accommodate relatively bulkier substrates. Pr3+ regulated the protein expression of IsPedE negatively; IsPedH and IsXoxF were positively regulated. Taken together, these results indicated that the combination of IsPedH and IsXoxF complements the function of IsPedE in the presence of REEs. IsPedI exhibited dehydrogenase activity toward various aldehydes with the highest activity toward glycolaldehyde (GAD). This study demonstrated a unique alcohol oxidation pathway of I. sakaiensis, which could be efficient in EG utilization.

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