Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Integrated transcriptomic and translatomic exploration of the effect of betaine on lipid metabolic dysregulation induced by a high-fat diet

ABSTRACT: Integrated transcriptomic and translatomic exploration of the effect of betaine on lipid metabolic dysregulation induced by a high-fat diet

PROVIDER: PRJNA750636 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR15293963_1.fastq.gz	Fastqsanger.gz
	SRR15293963_2.fastq.gz	Fastqsanger.gz
	SRR15293964_1.fastq.gz	Fastqsanger.gz
	SRR15293964_2.fastq.gz	Fastqsanger.gz
	SRR15293965_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 12

Similar Datasets

Integrated transcriptomic and translatomic exploration of the effect of betaine on lipid metabolic dysregulation induced by a high-fat diet

Project description:An excessive high-fat/energy diet is a major cause of obesity and associated complications, such as non-alcoholic fatty liver disease (NAFLD). Betaine has been shown to effectively improve hepatic lipid metabolism. However, the mechanistic basis for this improvement is largely unknown. Herein, integration of transcriptomics sequencing (RNA-seq) and ribosome footprints profiling (Ribo-seq) was used to investigate the means by which betaine alleviates hepatic lipid metabolic disorders induced by a high-fat diet. For the transcriptome, gene set enrichment analysis demonstrated betaine to reduce liver steatosis by up-regulation of fatty acid beta oxidation, lipid oxidation, and fatty acid catabolic processes. For the translatome, 574 differentially expressed genes were identified, 17 of which were associated with the NAFLD pathway. By combined analysis of RNA-seq and Ribo-seq, we found that betaine had the greatest effect on NAFLD at the translational level. Further, betaine decreased translational efficiency (TE) for IDI1, CYP5A1, TM7SF2, and APOA4, which are related to lipid biosynthesis. In summary, this study demonstrates betaine to alleviate lipid metabolic dysfunction at the translational level. The powerful multi-omics data integration approach used herein provides for a new understanding of the means by which to treat NAFLD.

2021-07-31 | GSE181077 | GEO

Integrated Transcriptomic and Translatomic Inquiry of the Role of Betaine on Lipid Metabolic Dysregulation Induced by a High-Fat Diet.

Project description:An excessive high-fat/energy diet is a major cause of obesity and linked complications, such as non-alcoholic fatty liver disease (NAFLD). Betaine has been shown to effectively improve hepatic lipid metabolism. However, the mechanistic basis for this improvement is largely unknown. Herein, integration of mRNA sequencing and ribosome footprints profiling (Ribo-seq) was used to investigate the means by which betaine alleviates liver lipid metabolic disorders induced by a high-fat diet. For the transcriptome, gene set enrichment analysis demonstrated betaine to reduce liver steatosis by up-regulation of fatty acid beta oxidation, lipid oxidation, and fatty acid catabolic processes. For the translatome, 574 differentially expressed genes were identified, 17 of which were associated with the NAFLD pathway. By combined analysis of transcriptome and translatome, we found that betaine had the greater effect on NAFLD at the translational level. Further, betaine decreased translational efficiency (TE) for IDI1, CYP51A1, TM7SF2, and APOA4, which are related to lipid biosynthesis. In summary, this study demonstrated betaine alleviating lipid metabolic dysfunction at the translational level. The transcriptome and translatome data integration approach used herein provides for a new understanding of the means by which to treat NAFLD.

| S-EPMC8542779 | biostudies-literature

Proteome of proline betaine-grown Eubacterium limosum ATCC 8486

Project description:Proline betaine, and to a much lesser extent, N-methyl L-proline, are found in citrus fruits and often present in the human metabolome. However, most of the N-methyl L-proline found in an animal model metabolome is produced by the microbiota, yet organisms and enzymes capable of producing N-methyl proline in the anoxic intestine have been unknown. The anaerobe Eubacterium limosum ATCC 8486 makes acetate and butyrate from various substrates and is found in the human intestine. We found that this organism demethylates proline betaine and excretes N-methyl proline during growth. The proteome of proline betaine-grown Eubacterium limosum was obtained in order to identify enzymes required for growth on proline, in particular to identify components that are unique to growth on proline in comparison to other substrates for acetogenesis, such as lactic acid. Comparison of the proteomes of the bacteria on proline betaine and lactic acid led to identification of the proteins involved in a proline betaine:tetrahydrofolate methyltransferase system which was biochemically verified. The key proline betaine demethylating enzyme is a member of the widespread TMA methyltransferase protein superfamily.

2019-07-25 | PXD013962 | Pride

Comparative Analysis of Antifungal Mechanism of Lauryl betaine in the Human Fungal Pathogens Cryptococcus neoformans and Malassezia restricta

Project description:Purpose: Understanding the mechanism of action of lauryl betaine against Cryptococcus neoformans and Malassezia restricta. Methods: The transcriptome profile of the lauryl betaine-treated cells compared to that of untreated cells were generated by RNA-seq Illumina Hiseq. Results: A number of genes were differentially expressed in the lauryl betaine-treated cells, which include genes involved in ergosterol biosynthetic pathway.

2019-08-22 | GSE124734 | GEO

The effects of UVB and the organic osmolyte betaine on rat epidermal keratinocytes in an organotypic culture system

Project description:Betaine (trimethylglycine) is a non-toxic, highly water-soluble organic osmolyte widely used in skin care due to its assumed moisturizing and protective properties, but only few studies have addressed its specific effects in skin. Here, the cellular and molecular targets of betaine were analyzed by genome-wide expression analysis in organotypic cultures of rat epidermal keratinocytes (REK). In this model, we also examined whether betaine modifies the impacts of acute UVB exposure. The expression of several genes relevant to epidermal biology, proliferation/differentiation or malignancy as well as solute transport were verified by independent methods (qRT-PCR, western blotting). The data concerning changes in calcium metabolism after UVB exposure has been published separately (Bart et al., Br. J. Dermatol. 171:376-387, 2014). Organotypic cultures of rat epidermal keratinocytes (REK) were prepared by plating cells on a collagen-coated insert (submerged in medium), lifting the confluent cell layer to the air-liquid interface 3 days after plating. These 3D cultures were divided in four treatment groups with three replicates in each: control, betaine (10 mM), UVB (30 mJ/cm2) and betaine + UVB. Betaine was added to the cultures for 11 days, starting from day 4 until sample collection. UVB exposure was performed 24 h prior to sample collection for 2-week-old 3D cultures with a well-formed epidermal layer. For further details on the experimental set-up and characteristics of the UV source, please refer to Bart et al. (Br. J. Dermatol. 171:376-387, 2014) and Rauhala et al. (J. Biol. Chem. 288:17999-18012, 2013).

2015-10-26 | E-GEOD-63004 | biostudies-arrayexpress

Betaine is involved in regulation of translation through alteration of N6-methyladenosine RNA methylation in liver

Project description:In order to explore the effect of betaine on NAFLD and its mechanism, we divided mice into high-fat diet (HF) and high-fat diet with betaine (HB) groups, and used N6-methyladenosine sequence (m6A-seq), RNA-seq and mRNAs bound to ribosome-nascent chain complex sequencing (RNC-seq) to evaluate the gene expression levels in the liver of each group.

2021-05-20 | GSE174550 | GEO

The effects of UVB and the organic osmolyte betaine on rat epidermal keratinocytes in an organotypic culture system

2015-10-26 | GSE63004 | GEO

glycine betaine degradation by salt marsh microbial community

Project description:We studied degradation of glycine betaine by salt marsh microbes and the formation of trimethylamine and methane from glycine betaine

| PRJEB28840 | ENA

Next Generation Sequencing Facilitates Quantitative Analysis of ApoE-/-/SAHHWT, ApoE-/-/SAHH+/- mice and ApoE-/-/SAHH+/- +Betaine mice [WGBS]

Project description:Objective: the next generation sequencing (NGS) has revolutionized the system-based analysis of cellular pathways. The purpose of this study was to explore the mechanism of methylation changes caused by SAHH knockout and dietary betaine addition in atherosclerosis.

2021-10-22 | GSE186253 | GEO

Next Generation Sequencing Facilitates Quantitative Analysis of ApoE-/-/SAHHWT, ApoE-/-/SAHH+/- mice and ApoE-/-/SAHH+/- +Betaine mice [RNA-seq]

2021-10-22 | GSE186252 | GEO