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HDAC7 promotes renal cancer metastasis by reprogramming branched-chain amino acid metabolism

ABSTRACT: HDAC7 promotes renal cancer metastasis by reprogramming branched-chain amino acid metabolism

PROVIDER: PRJNA1235210 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR32667188_1.fastq.gz	Fastqsanger.gz
	SRR32667188_2.fastq.gz	Fastqsanger.gz
	SRR32667189_1.fastq.gz	Fastqsanger.gz
	SRR32667189_2.fastq.gz	Fastqsanger.gz
	SRR32667190_1.fastq.gz	Fastqsanger.gz

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HDAC7 promotes renal cancer metastasis by reprogramming branched-chain amino acid metabolism

Project description:Clear cell renal cell carcinoma (ccRCC), the most common subtype of kidney cancer, exhibits significant metabolic reprogramming. We previously reported elevated HDAC7, a class II histone deacetylase, in ccRCC. Here, we demonstrate that HDAC7 promotes aggressive phenotypes and in vivo tumor progression in RCC. HDAC7 suppresses the expression of genes mediating branched-chain amino acid (BCAA) catabolism. Notably, lower expression of BCAA catabolism genes is strongly associated with worsened survival in ccRCC. Suppression of BCAA catabolism promotes expression of SNAIL1, a central mediator of aggressive phenotypes including migration and invasion. HDAC7-mediated suppression of the BCAA catabolic program promotes SNAI1 mRNA transcription via NOTCH signaling activation. Collectively, our findings provide new insights into the role of metabolic remodeling in ccRCC tumor progression.

2025-03-20 | GSE291765 | GEO

Impact of Preoperative Oral Branched-chain Amino Acids on Reducing Postoperative Insulin Resistance.

Project description:Postoperative insulin resistance refers to the phenomenon that the body’s glucose uptake stimulated by insulin is reduced due to stress effects such as trauma or the inhibitory effect of insulin on liver glucose output is weakened after surgery. There is a clear link between postoperative insulin resistance and poor perioperative prognosis. Therefore, exploring interventions to reduce postoperative stress insulin resistance, stabilize postoperative blood glucose, and reduce postoperative complications are clinical problems that need to be solved urgently. In recent years, research on branched-chain amino acids and metabolic diseases has become a hot spot. Studies have found that in the rat model, preoperatively given a high branched-chain amino acid diet can inhibit postoperative insulin resistance and stabilize blood glucose levels. This research plan is to try to add branched-chain amino acids before surgery to observe the occurrence of postoperative insulin resistance in patients.

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Branched Chain Amino Acids (BCAA) Modulate Metabolic Inflammation

Project description:Branched Chain Amino Acids (BCAA) Modulate Metabolic Inflammation

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Targeting branched-chain amino acids alleviates pulmonary fibrosis

Project description:Targeting branched-chain amino acids alleviates pulmonary fibrosis

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Codon-specific ribosome stalling reshapes translational dynamics during branched-chain amino acid starvation

Project description:Background Cells regulate protein synthesis in response to fluctuating nutrient availability through mechanisms that affect both translation initiation and elongation. Branched-chain amino acids, leucine, isoleucine, and valine, are essential nutrients. However, how their depletion affects translation remains largely unclear. Here, we investigate the immediate effects of single, double, and triple branched-chain amino acid deprivation on translational dynamics in NIH3T3 cells using RNA-seq and ribosome profiling. Results All starvation conditions increased ribosome dwell times, with pronounced stalling at all valine codons during valine and triple starvation, whereas leucine and isoleucine starvation produced milder, codon-specific effects. Notably, stalling under isoleucine deprivation largely decreased under triple starvation. Positional enrichment of valine codons near the 5′ end and downstream isoleucine codons potentially contributes to these patterns, suggesting a possible elongation bottleneck that influences translational responses under branched-chain amino acid starvation. The presence of multiple valine stalling sites was associated with decreased protein levels. Finally, codon-specific dwell time changes correlated strongly with patterns of tRNA isoacceptor charging. Conclusions Together, these findings suggest that differential ribosome stalling under branched-chain amino acid starvation reflects a balance between amino acid supply, tRNA charging dynamics, codon position, and stress-response signaling.

2025-09-02 | GSE291653 | GEO

Codon-specific ribosome stalling reshapes translational dynamics during branched-chain amino acid starvation

Project description:Background: Cells regulate protein synthesis in response to fluctuating nutrient availability through mechanisms that affect both translation initiation and elongation. Branched-chain amino acids, leucine, isoleucine, and valine, are essential nutrients. However, how their depletion affects translation remains largely unclear. Here, we investigate the immediate effects of single, double, and triple branched-chain amino acid deprivation on translational dynamics in NIH3T3 cells using RNA-seq and ribosome profiling. Results: All starvation conditions increased ribosome dwell times, with pronounced stalling at all valine codons during valine and triple starvation, whereas leucine and isoleucine starvation produced milder, codon-specific effects. Notably, stalling under isoleucine deprivation largely decreased under triple starvation. Positional enrichment of valine codons near the 5' end and downstream isoleucine codons potentially contributes to these patterns, suggesting a possible elongation bottleneck that influences translational responses under branched-chain amino acid starvation. The presence of multiple valine stalling sites was associated with decreased protein levels. Finally, codon-specific dwell time changes correlated strongly with patterns of tRNA isoacceptor charging. Conclusions: Together, these findings suggest that differential ribosome stalling under branched-chain amino acid starvation reflects a balance between amino acid supply, tRNA charging dynamics, codon position, and stress-response signaling.

2025-09-02 | GSE291652 | GEO

ACSS2-mediated acetylation promotes BCAT1 aggradation to elevate branched-chain amino acid metabolism and development of pancreatic cancer

Project description:ACSS2-mediated acetylation promotes BCAT1 aggradation to elevate branched-chain amino acid metabolism and development of pancreatic cancer

2025-05-01 | GSE279400 | GEO

Targeting branched-chain amino acids alleviates pulmonary fibrosis [CUT&Tag]

Project description:Targeting branched-chain amino acids alleviates pulmonary fibrosis [CUT&Tag]

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Targeting branched-chain amino acids alleviates pulmonary fibrosis [ATAC-seq]

Project description:Targeting branched-chain amino acids alleviates pulmonary fibrosis [ATAC-seq]

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Targeting branched-chain amino acids alleviates pulmonary fibrosis [RNA-seq]

Project description:Targeting branched-chain amino acids alleviates pulmonary fibrosis [RNA-seq]

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