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Lysine acetylation of aquaporin-3 promotes water reabsorption but is not essential for urine concentration

ABSTRACT: Lysine acetylation of aquaporin-3 promotes water reabsorption but is not essential for urine concentration

PROVIDER: PRJNA1170319 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR30915959_1.fastq.gz	Fastqsanger.gz
	SRR30915959_2.fastq.gz	Fastqsanger.gz
	SRR30915960_1.fastq.gz	Fastqsanger.gz
	SRR30915960_2.fastq.gz	Fastqsanger.gz
	SRR30915961_1.fastq.gz	Fastqsanger.gz

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Lysine acetylation of aquaporin-3 promotes water reabsorption but is not essential for urine concentration

Project description:The current study aimed to decipher the role of previously discovered K282 acetylation of aquaporin-3 (AQP3) in renal water homeostasis. C57BL/6J mice harboring amino acid subsitutions to model lysine acetylation (AQP3 K282Q, termed Q mutant) or deacetylation (AQP3 K282R, termed R mutant) and wild type (WT) controls were used to determine if these mutations affected the kidney transcriptome under ad libitum pelled chow and water (standard housing condictions). Male and female mice were included in the transcriptomic analyses, and all samples were collected between 8-11 am (Zeitgeber 2-5).

2025-02-17 | GSE279083 | GEO

Robustness of urinary extracellular vesicle-derived miRNA profiles over multiple days and the impact of urine concentration

Project description:Urinary extracellular vesicle (EV)-derived microRNAs (miRNAs) have emerged as promising noninvasive biomarkers for disease prediction. However, fluctuations in urine concentration throughout the day may influence miRNA abundance and profiles, potentially limiting their clinical utility. To ensure the broader applicability of urinary miRNAs in disease prediction, it is essential that their profiles remain stable regardless of collection time. In this study, we systematically examined factors influencing urinary miRNA abundance and assessed the stability of miRNA profiles. We collected serial urine samples from healthy individuals over three days, and performed small RNA sequencing to analyze urinary miRNA profiles in relation to various urine concentration parameters. Total miRNA counts were negatively correlated with urine volume and positively correlated with urine concentration indicators, including specific gravity and creatinine levels. miRNA profiles remained stable across different times and days when samples with low miRNA counts were excluded. These findings indicate that urine dilution—primarily due to fluid intake—is a major cause of variation in urinary miRNA abundance. Our results highlight the importance of collecting adequately concentrated samples and provide foundational insights for developing standardized urine collection protocols to enhance the reliability of urinary miRNAs as biomarkers.

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Quantitative proteomics analysis reveals a protein concentration effect of neat urine compared to urine EVs

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Lysine Acetylation Dynamics

Project description:Cultured carcinoma cells were stimulated with growth factors and lysine acetylation and/or tyrosine phosphorylation dynamics were quantified.

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Haloferax volcanii lysine acetylation

Project description:Oxidative stress adaptation strategies are important to cell function and are linked to cardiac, neurodegenerative disease and cancer. Representatives of the domain Archaea are used as model organisms based on their extreme tolerance to oxidants and close evolutionary relationship with eukaryotes. Study of the halophilic archaeon Haloferax volcanii reveals lysine acetylation to be associated with oxidative stress responses. The strong oxidant hypochlorite: i) stimulates an increase in lysine acetyltransferase HvPat2 to HvPat1 abundance ratios and ii) selects for lysine deacetylase sir2 mutants. Here we report the dynamic occupancy of the lysine acetylome of glycerol-grown H. volcanii as it shifts in profile in response to hypochlorite. These findings are revealed by the: 1) quantitative multiplex LC-MS/MS analysis of the SILAC-compatible parent and Δsir2 mutant strains and 2) label free LC-MS/MS analysis of H26 ‘wild type’ cells. The results show that lysine acetylation is associated with key biological processes including DNA topology, central metabolism, cobalamin biosynthesis and translation. Lysine acetylation targets are found conserved across species. Moreover, lysine residues modified by acetylation and ubiquitin-like sampylation are identified suggesting post-translational modification (PTM) crosstalk. Overall, the results of this study expand the current knowledge of lysine acetylation in Archaea, with the long-term goal to provide a balanced evolutionary perspective of PTM systems in living organisms.

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Chromatin immunoprecipitation to map nucleosomes and H3 lysine 14 acetylation in two unrelated strains of yeast

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strawberry leaves lysine acetylation LC-MS/MS

Project description:Protein lysine acetylation is a reversible and dynamic post-translational modification. It plays an important role in regulating diverse cellular processes including chromatin dynamic, metabolic pathways and transcription in both prokaryotes and eukaryotes. Although studies of lysine acetylome on plants have been reported, the throughput was not high enough, hindering the deep understanding of lysine acetylation in plant physiology and pathology. In this study, taking advantages of anti-acetyllysine-based enrichment and high-sensitive-mass spectrometer, we applied an integrated proteomic approach to comprehensively investigate lysine acetylome in strawberry. In total, we identified 1392 acetylation sites in 684 proteins, representing the largest dataset of acetylome in plant to date. To reveal the functional impacts of lysine acetylation in strawberry, intensive bioinformatic analysis was performed. The results significantly expanded our current understanding of plant acetylome and demonstrated that lysine acetylation is involved in multiple cellular metabolism and cellular processes. More interestingly, nearly 50% of all acetylated proteins identified in this work were localized in chloroplast and the vital role of lysine acetylation in photosynthesis was also revealed. Taken together, this study not only established the most extensive lysine acetylome in plants to date, but also systematically suggests the significant and unique roles of lysine acetylation in plants.

2015-10-14 | PXD002758 | Pride

Genome-wide maps of linker histone H1 lysine 85 acetylation in HCT116 cells

Project description:We identify acetylation of linker histone H1 lysine 85 as a novel histone acetylation mark, which regulates chromatin structure and genome stability upon DNA damage. By performing a chromatin immunoprecipitation and deep sequencing assay, we identified the genome-wide distribution patterns of H1 lysine 85 acetylation in HCT116 cells. We found that H1K85ac largely bound intergenic regions (53%) and gene bodies (39%), whereas only 7% H1K85ac bound regions 2 kb upstream of the transcription start sites (TSSs). As the proportion of H1K85ac bound to potential promoter regions was not significantly different to that of the random peaks (~6%), these data suggest that H1K85ac may not be mainly involved in general transcriptional regulation.

2018-04-18 | GSE113238 | GEO

Role of yeast Nup60 lysine 467 acetylation in regulation of transcription

Project description:Role of yeast Nup60 lysine 467 acetylation in regulation of transcription

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HOXB13 lysine 13 acetylation regulated transcriptional targets in castration-resistant prostate cancer

Project description:To understand the mechanistic role of HOXB13 lysine acetylation in CRPC development andd progression, differential gene expression analysis was performed following RNA-sequencing of the HOXB13K13A mutant versus the isogenic parental C4-2B to identify bonafide transcriptional targets of acetylated HOXB13. Chromatin remodeling and self-renewal genes were significantly impacted as a result of HOXB13-K13 mutation. These results suggested that single-site acetylation in HOXB13 is critical and may even be sufficient to promote cellular reprogramming associated with PC pathogenesis.

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