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TranscriptomicsAdaptive evolution of Corynebacterium glutamicum resistant to oxidative stress and its global gene expression profiling
Corynebacterium glutamicum was adapted in a chemostat for 1,900 h with gradually increasing H2O2 stress to understand the oxidative stress response of an industrial host. After 411 generations of adaptation, C. glutamicum developed the ability to grow under stress of 10 mM H2O2, whereas the wild-typ...
ORGANISM(S): Corynebacterium glutamicum ATCC 13032 
2013-01-06 | E-GEOD-41232 | biostudies-arrayexpress
TranscriptomicsChromatin structure changes upon oxidative stress or UV irradiation in the yeast Saccharomyces cerevisiae
Development of molecular approaches based on chromosome conformation capture (3C) technology such as Hi-C, combined with methods for modeling and interpreting chromatin interaction data, have revolutionized the analysis of chromosome folding. Even if the impact of chromatin structure on gene express...
ORGANISM(S): Saccharomyces cerevisiae 
2020-12-20 | E-MTAB-5825 | biostudies-arrayexpress
ProteomicsOxidative modifications of urinary proteins increase kidney stone risk
Clinical and animal studies have demonstrated the increasing evidence of oxidative stress in kidney stone disease. Recent findings have shown that the interactions between calcium oxalate (CaOx) crystals and renal tubular cells can promote many cellular events such as cell proliferation, cell death,...
ORGANISM(S): Homo sapiens (Human) 
2021-11-03 | PXD019360 | Pride
Calcium oxalate  kidney stone  oxidative stress  post-translation modification  uromodulin 
ProteomicsVRK1 regulates sensitivity to oxidative stress by altering the nuclear phosphoproteome and histone epigenetic modifications
Chromatin organization and its dynamic remodeling determine its accessibility and sensitivity to DNA damage. The major source of endogenous DNA damage is oxidative stress. We studied the role of the VRK1 chromatin kinase in the response to oxidative stress, which alters the nuclear phosphoproteome a...
ORGANISM(S): Homo sapiens (Human) 
2024-05-24 | PXD040944 | Pride
Methylation Acetylation Nuclear proteins Vrk1 Oxidative stress Phosphoproteomics Chromatin 
ProteomicsNAIA for cysteine profiling in HepG2 cells, protein target identification of covalent ligand and studying cysteine oxidative modifications
New cysteine probes, N-acryloylindole-alkynes (NAIAs), have been developed. We have applied NAIA-5 for cysteine profiling in HepG2 cell lysates, and the results have been compared to the conventional cysteine probe iodoacetamide-alkyne (IAA). NAIA-5 allows identification of more ligandable Cys than ...
ORGANISM(S): Homo sapiens (Human) 
2023-06-14 | PXD041264 | Pride
Profiling ligandable cysteines and studying cysteine oxidative modifications in human liver cancer cells hepg2 by naia-5 using bruker timstof ms 
ProteomicsProteome-wide mapping of early events connected to oxidative stress in Arabidopsis
Changes in environmental conditions are associated with the fast accumulation of reactive oxygen species, which may rapidly generate an oxidative environment. For efficient survival, plants respond by rapid changes in protein turnover, gene expression and posttranslational protein modifications. For...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2024-01-26 | PXD038495 | Pride
Fsd1 mutants Arabidsopsis Oxidative stress Orbitrap 
ProteomicsDynamic 23S rRNA modification ho5C2501 benefits Escherichia coli under oxidative stress
Post-transcriptional modifications are added to ribosomal RNAs (rRNAs) to govern ribosome biogenesis and to fine-tune protein biosynthesis. RlhA, a dedicated modification enzyme, adds a unique 5-hydroxycytidine (ho5C) at 23S rRNA position 2501 in E. coli and related bacteria. However, the molecular ...
ORGANISM(S): Escherichia coli 
2022-02-16 | PXD025875 | Pride
E. coli Ribosome Dps Oxidative stress Rlha Rna modifications 
ProteomicsOxygen-confined photooxidation represents a novel form of oxidative protein damage
Oxidative modifications can disrupt protein folds and functions, and are strongly associated with human aging and diseases. Conventional oxidation pathways typically involve the free diffusion of reactive oxygen species (ROS), which primarily attack the protein surface. Yet, it remains unclear wheth...
ORGANISM(S): Homo Sapiens (human) Escherichia Coli 
2024-11-27 | PXD056895 | JPOST Repository
ProteomicsS.cerevisiae - Whole organism, SC (Silvaetal,natstructmolbiol,2015)
abundance based on Spectral counting, Interaction consistency score: 5.8, Coverage: 10
ORGANISM(S): 4932 
2015-00-00 | 743986671 | PAXDB
ProteomicsOxidative posttranslational modifications of cysteine are associated to high intrinsic aerobic capacity in the skeletal and cardiac muscle
Oxidative posttranslational modifications (Ox-PTMs) regulate cellular homeostasis in several tissues, including skeletal and cardiac muscles. The putative relationship between Ox-PTMs and intrinsic components of oxidative energy metabolism has not been previously described. We determined the metabol...
ORGANISM(S): Rattus norvegicus (Rat) 
2019-11-12 | PXD009109 | Pride
Heart Ox-ptm Mdh1 Redox proteomics Exercise Icat Mitochondria Cysteine Cardiac Aerobic Skeleta Oxidation Oxidative stress Posttranslational modifications Muscle 
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