Posttranslational modifications: an emerging functional layer of diet-host-microbe interactions DOI Creative Commons

Lirit Duchovni,

Genrieta Shmunis,

Lior Lobel

et al.

mBio, Journal Year: 2024, Volume and Issue: unknown

Published: Sept. 10, 2024

ABSTRACT The microbiome plays a vital role in human health, with changes its composition impacting various aspects of the body. Posttranslational modification (PTM) regulates protein activity by attaching chemical groups to amino acids an enzymatic or non-enzymatic manner. PTMs offer fast and dynamic regulation expression can be influenced specific dietary components that induce PTM events gut microbiomes their hosts. on proteins have been found contribute host-microbe interactions. For example, Escherichia coli , S-sulfhydration tryptophanase uremic toxin production chronic kidney disease mice. On broader microbial scale, patients inflammatory bowel exhibit distinct patterns metaproteomes. Moreover, pathogens commensals alter host profiles through secretion diet-regulated metabolic shifts. emerging field metaPTMomics focuses understanding microbiota, association lifestyle factors like diet, functional effects

Language: Английский

Mitochondrial proteome research: the road ahead DOI
Zakery N. Baker, Patrick Forny, David J. Pagliarini

et al.

Nature Reviews Molecular Cell Biology, Journal Year: 2023, Volume and Issue: 25(1), P. 65 - 82

Published: Sept. 29, 2023

Language: Английский

Citations

27
Regulation of newly identified lysine lactylation in cancer DOI
Xin Gao,

Chaoyu Pang,

Zhiyao Fan

et al.

Cancer Letters, Journal Year: 2024, Volume and Issue: 587, P. 216680 - 216680

Published: Feb. 10, 2024

Language: Английский

Citations

15
Current Technologies Unraveling the Significance of Post-Translational Modifications (PTMs) as Crucial Players in Neurodegeneration DOI Creative Commons
Saima Zafar,

Shehzadi Irum Fatima,

Matthias Schmitz

et al.

Biomolecules, Journal Year: 2024, Volume and Issue: 14(1), P. 118 - 118

Published: Jan. 16, 2024

Neurodegenerative disorders, such as Parkinson’s disease, Alzheimer’s and Huntington’s are identified characterized by the progressive loss of neurons neuronal dysfunction, resulting in cognitive motor impairment. Recent research has shown importance PTMs, phosphorylation, acetylation, methylation, ubiquitination, sumoylation, nitration, truncation, O-GlcNAcylation, hydroxylation, progression neurodegenerative disorders. PTMs can alter protein structure function, affecting stability, localization, interactions, enzymatic activity. Aberrant lead to misfolding aggregation, impaired degradation, clearance, ultimately, dysfunction death. The main objective this review is provide an overview involved neurodegeneration, their underlying mechanisms, methods isolate potential therapeutic targets for these discussed article include tau α-synuclein Huntingtin histone acetylation RNA modifications. Understanding role diseases may new strategies devastating

Language: Английский

Citations

12
Monitoring Functional Posttranslational Modifications Using a Data‐Driven Proteome Informatic Pipeline DOI Creative Commons
Payman Nickchi, Uladzislau Vadadokhau, Mehdi Mirzaie

et al.

PROTEOMICS, Journal Year: 2025, Volume and Issue: unknown

Published: March 18, 2025

ABSTRACT Posttranslational modifications (PTMs) are of significant interest in molecular biomedicine due to their crucial role signal transduction across various cellular and organismal processes. Characterizing PTMs, distinguishing between functional inert modifications, quantifying occupancies, understanding PTM crosstalk challenging tasks any biosystem. Studying each often requires a specific, labor‐intensive experimental design. Here, we present PTM‐centric proteome informatic pipeline for predicting relevant PTMs mass spectrometry‐based proteomics data without prior information. Once predicted, these silico identified can be incorporated into refined database search compared measured data. As practical application, demonstrate how this used study glycoproteomics oral squamous cell carcinoma based on the profile primary tumors. Subsequently, experimentally proteins that differentially expressed cells treated with multikinase inhibitors dasatinib staurosporine using proteomics. Computational enrichment analysis was then employed determine potential induced by both drugs. Finally, conducted an additional round predicted PTMs. Our successfully analyzed enriched detected not initial search. findings support effectiveness searching MS computational analysis, propose integrating approach future engines.

Language: Английский

Citations

1
Betaine alleviates spermatogenic cells apoptosis of oligoasthenozoospermia rat model by up-regulating methyltransferases and affecting DNA methylation DOI
Qiyan Lin, Xiyu Ge, Leilei Gao

et al.

Phytomedicine, Journal Year: 2024, Volume and Issue: 129, P. 155713 - 155713

Published: May 6, 2024

Language: Английский

Citations

7
Post‐translational modifications of proteins in cardiovascular diseases examined by proteomic approaches DOI Creative Commons
Miroslava Št́astná

FEBS Journal, Journal Year: 2024, Volume and Issue: unknown

Published: March 5, 2024

Over 400 different types of post‐translational modifications (PTMs) have been reported and over 200 various PTMs discovered using mass spectrometry (MS)‐based proteomics. MS‐based proteomics has proven to be a powerful method capable global PTM mapping with the identification modified proteins/peptides, localization sites quantitation. play regulatory roles in protein functions, activities interactions heart related diseases, such as ischemia/reperfusion injury, cardiomyopathy failure. The recognition that are specific cardiovascular pathology clarification mechanisms underlying these at molecular levels crucial for discovery novel biomarkers application clinical setting. With sensitive MS instrumentation biostatistical methods precise processing data, low‐abundance can successfully detected beneficial or unfavorable effects on cardiac function determined. Moreover, computational proteomic strategies predict based data gained an increasing interest contribute characterization profiles disorders. More recently, machine learning‐ deep learning‐based employed locations explore crosstalk. In this review article, briefly overviewed, approaches identification/quantitation discussed recently published studies associated diseases included.

Language: Английский

Citations

6
A review of intact glycopeptide enrichment and glycan separation through hydrophilic interaction liquid chromatography stationary phase materials DOI
Saima Rafique, Shuang Yang, Muhammad Sajid

et al.

Journal of Chromatography A, Journal Year: 2024, Volume and Issue: 1735, P. 465318 - 465318

Published: Aug. 31, 2024

Language: Английский

Citations

6
Recent Advances in Mass Spectrometry-Based Structural Elucidation Techniques DOI Creative Commons
Xin Ma

Molecules, Journal Year: 2022, Volume and Issue: 27(19), P. 6466 - 6466

Published: Sept. 30, 2022

Mass spectrometry (MS) has become the central technique that is extensively used for analysis of molecular structures unknown compounds in gas phase. It manipulates molecules by converting them into ions using various ionization sources. With high-resolution MS, accurate weights (MW) intact can be measured so they assigned a formula with high confidence. Furthermore, application tandem MS enabled detailed structural characterization breaking and protonated or deprotonated key fragment ions. This approach not only elucidation small (MW < 2000 Da), but also crucial biopolymers such as proteins polypeptides; therefore, been multiomics studies revealing functions important biomolecules their interactions each other. The sensitivity low-level analytes complex matrices. versatile coupled separation techniques, including chromatography ion mobility, many other analytical instruments NMR. In this review, we aim to focus on technical advances MS-based methods over past five years, provide an overview applications mixture analysis. We hope review interest wide range audiences who may have extensive experience techniques.

Language: Английский

Citations

21
Mass Spectrometry–Based Proteogenomics: New Therapeutic Opportunities for Precision Medicine DOI
Sunil K. Joshi, Paul Piehowski, Tao Liu

et al.

The Annual Review of Pharmacology and Toxicology, Journal Year: 2023, Volume and Issue: 64(1), P. 455 - 479

Published: Sept. 22, 2023

Proteogenomics refers to the integration of comprehensive genomic, transcriptomic, and proteomic measurements from same samples with goal fully understanding regulatory processes converting genotypes phenotypes, often an emphasis on gaining a deeper disease processes. Although specific genetic mutations have long been known drive development multiple cancers, gene alone do not always predict prognosis or response targeted therapy. The benefit proteogenomics research is that information obtained proteins their corresponding pathways provides insight into therapeutic targets can complement genomic by providing additional dimension regarding underlying mechanisms pathophysiology tumors. This review describes novel insights tumor biology drug resistance derived proteogenomic analysis while highlighting clinical potential observations advances in technique tools.

Language: Английский

Citations

12
The role of proteomics in acute pancreatitis: new and old knowledge DOI Creative Commons
Peng Ge, Yalan Luo, Guixin Zhang

et al.

Expert Review of Proteomics, Journal Year: 2024, Volume and Issue: 21(1-3), P. 115 - 123

Published: Feb. 19, 2024

Introduction Around 20% of individuals diagnosed with acute pancreatitis (AP) may develop severe (SAP), possibly resulting in a mortality rate ranging from 15% to 35%. There is an urgent need thoroughly understand the molecular phenotypes SAP diverse etiologies. The field translational research on AP has seen use several innovative proteomic methodologies via ongoing improvement isolation, tagging, and quantification methods.

Language: Английский

Citations

4