Dissecting the different steps of the processing and presentation of tumor-associated antigens is a key aspect of immunotherapies enabling to tackle the immune response evasion attempts of cancer cells. The immunodominant glycoprotein gp100 epitope, which is liberated from the melanoma differentiation antigen gp100 , is part of immunotherapy trials. By analyzing different human melanoma cell lines, we here demonstrate that a pool of N-terminal extended peptides sharing the common minimal epitope is generated by melanoma proteasome subtypes. In vitro and in cellulo experiments indicate that ER-resident aminopeptidase 1 (ERAP1)-but not ERAP2-defines the processing of this peptide pool thereby modulating the T-cell recognition of melanoma cells. By combining the outcomes of our studies and others, we can sketch the complex processing and endogenous presentation pathway of the gp100 -containing epitope/peptides, which are produced by proteasomes and are translocated to the vesicular compartment through different pathways, where the precursor peptides that reach the endoplasmic reticulum are further processed by ERAP1. The latter step enhances the activation of epitope-specific T lymphocytes, which might be a target to improve the efficiency of anti-melanoma immunotherapy.
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http://dx.doi.org/10.1002/eji.201948116 | DOI Listing |
Mol Biol Cell
January 2025
Interdisciplinary Graduate Program in Genetics, University of Iowa, Iowa City, IA.
Asymmetric cell division (ACD) allows daughter cells of a polarized mother to acquire different developmental fates. In , the Wnt/β-catenin Asymmetry (WβA) pathway regulates many embryonic and larval ACDs; here, a Wnt gradient induces an asymmetric distribution of Wnt signaling components within the dividing mother cell. One terminal nuclear effector of the WβA pathway is the transcriptional activator SYS-1/β-catenin.
View Article and Find Full Text PDFJ Speech Lang Hear Res
January 2025
Centre for Language Studies, Radboud University, Nijmegen, the Netherlands.
Purpose: In this review article, we present an extensive overview of recent developments in the area of dysarthric speech research. One of the key objectives of speech technology research is to improve the quality of life of its users, as evidenced by the focus of current research trends on creating inclusive conversational interfaces that cater to pathological speech, out of which dysarthric speech is an important example. Applications of speech technology research for dysarthric speech demand a clear understanding of the acoustics of dysarthric speech as well as of speech technologies, including machine learning and deep neural networks for speech processing.
View Article and Find Full Text PDFMethods Mol Biol
January 2025
NMR Laboratory, Chemistry Department, University of Crete, Heraklion, Crete, Greece.
High Resolution-Magic Angle Spinning (HR-MAS) solid-state NMR spectroscopy is finding increasing application in the analysis of solid foods, bypassing the need for complicated solvent extraction procedures. In the present protocol, we report a simple analytical approach based on HR-MAS NMR spectroscopy for the phenolic profiling of olive fruits, flesh, or skin. This approach allows the facile characterization of phenolic compounds in olive fruits cultivated for extra-virgin olive oil production as a function of maturation and variety, in addition to processing technology for table olives.
View Article and Find Full Text PDFMethods Mol Biol
January 2025
Department of Medicine and Surgery, Proteomics and Metabolomics Unit, University of Milano-Bicocca, Vedano al Lambro, Italy.
Trapped ion mobility spectrometry (TIMS) using parallel accumulation serial fragmentation (PASEF) is an advanced analytical technique that offers several advantages in mass spectrometry (MS)-based lipidomics. TIMS provides an additional dimension of separation to mass spectrometry and accurate collision cross-section (CCS) measurements for ions, aiding in the structural characterization of molecules. This is especially valuable in lipidomics for identifying and distinguishing isomeric or structurally similar compounds.
View Article and Find Full Text PDFMethods Mol Biol
January 2025
Institute for Biomedicine, Eurac Research, Bolzano, Italy.
Metabolomics data analysis includes, next to the preprocessing, several additional repetitive tasks that can however be heavily dataset dependent or experiment setup specific due to the vast heterogeneity in instrumentation, protocols, or also compounds/samples that are being measured. To address this, various toolboxes and software packages in Python or R have been and are being developed providing researchers and analysts with bioinformatic/chemoinformatic tools to create their own workflows tailored toward their specific needs. This chapter presents tools and example workflows for common tasks focusing on the functionality provided by R packages developed as part of the RforMassSpectrometry initiative.
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