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Systematic optimization of automated phosphopeptide enrichment for high-sensitivity phosphoproteomics
Mol Cell Proteomics. 2024 Mar 26:100754. doi: 10.1016/j.mcpro.2024.100754. Online ahead of print.ABSTRACTImproving coverage, robustness and sensitivity is crucial for routine phosphoproteomics analysis by single-shot liquid chromatography tandem mass spectrometry (LC-MS/MS) from minimal peptide inputs. Here, we systematically optimized key experimental parameters for automated on-beads phosphoproteomics sample preparation with focus on low input samples. Assessing the number of identified phosphopeptides, enrichment efficiency, site localization scores and relative enrichment of multiply-phosphorylated peptides pinpointed ...
Source: Molecular and Cellular Proteomics : MCP - March 28, 2024 Category: Molecular Biology Authors: Patricia Bortel Ilaria Piga Claire Koenig Christopher Gerner Ana Martinez-Val Jesper V Olsen Source Type: research

Protein interaction map of APOBEC3 enzyme family reveals deamination-independent role in cellular function
Mol Cell Proteomics. 2024 Mar 26:100755. doi: 10.1016/j.mcpro.2024.100755. Online ahead of print.ABSTRACTHuman APOBEC3 enzymes are a family of single-stranded (ss)DNA and RNA cytidine deaminases that act as part of the intrinsic immunity against viruses and retroelements. These enzymes deaminate cytosine to form uracil which can functionally inactivate or cause degradation of viral or retroelement genomes. In addition, APOBEC3s have deamination independent antiviral activity through protein and nucleic acid interactions. If expression levels are misregulated, some APOBEC3 enzymes can access the human genome leading to deam...
Source: Molecular and Cellular Proteomics : MCP - March 28, 2024 Category: Molecular Biology Authors: Gwendolyn M Jang Arun Kumar Annan Sudarsan Arzhang Shayeganmehr Erika Prando Munhoz Reanna Lao Amit Gaba Milaid Granadillo Rodr íguez Robin P Love Benjamin J Polacco Yuan Zhou Nevan J Krogan Robyn M Kaake Linda Chelico Source Type: research

Quantification of adaptive immune responses against protein binding interfaces in the streptococcal M1 protein
In conclusion, this study demonstrates that AP-MS is a promising strategy to determine the relationship between antigen-specific antibodies and host-pathogen interaction networks that could be used to define subdominant protein regions of relevance for vaccine development.PMID:38527648 | DOI:10.1016/j.mcpro.2024.100753 (Source: Molecular and Cellular Proteomics : MCP)
Source: Molecular and Cellular Proteomics : MCP - March 25, 2024 Category: Molecular Biology Authors: E Torres-Sangiao L Happonen M Heusel F Palm C Gueto-Tettay L Malmstr öm O Shannon J Malmstr öm Source Type: research

High-throughput antigen microarray identifies longitudinal prognostic autoantibody for chemoimmunotherapy in advanced non-small cell lung cancer
Mol Cell Proteomics. 2024 Mar 19:100749. doi: 10.1016/j.mcpro.2024.100749. Online ahead of print.ABSTRACTChemoimmunotherapy has evolved as a standard treatment for advanced non-small cell lung cancer (aNSCLC). However, inevitable drug resistance has limited its efficacy, highlighting the urgent need for biomarkers of chemoimmunotherapy. A three-phase strategy to discover, verify, and validate longitudinal predictive autoantibodies (AAbs) for aNSCLC before and after chemoimmunotherapy was employed. A total of 528 plasma samples from 267 aNSCLC patients before and after anti-PD1 immunotherapy were collected, plus 30 independ...
Source: Molecular and Cellular Proteomics : MCP - March 21, 2024 Category: Molecular Biology Authors: Liyuan Dai Qiaoyun Tan Lin Li Ning Lou Cuiling Zheng Jianliang Yang Liling Huang Shasha Wang Rongrong Luo Guangyu Fan Tongji Xie Jiarui Yao Zhishang Zhang Le Tang Yuankai Shi Xiaohong Han Source Type: research

An automated and fast sample preparation workflow for laser microdissection guided ultrasensitive proteomics
Mol Cell Proteomics. 2024 Mar 19:100750. doi: 10.1016/j.mcpro.2024.100750. Online ahead of print.ABSTRACTSpatial tissue proteomics integrating whole-slide imaging, laser microdissection and ultrasensitive mass spectrometry is a powerful approach to link cellular phenotypes to functional proteome states in (patho)physiology. To be applicable to large patient cohorts and low sample input amounts, including single-cell applications, loss-minimized and streamlined end-to-end workflows are key. We here introduce an automated sample preparation protocol for laser microdissected samples utilizing the cellenONE® robotic system, w...
Source: Molecular and Cellular Proteomics : MCP - March 21, 2024 Category: Molecular Biology Authors: Anuar Makhmut Di Qin David Hartlmayr Anjali Seth Fabian Coscia Source Type: research

Proteomic Profiling of Muscular Adaptations to Short-term Concentric vs. Eccentric Exercise Training in Humans
In conclusion, the four-week concentric- and eccentric training resulted in distinctly different proteomic profiles, especially in proteins related to muscular structure and metabolism.PMID:38493954 | DOI:10.1016/j.mcpro.2024.100748 (Source: Molecular and Cellular Proteomics : MCP)
Source: Molecular and Cellular Proteomics : MCP - March 17, 2024 Category: Molecular Biology Authors: Jiawei Du Hezhang Yun Hongsheng Wang Xin Bai Yuhui Su Xiaochuan Ge Yang Wang Boya Gu Li Zhao Ji-Guo Yu Yafeng Song Source Type: research