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Chemical proteomic approach for in-depth glycosylation profiling of plasma carcinoembryonic antigen in cancer patients
Mol Cell Proteomics. 2023 Oct 9:100662. doi: 10.1016/j.mcpro.2023.100662. Online ahead of print.ABSTRACTCarcinoembryonic antigen (CEA) of human plasma is a biomarker of many cancer diseases, and its N-glycosylation accounts for 60% of molecular mass. It is highly desirable to characterize its glycoforms for providing additional dimension of features to increase its performance in prognosis and diagnosis of cancers. However, to systematically characterize its site-specific glycosylation is challenging due to its low abundance. Here, we developed a highly sensitive strategy for in-depth glycosylation profiling of plasma CEA ...
Source: Molecular and Cellular Proteomics : MCP - October 11, 2023 Category: Molecular Biology Authors: Jin Chen Lijun Yang Chang Li Luobin Zhang Weina Gao Ruilian Xu Ruijun Tian Source Type: research

Proteomic and phosphoproteomic reprogramming in epithelial ovarian cancer metastasis
Mol Cell Proteomics. 2023 Oct 9:100660. doi: 10.1016/j.mcpro.2023.100660. Online ahead of print.ABSTRACTEpithelial ovarian cancer (EOC) is a high-risk cancer presenting with heterogeneous tumors. The high incidence of EOC metastasis from primary tumors to nearby tissues and organs is a major driver of EOC lethality. We used cellular models of spheroid formation and re-adherence to investigate cellular signaling dynamics in each step toward EOC metastasis. In our system, adherent cells model primary tumors, spheroids formation represents the initiation of metastatic spread, while re-adherent spheroid cells represent seconda...
Source: Molecular and Cellular Proteomics : MCP - October 11, 2023 Category: Molecular Biology Authors: Mallory I Frederick Owen F J Hovey Jenica H Kakadia Trevor G Shepherd Shawn S C Li Ilka U Heinemann Source Type: research

Baldur: Bayesian hierarchical modeling for label-free proteomics exploiting gamma dependent mean-variance trends
Mol Cell Proteomics. 2023 Oct 6:100654. doi: 10.1016/j.mcpro.2023.100658. Online ahead of print.ABSTRACTLabel-free proteomics is a fast-growing methodology to infer abundances in mass spectrometry proteomics. Extensive research has focused on spectral quantification and peptide identification. However, research towards modeling and understanding quantitative proteomics data is scarce. We propose here a Bayesian hierarchical decision model (Baldur) to test for differences in means between conditions for proteins, peptides, and post-translation modifications. We develop a Bayesian regression model to characterize local mean-...
Source: Molecular and Cellular Proteomics : MCP - October 8, 2023 Category: Molecular Biology Authors: Philip Berg George Popescu Source Type: research

Experience-induced remodeling of the hippocampal post-synaptic proteome and phosphoproteome
Mol Cell Proteomics. 2023 Oct 6:100661. doi: 10.1016/j.mcpro.2023.100661. Online ahead of print.ABSTRACTThe postsynaptic density (PSD) of excitatory synapses contains a highly organized protein network with thousands of proteins and is key node in the regulation of synaptic plasticity. To gain new mechanistic insight into experience-induced changes in the PSD, we examined the global dynamics of the hippocampal PSD proteome and phosphoproteome in mice following 4 different types of experience. Mice were trained using an inhibitory avoidance (IA) task and hippocampal PSD fractions were isolated from individual mice to invest...
Source: Molecular and Cellular Proteomics : MCP - October 8, 2023 Category: Molecular Biology Authors: Seok Heo Taewook Kang Alexei M Bygrave Martin R Larsen Richard L Huganir Source Type: research

Higher-order structural organization of the mitochondrial proteome charted by in situ cross-linking mass spectrometry
We describe some of the most recent technological advances in XL-MS that may benefit the in situ characterization of PPIs even further, especially when combined with electron microscopy and structural modelling.PMID:37805037 | DOI:10.1016/j.mcpro.2023.100657 (Source: Molecular and Cellular Proteomics : MCP)
Source: Molecular and Cellular Proteomics : MCP - October 7, 2023 Category: Molecular Biology Authors: Johannes F Hevler Albert J R Heck Source Type: research

Proteomics and β-hydroxybutyrylation Modification Characterization in the Hearts of Naturally Senescent Mice
Mol Cell Proteomics. 2023 Oct 5:100659. doi: 10.1016/j.mcpro.2023.100659. Online ahead of print.ABSTRACTAging is widely accepted as an independent risk factor for cardiovascular disease (CVD), which contributes to increasing morbidity and mortality in the elderly population. Lysine β-hydroxybutyrylation (Kbhb) is a novel post-translational protein modification wherein β-hydroxybutyrate is covalently attached to lysine ε-amino groups. Recent studies have revealed that histone Kbhb contributes to tumor progression, diabetic cardiomyopathy progression, and postnatal heart development. However, no studies have yet reported ...
Source: Molecular and Cellular Proteomics : MCP - October 7, 2023 Category: Molecular Biology Authors: Xuechun Yang Xuehui Li Na Yu Rong Yan Yan Sun Congmin Tang Wenjing Ding Mingying Ling Yiping Song Haiqing Gao Wenjuan Gao Junchao Feng Shaopeng Wang Zhen Zhang Yanqiu Xing Source Type: research

The role of serine/threonine-specific protein kinases in cyanobacteria - SpkB is involved in acclimation to fluctuating conditions in Synechocystis sp. PCC 6803
Mol Cell Proteomics. 2023 Oct 3:100656. doi: 10.1016/j.mcpro.2023.100656. Online ahead of print.ABSTRACTProtein phosphorylation via serine/threonine protein kinases (Spk) is a widespread mechanism to adjust cellular processes toward changing environmental conditions. To study their role(s) in cyanobacteria, we investigated a collection of 11 completely segregated spk mutants among the 12 annotated Spk's in the model cyanobacterium Synechocystis sp. PCC 6803. Screening of the mutant collection revealed that especially the mutant defective in SpkB encoded by slr1697 showed clear deviations regarding carbon metabolism, i.e., ...
Source: Molecular and Cellular Proteomics : MCP - October 5, 2023 Category: Molecular Biology Authors: Thomas Barske Philipp Sp ät Hendrik Schubert Peter Walke Boris Ma ček Martin Hagemann Source Type: research