Article
Chemistry, Analytical
Deseree J. Reid, Tapasyatanu Dash, Zhihan Wang, Craig A. Aspinwall, Michael T. Marty
Summary: In this study, native mass spectrometry (MS) and fast photochemical oxidation of peptides (FPOP) were used to investigate the interactions between the antibiotic daptomycin and different lipid bilayer nanodiscs. The results showed that daptomycin incorporates randomly into bilayers and has stronger interactions with rigid membranes. Pore formation may occur in fluid membranes, exposing daptomycin to oxidation. These findings demonstrate the complementarity of native MS, FPOP, and membrane conductance experiments in understanding antibiotic peptide-membrane interactions.
ANALYTICAL CHEMISTRY
(2023)
Article
Biochemical Research Methods
Ahmed M. M. Abdel-Megied, Isaac A. A. Monreal, Limian Zhao, Alex Apffel, Hector C. C. Aguilar, Jace W. W. Jones
Summary: Emerging and re-emerging zoonotic viral diseases, particularly enveloped viruses like SARS-CoV-2, have a significant impact on public health. The lipid composition of the viral envelope and changes in host cell lipid metabolism during viral infection provide an opportunity to understand how these viruses infect cells. In this study, the lipid composition of VeroE6-TMPRSS2 cells infected with SARS-CoV-2 was characterized, with a focus on the ceramide to sphingomyelin ratio. This lipid profile can help in the development of antiviral strategies and vaccines.
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
(2023)
Article
Food Science & Technology
Rachana M. Gangadhara, Siddabasave Gowda B. Gowda, Divyavani Gowda, Ken Inui, Shu-Ping Hui
Summary: This study used HPLC/LTQ-Orbitrap-MS to comprehensively profile and compare the lipids in six different cultivars of beans. The results showed that soybean-Fukuyutaka 2021 and 2022 cultivars had the highest ratio of polyunsaturated fatty acids to saturated fatty acids, which is the most beneficial for health. Furthermore, new lipids such as acyl sterol glycosides were detected and characterized in these bean cultivars. This study indicates the potential nutritional evaluation and functional food value of lipids in beans.
Article
Geosciences, Multidisciplinary
Julia Schmale, Andrea Baccarini
Summary: New particle formation and growth play a crucial role in providing cloud condensation nuclei for the Arctic atmosphere, influencing cloud formation and the Arctic energy budget. Beck et al. shed light on the complex processes of NPF and growth at Arctic locations, revealing diverse chemical drivers and sources across the region. Further studies are needed to gain a systematic understanding of NPF and growth in various Arctic environments throughout all seasons.
GEOPHYSICAL RESEARCH LETTERS
(2021)
Article
Biochemical Research Methods
Julia A. Townsend, Michael T. Marty
Summary: Membrane proteins often form functional complexes in lipid bilayers, making it difficult to characterize their oligomerization. However, using native mass spectrometry combined with lipid nanodiscs, it is possible to study the oligomeric state distribution and lipid preferences of these complexes. This study presents a novel data analysis method using macromolecular mass defect analysis to interpret complex spectra. It also discusses the limitations and strategies to resolve ambiguities, along with recent research on antimicrobial peptides, amyloid proteins, and viroporins in lipid membranes.
Article
Biochemistry & Molecular Biology
Shunji Kato, Yusuke Osuka, Saoussane Khalifa, Takashi Obama, Hiroyuki Itabe, Kiyotaka Nakagawa
Summary: This study developed novel analytical methods using LC-MS/MS to determine the peroxidation mechanisms of plasma lipoproteins in healthy subjects, revealing that PC 16:0/18:2;9OOH, PC 16:0/18:2;13OOH, CE 18:2;9OOH, and CE 18:2;13OOH are the predominant isomers indicating radical and/or enzymatic oxidation. Insights gained from this study could potentially contribute to a more effective suppression of oxidative stress in the human body.
Review
Nutrition & Dietetics
Jiudan Zhang, Yang Zheng, Lisa Martens, Andreas F. H. Pfeiffer
Summary: Glucagon has a broad role in metabolism, affecting glucose, amino acids, and lipid metabolism. Its secretion is regulated by nutrient intake, especially amino acids, and non-nutrient components. Recent research has shown the positive impact of glucagon agonists on lipid metabolism and energy homeostasis. The interaction between glucagon and other hormones, as well as the dysregulation of glucagon secretion in diseases like type 2 diabetes, is examined.
Article
Food Science & Technology
Xin Wang, Yuning Chen, Yue Liu, Lei Ouyang, Ruonan Yao, Zhihui Wang, Yanping Kang, Liying Yan, Dongxin Huai, Huifang Jiang, Yong Lei, Boshou Liao
Summary: The spatial distribution of lipids and other key components in three peanut cultivars was investigated using the MALDI-MSI technique. The study revealed a non-homogeneous spatial distribution of metabolites, which is related to the different functions of particular tissue regions. These findings have implications for the development of oil crops with higher oil yields and improvement of food processing.
Article
Biochemistry & Molecular Biology
Nathan Kattapuram, Christine Zhang, Muhammed S. Muyyarikkandy, Chaitra Surugihalli, Vaishna Muralidaran, Tabitha Gregory, Nishanth E. Sunny
Summary: Research indicates that diets rich in fats and carbohydrates exacerbate non-alcoholic fatty liver disease (NAFLD) and cause mitochondrial dysfunction. It is suggested that high-fat and high-carbohydrate diets may affect mitochondrial oxidative remodeling differently. The high fructose-driven 'lipogenic' environment could induce hepatic oxidative function, potentially influencing the severity of hepatic insulin resistance.
Article
Chemistry, Multidisciplinary
Louis J. Sparvero, Hua Tian, Andrew A. Amoscato, Wan-Yang Sun, Tamil S. Anthonymuthu, Yulia Y. Tyurina, Oleksandr Kapralov, Sabzali Javadov, Rong-Rong He, Simon C. Watkins, Nicholas Winograd, Valerian E. Kagan, Hulya Bayir
Summary: Using gas cluster ion beam secondary ion mass spectrometry (GCIB-SIMS) imaging, peroxidized phosphatidylethanolamine (PEox) could be mapped with high spatial resolution in ferroptotic cardiomyocytes and neurons after traumatic brain injury, revealing their accumulation at very low physiological levels in subcellular compartments.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2021)
Article
Chemistry, Analytical
Lorenzo Vannoni, Silvia Pizzimenti, Giulia Caroti, Jacopo La Nasa, Celia Duce, Ilaria Bonaduce
Summary: In this study, a methodological approach for investigating the molecular features of oil paint layers upon curing was implemented using a simplified model of oil binder. Various mass spectrometric techniques were used to analyse the compounds produced during natural aging, revealing the crucial differences in stability between paint layers containing different pigments, particularly related to the cross-linked fraction.
MICROCHEMICAL JOURNAL
(2022)
Article
Chemistry, Multidisciplinary
Beibei Wang, D. Peter Tieleman
Summary: Electrospray ionization (ESI) is essential for mass spectrometry in biological systems, but the mechanism of ESI is not well understood, leading to ambiguity in mass spectra interpretation. This study focuses on lipid nanodiscs in complex biological systems and uses molecular dynamics simulations to investigate the release of nanodiscs in ESI. Two major scenarios were observed, providing insights into the diversity of gaseous product ions and improving the interpretation of mass spectra in lipid-protein systems.
COMMUNICATIONS CHEMISTRY
(2023)
Article
Pharmacology & Pharmacy
Shuai Guo, Kening Li, Yanwen Chen, Bin Li
Summary: This study developed a highly efficient sample preparation technique, laser-assisted chemical transfer (LACT), to enhance the detection sensitivity of CNS drugs in brain tissues. By minimizing ionization competition/suppression and removing abundant endogenous lipid and protein components, LACT successfully visualized the regional distribution patterns of multiple CNS drugs in mouse brains.
ACTA PHARMACEUTICA SINICA B
(2022)
Review
Biochemistry & Molecular Biology
Helena Beatriz Ferreira, Tania Melo, Artur Paiva, Maria do Rosario Domingues
Summary: Rheumatoid arthritis is a chronic inflammatory autoimmune disease most prevalent in women, where oxidative stress and lipid peroxidation play a role in its development and pathogenesis. Lipid metabolism and changes in the lipoprotein profile are common in RA, contributing to cardiovascular diseases and a chronic inflammatory environment.
Article
Chemistry, Multidisciplinary
Fangxu Sun, Suttipong Suttapitugsakul, Ronghu Wu
Summary: The cell plasma membrane is crucial for information transfer between inside and outside of cells, surface glycoprotein interactions are important in extracellular events, aberrant protein interactions are correlated with diseases. By integrating chemical crosslinking, enzymatic reaction, and MS-based proteomics, a comprehensive understanding of cell surface protein interactions can be achieved, leading to the construction of a surfaceome interaction network.
Article
Chemistry, Multidisciplinary
Di Wu, Manman Guo, Carol V. Robinson
Summary: Understanding the impact of genetic variations and post-translational modifications on protein interactions is made possible by using native mass spectrometry (MS). In this study, we characterized the proteoforms of plasma serine protease inhibitors and found that different fucosylation linkages have opposing effects on protein interactions.
Article
Chemistry, Analytical
Deseree J. Reid, Tapasyatanu Dash, Zhihan Wang, Craig A. Aspinwall, Michael T. Marty
Summary: Daptomycin is a cyclic lipopeptide antibiotic that interacts with lipid membranes in a non-specific manner. The interaction strength depends on membrane rigidity, with more rigid membranes showing stronger interactions. More fluid membranes may undergo pore formation to expose daptomycin to oxidation. These findings highlight the complementary use of native mass spectrometry, fast photochemical oxidation of peptides, and membrane conductance experiments in studying antibiotic-membrane interactions.
ANALYTICAL CHEMISTRY
(2023)
Article
Chemistry, Multidisciplinary
Tarick J. El-Baba, Corinne A. Lutomski, Sean A. Burnap, Jani R. Bolla, Lindsay A. Baker, Andrew J. Baldwin, Weston B. Struwe, Carol V. Robinson
Summary: In this study, the impact of glycans on mediating ACE2 dimerization and interactions with Spike was investigated. The researchers found that glycans play a regulatory role in ACE2 dimerization and that positive cooperativity drives ACE2 to complex with multiple Spike trimers. These findings are important for developing strategies to neutralize the virus.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2023)
Article
Biochemical Research Methods
Henry M. Sanders, Farzaneh Chalyavi, Caitlyn R. Fields, Marius M. Kostelic, Ming-Hao Li, Daniel P. Raleigh, Martin T. Zanni, Michael T. Marty
Summary: The aggregation of islet amyloid polypeptide (IAPP) is associated with beta-cell dysfunction in type 2 diabetes (T2D) in humans. The interaction of IAPP oligomers with lipid membranes can disrupt the bilayer integrity and/or homeostasis of the cell. Amino acid sequence variations of IAPPs between species can greatly decrease their propensity for aggregation.
JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
(2023)
Correction
Biochemistry & Molecular Biology
Rei Matsuoka, Roman Fudim, Sukkyeong Jung, Chenou Zhang, Andre Bazzone, Yurie Chatzikyriakidou, Carol V. Robinson, Norimichi Nomura, So Iwata, Michael Landreh, Laura Orellana, Oliver Beckstein, David Drew
NATURE STRUCTURAL & MOLECULAR BIOLOGY
(2023)
Review
Pharmacology & Pharmacy
Hsin-Yung Yen, Ali Jazayeri, Carol Robinson
Summary: GPCRs are important drug targets due to their involvement in physiological processes. Mass spectrometry techniques, such as HDX-MS and native-MS, provide opportunities to investigate GPCR pharmacology and discover new drugs. This review highlights the potential of MS techniques for in-depth investigations of GPCR biology.
PHARMACOLOGICAL REVIEWS
(2023)
Article
Multidisciplinary Sciences
Gabriela Dias Noske, Yun Song, Rafaela Sachetto Fernandes, Rod Chalk, Haitem Elmassoudi, Lizbe Koekemoer, C. David J. Owen, Tarick V. El-Baba, Carol Robinson, Glaucius Oliva, Andre Schutzer Godoy
Summary: The main protease of SARS-CoV-2, M-pro, is responsible for cleaving the viral polyprotein and is crucial for enzyme dimerization and activity. N-terminal cleavage is not critical for dimerization, and different types of inhibitors can affect the oligomeric states. This study provides insights into the maturation process of M-pro and how it can be targeted by inhibitors.
NATURE COMMUNICATIONS
(2023)
Article
Biochemical Research Methods
Kenneth R. R. Durbin, Matthew T. T. Robey, Lilien N. N. Voong, Ryan T. T. Fellers, Corinne A. A. Lutomski, Tarick J. J. El-Baba, Carol V. V. Robinson, Neil L. L. Kelleher
Summary: Native mass spectrometry has become an important technique for determining the composition of protein complexes. However, there is a lack of software tools for comprehensive analysis of native mass spectrometry data. In this study, we introduce ProSight Native as an informatics platform that can determine the complete composition of protein complexes. We demonstrated its features by successfully determining the composition of a homotetrameric membrane complex and a heterodimer complex with associated ligands.
JOURNAL OF PROTEOME RESEARCH
(2023)
Article
Biochemical Research Methods
Melanie T. Odenkirk, Guozhi Zhang, Michael T. Marty
Summary: Lipids play important roles in membrane protein structure, interactions, and activity. Nanodiscs are a suitable model for studying protein-lipid interactions in a lipid bilayer. This study investigated how nanodisc assembly conditions affect the lipid profile. The results suggest that while most lipids are unaffected, some changes occurred in specific lipid classes under certain assembly conditions.
JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
(2023)
Article
Biochemical Research Methods
Julia A. Townsend, Michael T. Marty
Summary: Membrane proteins often form functional complexes in lipid bilayers, making it difficult to characterize their oligomerization. However, using native mass spectrometry combined with lipid nanodiscs, it is possible to study the oligomeric state distribution and lipid preferences of these complexes. This study presents a novel data analysis method using macromolecular mass defect analysis to interpret complex spectra. It also discusses the limitations and strategies to resolve ambiguities, along with recent research on antimicrobial peptides, amyloid proteins, and viroporins in lipid membranes.
Article
Multidisciplinary Sciences
Hongmiao Hu, Anne-Marie M. van Roon, George E. Ghanim, Bilal Ahsan, Abraham O. Oluwole, Sew-Yeu Peak-Chew, Carol V. Robinson, Thi Hoang Duong Nguyen
Summary: Shelterin and nucleosomes interact at mammalian telomeres, but the mechanism is not yet understood. Cryo-electron microscopy was used to study the structure of a human telomeric nucleosome bound to the shelterin factor TRF1. The study revealed that TRF1 binds to unwrapped nucleosomal DNA ends by engaging both the DNA and the histone octamer, resulting in a shift in the nucleosomal DNA. Phosphorylation of TRF1 and a noncanonical DNA binding surface on TRF1 were found to be crucial for its association with telomeric nucleosomes. These findings provide important insights into shelterin-chromatin interactions and its roles at telomeres.
Article
Multidisciplinary Sciences
Luke Smithers, Oksana Degtjarik, Dietmar Weichert, Chia-Ying Huang, Coilin Boland, Katherine Bowen, Abraham Oluwole, Corinne Lutomski, Carol V. Robinson, Eoin M. Scanlan, Meitian Wang, Vincent Olieric, Moran Shalev-Benami, Martin Caffrey
Summary: This study investigates the structural changes of the enzyme apolipoprotein N-acyltransferase (Lnt) during its reaction. The study confirms the ping-pong mechanism of Lnt and explains the molecular basis for its ability to bind different substrates.
Article
Chemistry, Multidisciplinary
Yun Zhu, Melanie T. Odenkirk, Pei Qiao, Tianqi Zhang, Samantha Schrecke, Ming Zhou, Michael T. Marty, Erin S. Baker, Arthur Laganowsky
Summary: By combining native mass spectrometry (MS) and lipidomics, we have developed an innovative approach to identify the lipids retained by membrane proteins from natural lipid extracts. Our findings indicate that the bacterial ammonia channel (AmtB) selectively retains specific cardiolipin (CDL) and phosphatidylethanolamine (PE) from these extracts. This research provides a new avenue to explore the important lipid-protein interactions in membrane protein structure and function.
Article
Biochemical Research Methods
Jack P. Ryan, Marius M. Kostelic, Chih-Chieh Hsieh, Joshua Powers, Craig Aspinwall, James N. Dodds, John E. Schiel, Michael T. Marty, Erin S. Baker
Summary: This article introduces a method that combines different analytical workflows to evaluate the composition and ratio of AAV capsids. The method includes two steps, each for evaluating the intact capsids and viral protein subunits. By applying this method, a better understanding of the characteristics and functions of AAV capsids can be achieved.
JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
(2023)
Article
Chemistry, Analytical
Weijing Liu, Hiruni S. Jayasekera, James D. Sanders, Guozhi Zhang, Rosa Viner, Michael T. Marty
Summary: In this study, an online buffer exchange coupled to native mass spectrometry (OBE-nMS) technique was developed for analyzing membrane proteins in different membrane mimetics. The results showed that mobile phases containing ammonium acetate and lauryl-dimethylamine oxide were most universal for characterizing both bacterial and mammalian membrane proteins in detergent micelles. For membrane proteins in nanodiscs, ammonium acetate was sufficient as the mobile phase. This technique enables rapid measurement of each membrane protein and facilitates the assessment of their integrity prior to structural elucidation.
ANALYTICAL CHEMISTRY
(2023)
