All Outputs (16)

Spatially resolved molecular analysis of host response to medical device implantation using the 3D OrbiSIMS highlights a critical role for lipids (2024)
Journal Article
Suvannapruk, W., Fisher, L. E., Luckett, J. C., Edney, M. K., Kotowska, A. M., Kim, D., …Alexander, M. R. (in press). Spatially resolved molecular analysis of host response to medical device implantation using the 3D OrbiSIMS highlights a critical role for lipids. Advanced Science, https://doi.org/10.1101/2023.08.18.553860

A key goal for implanted medical devices is that they do not elicit a detrimental immune response. Macrophages play critical roles in modulation of the host immune response and are the major cells responsible for persistent inflammatory reactions to... Read More about Spatially resolved molecular analysis of host response to medical device implantation using the 3D OrbiSIMS highlights a critical role for lipids.

Acai Berry (Euterpe sp.) Extracts Are Neuroprotective against L-Glutamate-Induced Toxicity by Limiting Mitochondrial Dysfunction and Cellular Redox Stress (2023)
Journal Article
ALNasser, M. N., AlSaadi, A. M., Whitby, A., Kim, D. H., Mellor, I. R., & Carter, W. G. (2023). Acai Berry (Euterpe sp.) Extracts Are Neuroprotective against L-Glutamate-Induced Toxicity by Limiting Mitochondrial Dysfunction and Cellular Redox Stress. Life, 13(4), Article 1019. https://doi.org/10.3390/life13041019

Aberrant accumulation of the neurotransmitter L-glutamate (L-Glu) has been implicated as a mechanism of neurodegeneration, and the release of L-Glu after stroke onset leads to a toxicity cascade that results in neuronal death. The acai berry (Euterpe... Read More about Acai Berry (Euterpe sp.) Extracts Are Neuroprotective against L-Glutamate-Induced Toxicity by Limiting Mitochondrial Dysfunction and Cellular Redox Stress.

Metabolic Signatures of Surface-Modified Poly(lactic- co-glycolic acid) Nanoparticles in Differentiated THP-1 Cells Derived with Liquid Chromatography-Mass Spectrometry-based Metabolomics (2022)
Journal Article
Al-Natour, M. A., Abdelrazig, S., Ghaemmaghami, A. M., Alexander, C., & Kim, D. H. (2022). Metabolic Signatures of Surface-Modified Poly(lactic- co-glycolic acid) Nanoparticles in Differentiated THP-1 Cells Derived with Liquid Chromatography-Mass Spectrometry-based Metabolomics. ACS Omega, https://doi.org/10.1021/acsomega.2c01660

Polymeric nanoparticles (NPs) are widely used in preclinical drug delivery investigations, and some formulations are now in the clinic. However, the detailed effects of many NPs at the subcellular level have not been fully investigated. In this study... Read More about Metabolic Signatures of Surface-Modified Poly(lactic- co-glycolic acid) Nanoparticles in Differentiated THP-1 Cells Derived with Liquid Chromatography-Mass Spectrometry-based Metabolomics.

Metabolic modeling-based drug repurposing in Glioblastoma (2022)
Journal Article
Tomi-Andrino, C., Pandele, A., Winzer, K., King, J., Rahman, R., & Kim, D. (2022). Metabolic modeling-based drug repurposing in Glioblastoma. Scientific Reports, 12, Article 11189. https://doi.org/10.1038/s41598-022-14721-w

The manifestation of intra- and inter-tumor heterogeneity hinders the development of ubiquitous cancer treatments, thus requiring a tailored therapy for each cancer type. Specifically, the reprogramming of cellular metabolism has been identified as a... Read More about Metabolic modeling-based drug repurposing in Glioblastoma.

Single-Cell Metabolic Profiling of Macrophages Using 3D OrbiSIMS: Correlations with Phenotype (2022)
Journal Article
Suvannapruk, W., Edney, M. K., Kim, D., Scurr, D. J., Ghaemmaghami, A. M., & Alexander, M. R. (2022). Single-Cell Metabolic Profiling of Macrophages Using 3D OrbiSIMS: Correlations with Phenotype. Analytical Chemistry, 94(26), 9389–9398. https://doi.org/10.1021/acs.analchem.2c01375

Macrophages are important immune cells that respond to environmental cues acquiring a range of activation statuses represented by pro-inflammatory (M1) and anti-inflammatory (M2) phenotypes at each end of their spectrum. Characterizing the metabolic... Read More about Single-Cell Metabolic Profiling of Macrophages Using 3D OrbiSIMS: Correlations with Phenotype.

Serum Levels of Proinflammatory Lipid Mediators and Specialized Proresolving Molecules Are Increased in Patients With Severe Acute Respiratory Syndrome Coronavirus 2 and Correlate With Markers of the Adaptive Immune Response (2022)
Journal Article
Turnbull, J., Jha, R. R., Ortori, C. A., Lunt, E., Tighe, P. J., Irving, W. L., …Chapman, V. (2022). Serum Levels of Proinflammatory Lipid Mediators and Specialized Proresolving Molecules Are Increased in Patients With Severe Acute Respiratory Syndrome Coronavirus 2 and Correlate With Markers of the Adaptive Immune Response. Journal of Infectious Diseases, 225(12), 2142-2154. https://doi.org/10.1093/infdis/jiab632

BACKGROUND: Specialized proresolution molecules (SPMs) halt the transition to chronic pathogenic inflammation. We aimed to quantify serum levels of pro- and anti-inflammatory bioactive lipids in severe acute respiratory syndrome coronavirus 2 (SARS-C... Read More about Serum Levels of Proinflammatory Lipid Mediators and Specialized Proresolving Molecules Are Increased in Patients With Severe Acute Respiratory Syndrome Coronavirus 2 and Correlate With Markers of the Adaptive Immune Response.

Culture degeneration reduces sex-related gene expression, alters metabolite production and reduces insect pathogenic response in cordyceps militaris (2021)
Journal Article
Wellham, P. A. D., Hafeez, A., Gregori, A., Brock, M., Kim, D. H., Chandler, D., & de Moor, C. H. (2021). Culture degeneration reduces sex-related gene expression, alters metabolite production and reduces insect pathogenic response in cordyceps militaris. Microorganisms, 9(8), Article 1559. https://doi.org/10.3390/microorganisms9081559

Cordyceps militaris is an entomopathogenic ascomycete, known primarily for infecting lepidopteran larval (caterpillars) and pupal hosts. Cordycepin, a secondary metabolite produced by this fungus has anti-inflammatory properties and other pharmacolog... Read More about Culture degeneration reduces sex-related gene expression, alters metabolite production and reduces insect pathogenic response in cordyceps militaris.

Engineering improved ethylene production: Leveraging systems Biology and adaptive laboratory evolution (2021)
Journal Article
Vaud, S., Pearcy, N., Hanževački, M., Van Hagen, A. M., Abdelrazig, S., Safo, L., …Bryan, S. J. (2021). Engineering improved ethylene production: Leveraging systems Biology and adaptive laboratory evolution. Metabolic Engineering, 67, 308-320. https://doi.org/10.1016/j.ymben.2021.07.001

Ethylene is a small hydrocarbon gas widely used in the chemical industry. Annual worldwide production currently exceeds 150 million tons, producing considerable amounts of CO2 contributing to climate change. The need for a sustainable alternative is... Read More about Engineering improved ethylene production: Leveraging systems Biology and adaptive laboratory evolution.

Physicochemical and metabolic constraints for thermodynamics-based stoichiometric modelling under mesophilic growth conditions (2021)
Journal Article
Tomi-Andrino, C., Norman, R., Millat, T., Soucaille, P., Winzer, K., Barrett, D. A., …Kim, D. (2021). Physicochemical and metabolic constraints for thermodynamics-based stoichiometric modelling under mesophilic growth conditions. PLoS Computational Biology, 17(1), Article e1007694. https://doi.org/10.1371/journal.pcbi.1007694

© 2021 Tomi-Andrino et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source a... Read More about Physicochemical and metabolic constraints for thermodynamics-based stoichiometric modelling under mesophilic growth conditions.

Corrigendum to ‘LC-MS metabolomics comparisons of cancer cell and macrophage responses to methotrexate and polymer-encapsulated methotrexate’ [International Journal of Pharmaceutics: X Volume 1 (2019) 100036] (2020)
Journal Article
Al-Natour, M. A., Alazzo, A., Ghaemmaghami, A. M., Kim, D. H., & Alexander, C. (2020). Corrigendum to ‘LC-MS metabolomics comparisons of cancer cell and macrophage responses to methotrexate and polymer-encapsulated methotrexate’ [International Journal of Pharmaceutics: X Volume 1 (2019) 100036]. International Journal of Pharmaceutics: X, 2, Article 100044. https://doi.org/10.1016/j.ijpx.2020.100044

© 2020 The Author(s) The authors regret that the original version of Fig. 3 incorrect. The updated figure is below for reference. [Figure presented] Fig. 3 Super-resolution microscopy image of methotrexate loaded PLGA nanoparticles (green) (92 μg/mL,... Read More about Corrigendum to ‘LC-MS metabolomics comparisons of cancer cell and macrophage responses to methotrexate and polymer-encapsulated methotrexate’ [International Journal of Pharmaceutics: X Volume 1 (2019) 100036].

Assessing the impact of physicochemical parameters in the predictive capabilities of thermodynamics-based stoichiometric approaches under mesophilic and thermophilic conditions (2020)
Working Paper
Tomi-Andrino, C., Norman, R., Millat, T., Soucaille, P., Winzer, K., Barrett, D. A., …Kim, D. Assessing the impact of physicochemical parameters in the predictive capabilities of thermodynamics-based stoichiometric approaches under mesophilic and thermophilic conditions

Metabolic engineering in the post-genomic era is characterised by the development of new methods for metabolomics and fluxomics, supported by the integration of genetic engineering tools and mathematical modelling. Particularly, constraint-based stoi... Read More about Assessing the impact of physicochemical parameters in the predictive capabilities of thermodynamics-based stoichiometric approaches under mesophilic and thermophilic conditions.

Facile Dye-Initiated Polymerization of Lactide–Glycolide Generates Highly Fluorescent Poly(lactic-co-glycolic Acid) for Enhanced Characterization of Cellular Delivery (2020)
Journal Article
Al-Natour, M. A., Yousif, M. D., Cavanagh, R., Abouselo, A., Apebende, E. A., Ghaemmaghami, A., …Alexander, C. (2020). Facile Dye-Initiated Polymerization of Lactide–Glycolide Generates Highly Fluorescent Poly(lactic-co-glycolic Acid) for Enhanced Characterization of Cellular Delivery. ACS Macro Letters, 9(3), 431-437. https://doi.org/10.1021/acsmacrolett.9b01014

Copyright © 2020 American Chemical Society. Poly(lactic-co-glycolic acid) (PLGA) is a versatile synthetic copolymer that is widely used in pharmaceutical applications. This is because it is well-tolerated in the body, and copolymers of varying physic... Read More about Facile Dye-Initiated Polymerization of Lactide–Glycolide Generates Highly Fluorescent Poly(lactic-co-glycolic Acid) for Enhanced Characterization of Cellular Delivery.

Effect of acute and short-term dietary fat ingestion on postprandial skeletal muscle protein synthesis rates in middle-aged, overweight, and obese men (2020)
Journal Article
Tsintzas, K., Jones, R., Pabla, P., Mallinson, J., Barrett, D. A., Kim, D. H., …Stephens, F. B. (2020). Effect of acute and short-term dietary fat ingestion on postprandial skeletal muscle protein synthesis rates in middle-aged, overweight, and obese men. AJP - Endocrinology and Metabolism, 318(3), E417-E429. https://doi.org/10.1152/ajpendo.00344.2019

Muscle anabolic resistance to dietary protein is associated with obesity and insulin resistance. However, the contribution of excess consumption of fat to anabolic resistance is not well studied. The aim of these studies was to test the hypothesis th... Read More about Effect of acute and short-term dietary fat ingestion on postprandial skeletal muscle protein synthesis rates in middle-aged, overweight, and obese men.

LC-MS metabolomics comparisons of cancer cell and macrophage responses to methotrexate and polymer-encapsulated methotrexate (2019)
Journal Article
Al-Natour, M. A., Alazzo, A., Ghaemmaghami, A. M., Kim, D., & Alexander, C. (2019). LC-MS metabolomics comparisons of cancer cell and macrophage responses to methotrexate and polymer-encapsulated methotrexate. International Journal of Pharmaceutics: X, 1, Article 100036. https://doi.org/10.1016/j.ijpx.2019.100036

Methotrexate (MTX) is a folate analogue antimetabolite widely used for the treatment of rheumatoid arthritis and cancer. A number of studies have shown that MTX delivered via nanoparticle carriers is more potent against cancer cells than free MTX, a... Read More about LC-MS metabolomics comparisons of cancer cell and macrophage responses to methotrexate and polymer-encapsulated methotrexate.

Investigating the intracellular effects of hyperbranched polycation-DNA complexes on lung cancer cells using LC-MS-based metabolite profiling (2019)
Journal Article
Alazzo, A., Al-Natour, M., Spriggs, K., Stolnik, S., Ghaemmaghami, A., Kim, D., & Alexander, C. (2019). Investigating the intracellular effects of hyperbranched polycation-DNA complexes on lung cancer cells using LC-MS-based metabolite profiling. Molecular Omics, 15(1), 77-87. https://doi.org/10.1039/C8MO00139A

Cationic polymers have emerged as a promising alternative to viral vectors in gene therapy. They are cheap to scale up, easy to functionalise and also presume to be safer than the viral vectors, however many of them are cytotoxic. The large number of... Read More about Investigating the intracellular effects of hyperbranched polycation-DNA complexes on lung cancer cells using LC-MS-based metabolite profiling.

Quantitative isotope-dilution high-resolution-mass-apectrometry analysis of multiple intracellular metabolites in Clostridium autoethanogenum with uniformly 13C-labeled standards derived from Spirulina (2018)
Journal Article
Schatschneider, S., Abdelrazig, S. M., Safo, L., Henstra, A. M., Millat, T., Kim, D., …Barrett, D. A. (2018). Quantitative isotope-dilution high-resolution-mass-apectrometry analysis of multiple intracellular metabolites in Clostridium autoethanogenum with uniformly 13C-labeled standards derived from Spirulina. Analytical Chemistry, 90(7), https://doi.org/10.1021/acs.analchem.7b04758

We have investigated the applicability of commercially available lyophilized spirulina (Arthrospira platensis), a microorganism uniformly labeled with 13C, as a readily accessible source of multiple 13C-labeled metabolites suitable as internal standa... Read More about Quantitative isotope-dilution high-resolution-mass-apectrometry analysis of multiple intracellular metabolites in Clostridium autoethanogenum with uniformly 13C-labeled standards derived from Spirulina.