Review
Immunology
Sandra Kannampuzha, Anirban Goutam Mukherjee, Uddesh Ramesh Wanjari, Abilash Valsala Gopalakrishnan, Reshma Murali, Arunraj Namachivayam, Kaviyarasi Renu, Abhijit Dey, Balachandar Vellingiri, Harishkumar Madhyastha, Raja Ganesan
Summary: Lung cancer is a major cause of cancer-related deaths. The altered metabolism of cancer cells results in changes in metabolite concentrations, which can be used to identify distinct metabolic patterns for cancer detection. Understanding and analyzing the variations in metabolites can provide early biomarkers and insights into the progression and type of lung cancer.
Article
Oncology
Khoa Pham, Allison R. Hanaford, Brad A. Poore, Micah J. Maxwell, Heather Sweeney, Akhila Parthasarathy, Jesse Alt, Rana Rais, Barbara S. Slusher, Charles G. Eberhart, Eric H. Raabe
Summary: The oncogene MYC alters cellular metabolism and its amplification in medulloblastoma leads to distinct metabolic characteristics. Comprehensive metabolic profiling of MYC-amplified medulloblastoma revealed an increased reliance on targetable metabolic pathways. However, metabolism of MYC-amplified cell lines differed from in vivo tumor models, indicating the importance of in vivo metabolic analyses. Understanding the metabolic vulnerabilities of MYC-amplified medulloblastoma may inform the development of targeted therapies.
Review
Biochemistry & Molecular Biology
Raul Gonzalez-Dominguez, Alvaro Gonzalez-Dominguez, Ana Sayago, Juan Diego Gonzalez-Sanz, Alfonso Maria Lechuga-Sancho, Angeles Fernandez-Recamales
Summary: This review article provides a comprehensive revision of the literature published on the use of mass spectrometry-based metabolomics platforms for approaching the central metabolome in Alzheimer's disease research, pointing to profound disturbances in central metabolic pathways.
Article
Chemistry, Multidisciplinary
Shunxiang Li, Huihua Ding, Ziheng Qi, Jing Yang, Jingyi Huang, Lin Huang, Mengji Zhang, Yuanjia Tang, Nan Shen, Kun Qian, Qiang Guo, Jingjing Wan
Summary: Serum metabolic fingerprints can be used for disease diagnosis and biomarker discovery. By analyzing the serum metabolic fingerprints of systemic lupus erythematosus (SLE) patients and healthy controls, early diagnosis and precision medicine for SLE can be achieved. This study identified the unique metabolic pattern of SLE patients and screened out a panel of metabolic biomarkers.
Article
Automation & Control Systems
Jing Cao, Yuning Wang, Yong Zhang, Kun Qian
Summary: Recent developments in mass spectrometry-based metabolic fingerprinting analysis have facilitated its practical clinical applications by addressing challenges such as rapid signal readout, high throughput, direct MS analysis, and intelligent data mining of complex biological samples.
ADVANCED INTELLIGENT SYSTEMS
(2022)
Article
Oncology
Franziska Erlmeier, Na Sun, Jian Shen, Annette Feuchtinger, Achim Buck, Verena M. Prade, Thomas Kunzke, Peter Schraml, Holger Moch, Michael Autenrieth, Wilko Weichert, Arndt Hartmann, Axel Walch
Summary: Renal cell carcinoma (RCC) is a common type of kidney tumor, but prognostic biomarkers for RCC are still lacking. In this study, a large cohort of RCC patients with the three most common RCC subtypes (ccRCC, pRCC, and chRCC) was analyzed using high mass resolution MALDI-MSI for biomarker detection. Several pathways and metabolites with prognostic power for RCC in general and different RCC subtypes were identified.
Article
Chemistry, Multidisciplinary
Jing Yang, Xia Yin, Longzhou Zhang, Xiwen Zhang, Yue Lin, Linzhou Zhuang, Wanshan Liu, Ru Zhang, Xuecheng Yan, Li Shi, Wen Di, Lei Feng, Yi Jia, Jinlan Wang, Kun Qian, Xiangdong Yao
Summary: This study developed a precisely engineered metal-organic framework for enhancing the signal of molecule biomarkers, achieving high-accuracy diagnosis of major cancers.
ADVANCED MATERIALS
(2022)
Article
Biochemistry & Molecular Biology
Mariana de Sa Alves, Nayara de Sa Rodrigues, Celso Muller Bandeira, Jose Francisco Sales Chagas, Maria Beatriz Nogueira Pascoal, Gabrielle Luana Jimenez Teodoro Nepomuceno, Herculano da Silva Martinho, Monica Ghislaine Oliveira Alves, Maria Anita Mendes, Meriellen Dias, Levy Anderson Cesar Alves, Janete Dias Almeida
Summary: Oral squamous cell carcinoma (OSCC) is the most common type of oral cancer, and finding specific biomarkers is crucial. This study identified several potential salivary biomarkers for OSCC, but further validation with larger populations is needed. This is the first report on salivary metabolomics of South American oral cancer patients.
Article
Biochemistry & Molecular Biology
Naoko Goto-Inoue, Mizuki Morisasa, Keisuke Kimura, Tsukasa Mori, Yasuro Furuichi, Yasuko Manabe, Nobuharu L. Fujii
Summary: Muscle atrophy is a significant health problem that requires different treatment approaches for different types of muscle fibers. Chronic exercise promotes muscle hypertrophy and induces metabolic changes, with variations between different fiber types. The study found that chronic exercise primarily caused hypertrophic features in glycolytic myofibers and led to significant changes in protein synthesis and lipid metabolism. Furthermore, the sources of energy, such as glycogen, neutral lipids, and ATP, were sensitive to exercise, with variations between glycolytic and oxidative myofibers.
BIOSCIENCE BIOTECHNOLOGY AND BIOCHEMISTRY
(2022)
Review
Pharmacology & Pharmacy
Abdul-Hamid Emwas, Kacper Szczepski, Inas Al-Younis, Joanna Izabela Lachowicz, Mariusz Jaremko
Summary: Fluxomics is an innovative research field that measures intracellular flux rates in biological systems, providing insights into molecular interactions and metabolic pathways. It has become increasingly relevant in studying metabolic phenotypes.
FRONTIERS IN PHARMACOLOGY
(2022)
Article
Chemistry, Multidisciplinary
Yuning Wang, Yu Liu, Shouzhi Yang, Jia Yi, Xiaoyu Xu, Kun Zhang, Baohong Liu, Kun Qian
Summary: A multifunctional self-assembled AuNPs array (MSANA)-based LDI-MS platform was developed for direct amino acids analysis and metabolic profiling in patient CSF samples. The platform demonstrated high selectivity and micromolar sensitivity for capturing and analyzing aromatic amino acids. It also exhibited excellent reproducibility (RSD < 10%) compared to the widely used direct matrix spotting approach (RSD < 44%). The platform was successfully used for metabolic profiling of CSF, enabling the discrimination of medulloblastoma patients from non-tumor controls within minutes. Overall, the MSANA-based LDI-MS platform shows potential clinical values for large-scale metabolic diagnostics and pathogenic mechanism study.
Article
Chemistry, Multidisciplinary
You Wang, Weikang Shu, Sihan Lin, Jiayue Wu, Meng Jiang, Shumin Li, Chao Liu, Rongxin Li, Congcong Pei, Yajie Ding, Jingjing Wan, Wen Di
Summary: A machine learning-based diagnostic protocol using serum metabolic fingerprints has been developed to accurately assess the activity of systemic lupus erythematosus (SLE) in pregnant women. This method directly extracts metabolic fingerprints from serum samples and analyzes them using an optimized algorithm. The results show that the method can accurately differentiate between active and inactive SLE, providing a new option for precise clinical diagnosis.
Article
Chemistry, Multidisciplinary
Mengji Zhang, Lin Huang, Jing Yang, Wei Xu, Haiyang Su, Jing Cao, Qian Wang, Jun Pu, Kun Qian
Summary: This study introduces a deep stabilizer for ultra-fast, label-free MS detection in serum metabolic diagnosis of coronary heart disease (CHD). By utilizing nanoparticle-assisted laser desorption/ionization-MS, direct metabolic analysis of trace unprocessed serum can be achieved in seconds, leading to advanced accuracy in CHD diagnosis. The development of this stabilized platform advances the design of metabolic analysis tools for disease detection in clinics.
Article
Biochemistry & Molecular Biology
Sin Man Lam, Jie Li, Huan Sun, Weining Mao, Zongmin Lu, Qingshuo Zhao, Chao Han, Xia Gong, Binhua Jiang, Gek Huey Chua, Zhenwen Zhao, Fanwei Meng, Guanghou Shui
Summary: The neural compartmentalization of lipid distribution and metabolism is associated with troglomorphic traits in Sinocyclocheilus cavefish. This includes reductions in DHA-phospholipids and accumulation of arachidonic acid-phospholipids in the brain, demyelination in serotonergic neurons, and systemic reductions in esterified DHAs in the liver. These adaptations serve to reduce energy expenditure and are crucial for the survival of cavefish in cave environments.
MOLECULAR BIOLOGY AND EVOLUTION
(2022)
Article
Biochemistry & Molecular Biology
Don D. Nguyen, Veronika Saharuka, Vitaly Kovalev, Lachlan Stuart, Massimo Del Prete, Kinga Lubowiecka, Rene De Mot, Vittorio Venturi, Theodore Alexandrov
Summary: METASPACE is a fast and accurate tool for annotating microbial specialized metabolites from imaging MS data. It has been shown to successfully annotate a variety of microbial metabolites from data obtained from microbial colonies grown on agar.
Article
Medicine, Research & Experimental
Bram Heijs, Stephanie Holst-Bernal, Marieke A. de Graaff, Inge H. Briaire-de Bruijn, Mar Rodriguez-Girondo, Michiel A. J. van de Sande, Manfred Wuhrer, Liam A. McDonnell, Judith V. M. G. Bovee
LABORATORY INVESTIGATION
(2020)
Letter
Oncology
Tim Johannes Adrianus Dekker
JOURNAL OF CLINICAL ONCOLOGY
(2020)
Article
Multidisciplinary Sciences
Ruben D. Addie, Sarantos Kostidis, Willem E. Corver, Jan Oosting, Sepideh Aminzadeh-Gohari, Rene G. Feichtinger, Barbara Kofler, Mehtap Derya Aydemirli, Martin Giera, Hans Morreau
SCIENTIFIC REPORTS
(2020)
Article
Materials Science, Multidisciplinary
Daniele De Pasquale, Attilio Marino, Christos Tapeinos, Carlotta Pucci, Silvia Rocchiccioli, Elena Michelucci, Francesco Finamore, Liam McDonnell, Alice Scarpellini, Simone Lauciello, Mirko Prato, Aitor Larranaga, Filippo Drago, Gianni Ciofani
MATERIALS & DESIGN
(2020)
Letter
Oncology
Tim Johannes Adrianus Dekker
Letter
Oncology
Tim Johannes Adrianus Dekker
Article
Biochemistry & Molecular Biology
Federica Anastasi, Silvia Maria Masciandaro, Renata Del Carratore, Maria Teresa Dell'Anno, Giovanni Signore, Alessandra Falleni, Liam A. McDonnell, Paolo Bongioanni
Summary: This study presents a rapid method for isolating and characterizing the proteome of plasma-NDsEV from individual Parkinson's disease patients using an immunoplate coated with anti-L1CAM antibody. The analysis identified an average of 349 +/- 38 protein groups, with 20 highly expressed in the brain according to the Human Protein Atlas and 213 shared with a reference dataset from cultured human neurons. Additionally, 23 proteins related to the Parkinson's disease pathway and previously reported as PD circulating biomarkers were identified.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemistry & Molecular Biology
Francesco Greco, Laura Quercioli, Angela Pucci, Silvia Rocchiccioli, Mauro Ferrari, Fabio A. Recchia, Liam A. McDonnell
Summary: This study introduces a spatially resolved approach based on MALDI mass spectrometry imaging to analyze lipids in specific regions of atherosclerotic plaques. By comparing multimodal datasets, it was found that lipid profiles varied in different histopathological regions within the plaque, with macrophage-rich regions and intimal vascular smooth muscle cells showing the largest changes associated with plaque outcome. The proposed method confirms the potential of MALDI MSI as a promising tool for investigating histologically heterogeneous atherosclerotic plaques.
Article
Oncology
Roberta Noberini, Evelyn Oliva Savoia, Stefania Brandini, Francesco Greco, Francesca Marra, Giovanni Bertalot, Giancarlo Pruneri, Liam A. McDonnell, Tiziana Bonaldi
Summary: This study simplified the protein extraction process from low-amount clinical samples and developed a protocol that allows MS-based analysis of histone PTMs from laser microdissected tissue areas with as low as 1000 cells, which is approximately 500 times lower than what is required by available methods. This method opens the possibility for spatial epi-proteomics, facilitating the investigation of epigenetic features in tissue and tumor heterogeneity and aiding in the discovery of novel epigenetic biomarkers and mechanisms.
CLINICAL EPIGENETICS
(2021)
Article
Biochemistry & Molecular Biology
Francesco Greco, Federica Anastasi, Luca Fidia Pardini, Marialaura Dilillo, Eleonora Vannini, Laura Baroncelli, Matteo Caleo, Liam A. McDonnell
Summary: GBM is a brain tumor with poor prognosis and survival rates, diagnosed at advanced stages. This study used murine models to investigate longitudinal changes in protein profiles in serum, sEVs, and CSF, identifying dysregulated proteins involved in cell motility, growth, and angiogenesis. Early effects of GBM may be detectable before symptom onset.
Article
Oncology
Fanny Boyaval, Hans Dalebout, Rene Van Zeijl, Wenjun Wang, Arantza Farina-Sarasqueta, Guinevere S. M. Lageveen-Kammeijer, Jurjen J. Boonstra, Liam A. McDonnell, Manfred Wuhrer, Hans Morreau, Bram Heijs
Summary: This study investigates the changes in sugar molecules during the progression of colorectal cancer (CRC) and finds that these sugar signatures can clearly differentiate different stages of CRC progression, especially between pre-cancerous and cancerous tissue. The study also observes the spreading of glycosylation signatures into the tumor microenvironment.
Letter
Oncology
Rowan F. van Golen, Tim J. A. Dekker
Letter
Oncology
Tim J. A. Dekker
Letter
Medicine, General & Internal
Tim J. A. Dekker
NEW ENGLAND JOURNAL OF MEDICINE
(2020)
Letter
Gastroenterology & Hepatology
M. C. Barnhoorn, L. Plug, E. S. M. Muller-De Jonge, D. Molenkamp, E. Bos, M. J. A. Schoonderwoerd, W. E. Corver, A. E. Van Der Meulen-De Jong, H. W. Verspaget, L. J. A. C. Hawinkels
CELLULAR AND MOLECULAR GASTROENTEROLOGY AND HEPATOLOGY
(2020)
