Article
Chemistry, Multidisciplinary
Peter Krueger, Karl-Michael Weitzel
Summary: This study demonstrates that combining electrospray ionization (ESI) with detection of photoelectron circular dichroism (PECD) can provide access to chirality information applicable to molecular materials with negligible vapor pressure. This technique is expected to be conceptually applicable to all chemical systems with chirality based on molecular properties.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2021)
Article
Chemistry, Analytical
Ian R. Smith, Jimmy K. Eng, Anthony S. Barente, Alexander Hogrebe, Ariadna Llovet, Ricard A. Rodriguez-Mias, Judit Villen
Summary: Stable-isotope labeling with amino acids in cell culture (SILAC)-based metabolic labeling is a widely used proteomics approach for quantitative comparisons. In this study, a new strategy was developed to coisolate and fragment SILAC peptide pairs for relative quantification. The modified database search engine and developed tool facilitated the analysis and quantification of SILAC peptide pairs. The coisolation approach improved the expectation scores and achieved more quantifications compared to traditional methods.
ANALYTICAL CHEMISTRY
(2022)
Article
Biochemical Research Methods
Chun-Yue Han, Li Ge, Chi Zhang, Li-Na Ding, Peng Wang, Fang Yu, Sheng Wang, Lili Zhu, Qunlin Zhang, Qi Liu, Fei-Long Liu
Summary: In this study, a pair of diazo probes, 2-DMBA and d5-2-DMBA, were used to label amino acids, resulting in enhanced ionization efficiencies during LC-MS analysis. The developed method enabled the sensitive and accurate detection of 17 amino acids in microliter level of serum samples, revealing differences in amino acid contents between normal and B16F10-tumour mice. This chemical labeling-LC-MS analysis provides a potentially valuable tool for investigating the link between amino acid metabolism and diseases.
JOURNAL OF CHROMATOGRAPHY B-ANALYTICAL TECHNOLOGIES IN THE BIOMEDICAL AND LIFE SCIENCES
(2023)
Article
Biochemical Research Methods
Elif Ozturk Er, Belma Ozbek, Sezgin Bakirdere
Summary: A novel analytical method was described for the determination of underivatized amino acids in human plasma and urine samples, achieving accurate results through liquid chromatography-tandem mass spectrometry, demonstrating high reliability and reproducibility.
JOURNAL OF CHROMATOGRAPHY A
(2021)
Article
Biochemical Research Methods
Juho Heininen, Ulrika Julku, Timo Myohanen, Tapio Kotiaho, Risto Kostiainen
Summary: A new multiplexed LC-MS/MS method was developed for analyzing amino acids in mouse brain microdialysis samples, providing good chromatographic performance and high sensitivity. The method showed good repeatability and linearity, indicating its quantitative performance. The method was sensitive enough to detect low concentrations of amino acids in brain microdialysis samples.
JOURNAL OF CHROMATOGRAPHY A
(2021)
Article
Biochemical Research Methods
Taylor M. Domenick, Austin L. Jones, Robin H. J. Kemperman, Richard A. Yost
Summary: To address the poor retention of highly polar metabolites in reversed-phase liquid chromatography (RPLC), a derivatization agent and an internal standard were introduced to improve analyte retention and detection limits. Multiplexed drift-tube ion mobility (IM) was integrated into the LC-MS workflow to enhance method sensitivity and selectivity. The results showed that this method allowed for the quantitation of amino acids in microglial cell extracts.
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
(2022)
Article
Biochemistry & Molecular Biology
Marco Roverso, Roberta Seraglia, Raghav Dogra, Denis Badocco, Silvia Pettenuzzo, Luca Cappellin, Paolo Pastore, Sara Bogialli
Summary: This study evaluated the use of single-walled carbon nanohorns (SWCNH) as a specific surface for Surface-Assisted Laser Desorption Ionization (SALDI) analysis. The optimized method provided rapid analysis of amino acids and lipids, and accurately determined the composition of fatty acids in olive oil samples without any sample treatment.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Food Science & Technology
Priscila R. dos Santos-Donado, Carlos M. Donado-Pestana, Rebeca Kawahara, Livia Rosa-Fernandes, Giuseppe Palmisano, Flavio Finardi-Filho
Summary: Biofortification has led to the development of quality protein maize (QPM) with essential amino acids. Study comparing QPM cultivars with a non-QPM hybrid in Brazil showed compositional equivalence with differential expression of proteins, indicating superior nutritional value and susceptibility to pathogens.
LWT-FOOD SCIENCE AND TECHNOLOGY
(2021)
Article
Biochemical Research Methods
Steven Chin, Alexandre Goyon, Kelly Zhang, Kenji L. Kurita
Summary: Accurate sequencing of sgRNAs is crucial for CRISPR/Cas9 genome editing, and a method using protective DNA primers and RNase T1 digestion coupled with HILIC-HRMS was developed. Without RNase digestion, top-down mass spectrometry struggles to fragment precursor ions in large RNA oligonucleotides. However, combining primer protection with RNase T1 digestion allows for full sgRNA sequence coverage by providing large enough digestion products to prevent redundancy and small enough products for base resolution by tandem mass spectrometry. This technique has the potential to expedite accurate sequence confirmation of chemically modified sgRNA oligonucleotides.
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
(2023)
Article
Nutrition & Dietetics
Sunyoung Ahn, Su Hwan Lee, Kyung Soo Chung, Nam Su Ku, Young-Min Hyun, Sail Chun, Moo Suk Park, Sang-Guk Lee
Summary: The study found significant differences in serum amino acid composition between sepsis patients, healthy individuals, and patients with inflammation only. The newly developed multivariate index based on amino acid profiling showed promising potential in diagnosis and prognosis, expected to be implemented as a sepsis biomarker in clinical practice in the near future.
CLINICAL NUTRITION
(2021)
Article
Chemistry, Analytical
Max L. Feuerstein, Ruwan T. Kurulugama, Stephan Hann, Tim Causon
Summary: This work focused on implementing ion mobility and a prototype quadrupole driver in data independent acquisition for non-targeted metabolomics to improve confidence in identity confirmation workflows. By combining hardware performance and software tools, 87 metabolites were identified using new acquisition and data processing approaches.
ANALYTICA CHIMICA ACTA
(2021)
Article
Chemistry, Analytical
Quinn Neale, Alexandre Prefontaine, Taylor Battellino, Benilde Mizero, Darien Yeung, Victor Spicer, Nediljko Budisa, Helene Perreault, Rene P. Zahedi, Oleg V. Krokhin
Summary: This study systematically evaluates the chromatographic behavior of post-translationally/chemically modified peptides and validates the results using data from over 70 relevant modifications. By comparing the retention properties of modified and nonmodified peptides, the effect of modifications can be described and predictions can be made.
ANALYTICAL CHEMISTRY
(2023)
Review
Geriatrics & Gerontology
Sunil S. Adav, Yulan Wang
Summary: Metabolomics is a cutting-edge technology that provides a comprehensive quantitative profile of metabolites, offering insights into the aging process. Aging is a natural inevitable process influenced by genetics, metabolism, and environmental factors. Despite being relatively new in aging research, the integration of multi-omics data can help understand the complex aging process.
Article
Hematology
Erin H. Seeley, Zhipeng Liu, Shuai Yuan, Chad Stroope, Elizabeth Cockerham, Nabil A. Rashdan, Luisa F. Delgadillo, Alexandra C. Finney, Dhananjay Kumar, Sandeep Das, Babak Razani, Wanqing Liu, James Traylor, A. Wayne Orr, Oren Rom, Christopher B. Pattillo, Arif Yurdagul Jr
Summary: Researchers used mass spectrometry imaging to characterize the spatial distribution of metabolites in stable and unstable atherosclerosis. They found that pathways related to lipid metabolism and long-chain fatty acids were enriched in stable plaques, while reactive oxygen species, aromatic amino acid, and tryptophan metabolism were increased in unstable plaques. This study provides valuable insights into the metabolic pathways involved in plaque destabilization and opens new avenues of research in cardiovascular disease.
ARTERIOSCLEROSIS THROMBOSIS AND VASCULAR BIOLOGY
(2023)
Article
Biochemical Research Methods
Cheryl Turner, Helga Refsum, Nasser E. Bastani
Summary: In this study, an analytical method based on liquid chromatography with electrospray ionization coupled to tandem mass spectrometry detection was developed for accurate quantification of various amino acids in human plasma. The method showed excellent linearity, accuracy, precision, sensitivity, and selectivity.
JOURNAL OF CHROMATOGRAPHY B-ANALYTICAL TECHNOLOGIES IN THE BIOMEDICAL AND LIFE SCIENCES
(2023)
Article
Biochemical Research Methods
Brenda Bakker, Rianne D. W. Vaes, Merel R. Aberle, Tessa Welbers, Thomas Hankemeier, Sander S. Rensen, Steven W. M. Olde Damink, Ron M. A. Heeren
Summary: This protocol describes how to prepare organoid samples for mass spectrometry imaging, which is a powerful analytical method for detecting a wide variety of molecules in a single experiment while retaining their spatiotemporal distribution.
Article
Geriatrics & Gerontology
Rianne D. W. Vaes, David P. J. van Dijk, Elham Aida Farshadi, Steven W. M. Olde Damink, Sander S. Rensen, Ramon C. Langen
Summary: The study revealed that factors derived from pancreatic tumor organoids alter the kinetics of myogenesis, potentially contributing to impaired muscle mass maintenance in cancer cachexia.
JOURNAL OF CACHEXIA SARCOPENIA AND MUSCLE
(2022)
Article
Oncology
Lennart Huizing, Lin Chen, Anjali A. A. Roeth, Lara R. R. Heij, Bryn Flinders, Stefan A. W. Bouwense, Benjamin Balluff, Ulf P. P. Neumann, Ron M. A. Heeren, Steven W. M. Olde Damink, Rob J. J. Vreeken, Frank G. G. Schaap
Summary: Sulfatides were found in tumor tissue of patients with intrahepatic cholangiocarcinoma (iCCA), and the abundance and ratio of unsaturated to saturated sulfatides were associated with tumor recurrence in iCCA patients.
Article
Immunology
Min Deng, Merel R. Aberle, Annemarie A. J. H. M. van Bijnen, Gregory van der Kroft, Kaatje Lenaerts, Ulf P. Neumann, Georg Wiltberger, Frank G. Schaap, Steven W. M. Olde Damink, Sander S. Rensen
Summary: This study found that high levels of lipocalin-2 are associated with neutrophil activation in patients with pancreatic cancer cachexia and may contribute to their poor nutritional status.
FRONTIERS IN IMMUNOLOGY
(2023)
Article
Health Care Sciences & Services
Nicole Hildebrand, Allard G. Wijma, Bart C. Bongers, Sander S. Rensen, Marcel den Dulk, Joost M. Klaase, Steven W. M. Olde Damink
Summary: The study aims to assess the feasibility of a home-based exercise prehabilitation program in unfit patients scheduled for pancreatic surgery. The program includes high-intensity interval training and functional task exercises to improve patients' aerobic capacity and muscle function, leading to better treatment outcomes and quality of life. The results of this study may have important implications for implementing prehabilitation programs in complex abdominal surgeries such as pancreatic surgery.
JMIR RESEARCH PROTOCOLS
(2023)
Article
Oncology
Roos G. F. M. van der Ven, Daan N. Westra, Felice H. van Erning, Ignace de Hingh, Steven W. M. Olde Damink, Agnes Paulus, Wouter K. G. Leclercq, Marcel den Dulk, OncoZON Consortium
Summary: This study examines whether inequalities in the utilization of resection and/or ablation for synchronous colorectal liver metastases (SCLM) between expert and non-expert hospitals changed since the implementation of a multi-hospital network. The findings show that despite the establishment of the network, patients diagnosed in expert hospitals were more likely to receive specialized treatment than those diagnosed in non-expert hospitals, and this disparity increased over time.
Article
Critical Care Medicine
Michelle R. Baggerman, Ingeborg M. Dekker, Bjorn Winkens, Steven W. M. Olde Damink, Sandra N. Stapel, Peter J. M. Weijs, Marcel C. G. van de Poll
Summary: This study investigated the association between visceral obesity, BMI and 90-day mortality in critically ill patients. The results showed no significant association between visceral obesity and BMI with 90-day mortality, although obesity and visceral obesity tended to be associated with improved 90-day mortality.
JOURNAL OF CRITICAL CARE
(2023)
Article
Nutrition & Dietetics
Soumia Majait, Emma C. E. Meessen, Frederic Maxime Vaz, E. Marleen Kemper, Samuel van Nierop, Steven W. Olde Damink, Frank G. Schaap, Johannes A. Romijn, Max Nieuwdorp, Aad Verrips, Filip Krag Knop, Maarten R. Soeters
Summary: This study examined the plasma profiles of bile acids, glucose, insulin, GLP-1, and FGF19 in CTX patients and healthy controls. The results showed that CTX patients had lower levels of bile acids and FGF19, abnormal postprandial glucose and insulin profiles, and elevated postprandial GLP-1 responses.
Article
Medicine, General & Internal
Annet A. M. Duivenvoorden, Mathias Clarysse, Laurens J. Ceulemans, Robert H. Geelkerken, Joep P. M. Derikx, Jean-Paul P. M. de Vries, Hessel C. J. L. Buscher, Steven W. M. Olde Damink, Frederik Jan van Schooten, Tim Lubbers, Kaatje Lenaerts
Summary: This study aims to validate a panel of plasma biomarkers and investigate volatile organic compound (VOC) profiles in exhaled air as a tool to timely and accurately diagnose Acute Mesenteric Ischaemia (AMI). 120 patients with clinical suspicion of AMI will be recruited, and their plasma levels and VOCs in exhaled air will be assessed. The diagnosis of AMI will be based on CT, endovascular and surgical reports, clinical findings, and verified by histopathological examination if applicable.
Article
Immunology
Nicky A. Beelen, Merel R. Aberle, Virginia Bruno, Steven W. M. Olde Damink, Gerard M. J. Bos, Sander S. Rensen, Lotte Wieten
Summary: This study evaluated the cytotoxic potential of adoptive NK cells against pancreatic cancer organoids and found that ADCC-inducing antibodies can enhance NK cell anti-tumor responses.
FRONTIERS IN IMMUNOLOGY
(2023)
Article
Oncology
Chenfei Zhou, Changting Qiao, Jun Ji, Wenqi Xi, Jinling Jiang, Liting Guo, Junwei Wu, Feng Qi, Qu Cai, Steven W. M. Olde Damink, Jun Zhang
Summary: Organ-specific metastasis is a unique mode of metastasis in gastric cancer, and the role of exosomes in this process is not fully understood. This study aimed to investigate the biological functions of plasma exosome proteins and their correlation with organ-specific metastasis in gastric cancer. The results showed that ILK1 and CD14 were associated with organ-specific metastasis and played a role in regulating malignant behaviors in gastric cancer cells. These findings highlight the importance of exosome proteins in driving tumor metastasis and provide new insights into the mechanisms of organ-specific metastasis in gastric cancer.
Article
Oncology
Gregory van der Kroft, Leonard Wee, Sander S. Rensen, Ralph Brecheisen, David P. J. van Dijk, Roman Eickhoff, Anjali A. Roeth, Florian T. Ulmer, Andre Dekker, Ulf P. Neumann, Steven W. M. Olde Damink
Summary: The study aimed to investigate whether body composition-associated radiomics features hold additional value over conventional body composition analysis and clinical patient characteristics used to predict survival of pancreatic ductal adenocarcinoma (PDAC) patients. The results showed that radiomics features provided improved predictive performance compared to conventional body composition variables for the prediction of overall survival of PDAC patients undergoing primary resection.
FRONTIERS IN ONCOLOGY
(2023)
Article
Surgery
Iakovos Amygdalos, Lea Hitpass, Felix Schmidt, Gerrit Josephs, Jan Bednarsch, Marie-Luise Berres, Tom Luedde, Steven W. M. Olde Damink, Tom Florian Ulmer, Ulf P. Neumann, Philipp Bruners, Sven Arke Lang
Summary: This study examines the efficacy of liver resection combined with local ablative therapy compared to liver resection only, in the treatment of patients with = 4 colorectal liver metastases (CRLM). The results show that combined resection-ablation is a viable option for patients with = 4 CRLM in terms of overall survival (OS) and recurrence-free survival (RFS).
LANGENBECKS ARCHIVES OF SURGERY
(2023)
Article
Surgery
Xinwei Chang, Remon Korenblik, Bram Olij, Robrecht R. M. M. Knapen, Christiaan van der Leij, Daniel Heise, Marcel den Dulk, Ulf P. Neumann, Frank G. Schaap, Ronald M. van Dam, Steven W. M. Olde Damink
Summary: The study aimed to investigate the impact of cholestasis on portal vein embolization-induced hypertrophy of the future liver remnant (FLR). In a pre-clinical setting, it was found that hepatocellular bile salt accumulation did not affect FLR hypertrophy induced by PVE.
LANGENBECKS ARCHIVES OF SURGERY
(2023)
Article
Oncology
Pierre-Maxence Vaysse, Mari F. C. M. van den Hout, Sanne M. E. Engelen, Kristien B. M. I. Keymeulen, Marc H. A. Bemelmans, Ron M. A. Heeren, Steven W. M. Olde Damink, Tiffany Porta Siegel
Summary: Lipid profiling by REIMS can accurately discriminate and identify different soft tissue sarcomas from normal tissues, providing a potential asset to improve surgical resection of soft tissue sarcomas in the future.
JOURNAL OF SURGICAL ONCOLOGY
(2023)