Article
Biochemistry & Molecular Biology
Natalia Zamorano Cuervo, Nathalie Grandvaux
Summary: Protein disulfide isomerases (PDIs) are enzymes that catalyze redox reactions and have chaperone functions in protein folding. PDIs have catalytic thioredoxin (TRX)-like domains with CXXC motifs for redox reactions, as well as non-catalytic TRX-like domains. Strategies for identifying cysteine oxidative post-translational modifications (Cys ox-PTMs) have been optimized, and analysis of a Cys redoxome dataset suggests the presence of a non-catalytic thiol-disulfide motif in PDIs. Further structural analysis and exploration of other PDIs are needed to understand the role of these motifs.
Article
Biochemistry & Molecular Biology
Moua Yang, Robert Flaumenhaft
Summary: Oxidative stress is a characteristic of many systemic diseases associated with thrombosis, and thiol isomerases play a key role in protein folding. Recent studies show that the oxidoreductase activity of thiol isomerases in thrombus formation is controlled by the redox environment and may potentially control thrombotic potential by modifying substrate networks.
ANTIOXIDANTS & REDOX SIGNALING
(2021)
Article
Agriculture, Multidisciplinary
Sofia Tachtalidou, Panagiotis Arapitsas, Marie-Jose Penouilh, Franck Denat, Philippe Schmitt-Kopplin, Regis D. Gougeon, Maria Nikolantonaki
Summary: Bisulfite (HSO3-) is the main form of sulfur dioxide in wine under acidic pH, and its reaction with thiols and flavanols has been found to play a key role in wine preservation against oxidation. This study investigated the kinetics and stability of sulfonation reactions of thiols and flavanols under simulated wine aging conditions. The results showed that the presence of iron and oxygen promoted the sulfonation reactions, and the sulfonation derivatives were more prevalent in aged wines. These findings provide new insights for the precise use of sulfur dioxide in winemaking.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2023)
Article
Biochemistry & Molecular Biology
Lijun Wang, Lingxia Chen, Zixuan Qin, Ke Ni, Xiao Li, Zhiyuan Yu, Zichen Kuang, Xinshu Qin, Hongxia Duan, Jie An
Summary: This study discovered that iodine can be used as a cheap, low-toxicity catalyst for the aerobic oxidation of thiols. By utilizing sustainable oxygen as the terminal oxidant, primary and secondary thiols can be efficiently converted to disulfides.
Article
Biochemistry & Molecular Biology
Tao Shi, Paulien E. Polderman, Marc Pages-Gallego, Robert M. Van Es, Harmjan R. Vos, Boudewijn M. T. Burgering, Tobias B. Dansen
Summary: Reversible cysteine oxidation is crucial in redox signaling and plays a role in altering protein structure and function. The tumor suppressor p53 is known to be redox-sensitive and can form disulfide-dependent interactions with other proteins under oxidizing conditions, potentially playing a role in regulating p53 activity.
Article
Biochemistry & Molecular Biology
Lucia Coppo, Simona Scheggi, Graziella DeMontis, Raffaella Priora, Simona Frosali, Antonio Margaritis, Domenico Summa, Danila Di Giuseppe, Monica Ulivelli, Paolo Di Simplicio
Summary: This article discusses the relationship between increased plasma concentrations of total homocysteine (tHcy) and the onset/progression of diseases, but it is not yet clear how the increase in tHcy leads to pathological conditions. It is suggested that albumin may play a role in homocysteine toxicity, and further research on the redox role of albumin and thiol-disulfide exchange reactions could offer new therapeutic insights for reducing homocysteine toxicity.
ANTIOXIDANTS & REDOX SIGNALING
(2023)
Article
Electrochemistry
Daria A. Burmistrova, Andrey Galustyan, Ivan V. Smolyaninov, Nadezhda T. Berberova
Summary: A range of substituted o-aminophenols have been investigated as redox mediators for thiol oxidation to disulfides. The electrooxidation of o-aminophenols leads to the formation of o-iminobenzoquinones, which react with thiols in solution to form disulfides. The use of 4,6-di-tert-butyl-2-(tert-butylamino)phenol as a redox mediator was found to reduce the overpotential of thiol oxidation, resulting in unsymmetrical disulfides with alkyl, aryl, and heteroaryl substituents.
JOURNAL OF THE ELECTROCHEMICAL SOCIETY
(2021)
Article
Biochemical Research Methods
Rijul Bhimwal, Richard R. Rustandi, Anne Payne, Mohamed Dawod
Summary: This review highlights the noteworthy advancements in capillary gel electrophoresis for protein separation and analysis from 2015 to 2021. It provides an overview of the technique's historical perspective, principles, challenges, and limitations, and discusses the advancements made to overcome these issues and expand our understanding of the method. The review also presents applications of capillary gel electrophoresis and future directions for the technique.
JOURNAL OF CHROMATOGRAPHY A
(2022)
Article
Biochemistry & Molecular Biology
Rebecca L. Charles, Giancarlo Abis, Beatriz F. Fernandez, Sebastian Guttzeit, Roberto Buccafusca, Maria R. Conte, Philip Eaton
Summary: The study revealed that H2O2 activates sEH by forming an intra-disulfide bond, increasing its catalytic efficiency. This oxidative activation mechanism also sensitizes sEH to inhibition by lipid electrophiles. The renin-angiotensin system regulates the intra-disulfide bond activation of sEH, leading to a decrease in EET/DHET ratio and an increase in blood pressure.
Article
Agriculture, Multidisciplinary
Chengkang Li, Soren B. Nielsen, Kasper Engholm-Keller, Marianne N. Lund
Summary: This study investigated the oxidation of different whey protein systems during heat treatment. The results showed that oxidation increased with higher temperatures but decreased in systems with higher complexity. Cysteine residues were found to be most prone to oxidation, and rearranged disulfide bonds provided physical protection against oxidation.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2022)
Article
Polymer Science
Yanhua Huang, Jianpan Yan, Dengxu Wang, Shengyu Feng, Chuanjian Zhou
Summary: Novel self-healing disulfide-linked silicone elastomers were developed via thiol oxidation coupling reactions, showing promising self-healing efficiency and reversible bonding capability.
Article
Chemistry, Applied
Laura Fitzner, Toni Kuehl, Mario Hasler, Diana Imhof, Karin Schwarz, Julia Katharina Keppler
Summary: UVB irradiation induces protein modification, while also introducing radicals and oxidizing side chains. This study focuses on assessing the functionalization of BLG through UVB irradiation and its oxidative degradation.
Article
Biochemistry & Molecular Biology
Daniel Maynard, Andrea Viehhauser, Madita Knieper, Anna Dreyer, Ghamdan Manea, Wilena Telman, Falk Butter, Kamel Chibani, Renate Scheibe, Karl-Josef Dietz
Summary: Alpha, beta-unsaturated carbonyls can react with thiols of metabolites like cysteine and glutathione in plant physiological processes. Compounds such as 12-oxophytodienoic acid and abscisic acid conjugate with cysteine, with varying reactivities towards glutathione. Furthermore, these compounds interact with proteins like members of the thioredoxin-fold family, affecting their activity in cellular regulation.
Article
Biochemistry & Molecular Biology
Hayato Irokawa, Satoshi Numasaki, Shin Kato, Kenta Iwai, Atsushi Inose-Maruyama, Takumi Ohdate, Gi-Wook Hwang Section, Takashi Toyama, Toshihiko Watanabe, Shusuke Kuge
Summary: Redox regulation of proteins via cysteine residue oxidation plays a critical role in controlling cellular signaling pathways. PKM2 is essential for metabolic shift in cancer cells under oxidative stress. Oxidation of Cys358 and Cys424 may contribute to eliminating excessive ROS and oxidative stress.
BIOCHEMICAL JOURNAL
(2021)
Article
Biochemistry & Molecular Biology
Pramod Subedi, Jason J. Paxman, Geqing Wang, Lilian Hor, Yaoqin Hong, Anthony D. Verderosa, Andrew E. Whitten, Santosh Panjikar, Carlos F. Santos-Martin, Jennifer L. Martin, Makrina Totsika, Begona Heras
Summary: This study identified and characterized a novel Dsb-like protein, BcfH, from Salmonella that has a trimeric structure and unconventional catalytic sites, contributing to fimbrial biogenesis. The structural and functional flexibility in the TRX-fold protein family was demonstrated, with BcfH showing multiple redox functions mimicking eukaryotic PDI activity in bacteria.
ANTIOXIDANTS & REDOX SIGNALING
(2021)
Article
Biochemistry & Molecular Biology
Johanna Maarit Koivisto, Nina Rodtness Poulsen, Benedikte Stoklund Larsen, M. G. M. Weibull, Amelie Stein, Fabio Doro, Jakob Rahr Winther, Kresten Lindorff-Larsen, Martin Willemoes
Summary: A genetic selection system for HIV protease activity was developed using a synthetic substrate. The growth of cells was found to be correlated with the cleavage efficiency of specific sites in the viral polyprotein Gag. This system provides a method for studying the activity of HIV protease.
BIOCHEMICAL JOURNAL
(2022)
Article
Chemistry, Medicinal
Sang-Woo Lee, Kim Tai Tran, Ruben Vazquez-Uribe, Charlotte Held Gotfredsen, Mads Hartvig Clausen, Blanca Lopez Mendez, Guillermo Montoya, Anders Bach, Morten Otto Alexander Sommer
Summary: CRISPR/Cas9 activity can be controlled by a small-molecule ligand identified in this study, which inhibits Cas9:gRNA complex formation by directly binding to apo-Cas9. These molecules may serve as Cas9 modulators in various applications.
JOURNAL OF MEDICINAL CHEMISTRY
(2022)
Article
Hematology
Amalie Carnbring Bonde, Jacob Lund, Jens Jacob Hansen, Jakob Rahr Winther, Per Franklin Nielsen, Stefan Zahn, Peter Tiainen, Ole Hvilsted Olsen, Helle Heibroch Petersen, Jais Rose Bjelke
Summary: The autolysis loop of factor X is shown to play a critical role in the regulation of its zymogen and active form. N-linked glycosylations introduced on the loop have position-specific effects on the interaction with inhibitors. In plasma-based assays, a modest decrease in FX activation rate can weaken the procoagulant response, even when down regulation of FXa activity by inhibitors is reduced.
JOURNAL OF THROMBOSIS AND HAEMOSTASIS
(2022)
Article
Chemistry, Applied
Mohamed Shaaban, Ahmed S. Abdel-Razek, Viola Previtali, Mads Hartvig Clausen, Charlotte H. Gotfredsen, Hartmut Laatsch, Ling Ding
Summary: In this study, a fungal endophyte, Aspergillus sp. strain FVL2, isolated from the traditional medicinal fennel plant, was investigated for its secondary metabolites. Three new natural products, along with 14 known metabolites, were discovered through fermentation and chromatographic separation. The chemical structures of the new metabolites were determined using NMR spectroscopy and ESI HR mass spectrometry. This discovery of diverse secondary metabolites expands the chemical space of Aspergillus.
NATURAL PRODUCT RESEARCH
(2023)
Article
Biochemistry & Molecular Biology
Dennis K. Hansen, Anders Lonstrup Hansen, Johanna M. Koivisto, Bashar Shuoker, Maher Abou Hachem, Jakob R. Winther, Martin Willemoes
Summary: This study found that the endo-alpha-N-acetylgalactosaminidase EngBF from Bifidobacterium longum can hydrolyze the sialidated mucin glycan, providing new insights into the metabolic mechanism of mucin glycans.
ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS
(2022)
Article
Plant Sciences
Frederikke D. Andersen, Katja D. Pedersen, Dennis Wilkens Juhl, Tobias Mygind, Paul Chopin, Esben B. Svenningsen, Thomas B. Poulsen, Marie Braad Lund, Andreas Schramm, Charlotte H. Gotfredsen, Thomas Torring
Summary: This study reveals that triculamin and alboverticillin, two natural products with potent and specific activity against mycobacteria, are actually the same lasso peptide. By determining the structure using 2D NMR spectroscopy and exploring the bioactivity, we found that their precursor peptides have a follower instead of a leader peptide, which is different from known lasso peptides.
JOURNAL OF NATURAL PRODUCTS
(2022)
Article
Biochemistry & Molecular Biology
Julie B. Nielsen, Tetiana Gren, Omkar S. Mohite, Tue S. Jorgensen, Andreas K. Klitgaard, Anna-Sophie Mourched, Kai Blin, Daniel Oves-Costales, Olga Genilloud, Thomas O. Larsen, David Tanner, Tilmann Weber, Charlotte H. Gotfredsen, Pep Charusanti
Summary: Actinomycetes produce a wealth of complex natural products. Researchers have identified the biosynthetic gene cluster for pyracrimycin A and proposed a complete biosynthesis pathway based on feeding experiments and isotope labeling analysis.
ACS CHEMICAL BIOLOGY
(2022)
Review
Pharmacology & Pharmacy
Henri Chedotal, Dilip Narayanan, Katrine Povlsen, Charlotte H. Gotfredsen, Roberta Brambilla, Michael Gajhede, Anders Bach, Mads H. Clausen
Summary: Tumor necrosis factor (TNF) is a pleiotropic cytokine involved in immune system homeostasis and various diseases. Biologics targeting TNF have limitations, and therefore, small molecules and alternative strategies for modulating TNF signaling are being explored.
DRUG DISCOVERY TODAY
(2023)
Article
Biochemistry & Molecular Biology
Kristoffer E. Johansson, Kresten Lindorff-Larsen, Jakob R. Winther
Summary: Identifying amino acid substitutions that improve both stability and function of a protein is a challenge in protein engineering. The Global Multi-Mutant Analysis (GMMA) method is used to identify beneficial substitutions across a large library of protein variants by analyzing multiply-substituted variants. Experimental results showed that the top-ranking substitutions progressively enhanced the function of GFP. Large libraries of multiply-substituted variants could provide valuable information for protein engineering.
JOURNAL OF MOLECULAR BIOLOGY
(2023)
Meeting Abstract
Oncology
Line Frederiksen, Friederike Erdmann, Luzius Mader, Hanna Mogensen, Camilla Pedersen, Line Kenborg, Andrea Bautz, Mats Talback, Elli Hirvonen, Thomas Tjornelund Nielsen, Anne Elisabeth Andersen, Anna Holmqvist, Ole Sylvester, Jens Richardt Jepsen, Nea Mallla, Henrik Hasle, Laura Madanat-Harjuoja, Maria Feychting, Jeanette Winther
PEDIATRIC BLOOD & CANCER
(2022)
Meeting Abstract
Oncology
Hanna Mogensen, Friederike Erdmann, Luzius Mader, Mats Talback, Thomas Tjornelund Nielsen, Henrik Hasle, Mats Heyman, Jeanette Winther, Maria Feychting, Giorgio Tettamanti, Line Kenborg
PEDIATRIC BLOOD & CANCER
(2022)
Meeting Abstract
Oncology
Kathrine Synne Weile, Louise Tram Henriksen, Rene Mathiasen, Henrik Hasle, Jeanette Winther
PEDIATRIC BLOOD & CANCER
(2022)
Meeting Abstract
Oncology
Line Frederiksen, Camilla Pedersen, Hanna Mogensen, Luzius Mader, Andrea Bautz, Mats Talback, Elli Hirvonen, Filippa Norsker, Henrik Hasle, Nea Malila, Laura Madanat-Harjuoja, Maria Feychting, Friederike Erdmann, Jeanette Winther
PEDIATRIC BLOOD & CANCER
(2022)
Meeting Abstract
Oncology
Line Frederiksen, Hanna Mogensen, Luzius Mader, Camilla Pedersen, Mats Talback, Thomas Tjornelund Nielsen, Anja Kroyer, Elli Hirvonen, Line Kenborg, Anna Holmqvist, Laura Madanat-Harjuoja, Henrik Hasle, Nea Malila, Maria Feychting, Friederike Erdmann, Jeanette Winther
PEDIATRIC BLOOD & CANCER
(2022)
Meeting Abstract
Oncology
Anne Sophie Lind Helligsoe, Louise Tram Henriksen, Line Kenborg, Yasmin Lassen-Ramshad, Lisa M. Wu, Jeanette Winther, Henrik Hasle, Ali Amidi
PEDIATRIC BLOOD & CANCER
(2022)
Article
Biochemical Research Methods
Saranya Krishnan, Shina Sasi, Preshobha Kodakkattumannil, Salima Al Senaani, Geetha Lekshmi, Martin Kottackal, Khaled M. A. Amiri
Summary: This study aimed to develop an efficient DNA extraction protocol suitable for diverse plant species and tissues. A reliable and consistent protocol was described for the extraction of high-quality DNA from difficult-to-extract plant species. The optimized protocol was successful in extracting high-quality DNA from various plant species and tissues, making it useful for genomic studies of recalcitrant plants.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Eisaku Hokazono, Saori Fukumoto, Takeshi Uchiumi, Susumu Osawa
Summary: This study proposes a method for detecting nucleic acid amplification using pyrophosphate, which requires only two reagents and an automated analyzer. The technique has high sensitivity and reproducibility, and can detect pyrophosphate within 10 minutes. Therefore, this method has the potential to be a new, rapid, and simple detection technique for amplified nucleic acids.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Drew S. Sowersby, L. Kevin Lewis
Summary: SURE electrophoresis is a new method for concentrating samples in gels, which allows efficient detection of highly dilute DNA samples. This approach generates single bands with enhanced signal intensities and minimal band broadening.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Hongyi Liang, Guoliang Yin, Guangxi Shi, Zhiyong Liu, Xiaofei Liu, Jingwei Li
Summary: The mechanism of Echinacoside (ECH) in treating breast cancer (BC) was explored through network pharmacology and experimental validation. It was found that ECH plays an important role in anti-BC by regulating the PI3K/AKT/HIF-1 alpha/VEGF signaling pathway, and it exhibits multi-target and multi-pathway effects.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Daniel S. Kantner, Emily Megill, Anna Bostwick, Vicky Yang, Carmen Bekeova, Alexandria Van Scoyk, Erin L. Seifert, Michael W. Deininger, Nathaniel W. Snyder
Summary: This study compared the results of different methods for measuring the amount of acetyl-Coenzyme A. The colorimetric ELISA kit did not produce interpretable results, while the fluorometric enzymatic kit showed comparable results to the LC-MS-based methods depending on the matrix and extraction conditions. LC-MS/MS and LC-HRMS methods produced well-aligned results, especially when using stable isotope-labeled internal standards.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Jingyan Xu, Hanying Tan, Xionghui Ma, Linjing Su, Zhi Zhang, Yuhao Xiong
Summary: This study investigates the co-catalytic capabilities of MoO3 nanosheets in enhancing the enzyme-like catalytic activity of a two-dimensional ultrathin Fe(III)-modified covalent triazine framework (Fe-CTF) under neutral pH conditions. The Fe-CTF/MoO3 co-catalytic system exhibits enzyme-mimicking activity and enables the development of a colorimetric method for glucose detection. Furthermore, a straightforward one-pot colorimetric method is established for screening XOD inhibitors.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Lichao Zhang, Kang Xiao, Xueting Wang, Liang Kong
Summary: A novel fusion technology was designed to identify FAD-binding sites, achieving the best results on two independent test datasets and outperforming existing methods significantly. The high performance and certainty of the method were demonstrated through statistical tests and cross-entropy loss analysis.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Abdulkadir Kilic, Mehmet Aslan, Abdulkadir Levent
Summary: This study developed a simple, rapid, sensitive, and selective voltammetric technique for the electrochemical characterization and detection of the highly risky drug Edoxaban. The optimized voltammetric method showed good analytical working range and was successfully applied to urine and tablet samples.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Su Hyun Kim, Nara Shin, Jong-Min Jeon, Jeong-Jun Yoon, Jeong Chan Joo, Hee Taek Kim, Shashi Kant Bhatia, Yung-Hun Yang
Summary: To address environmental issues caused by traditional plastics, bioplastics have gained attention as alternatives. Although bioplastics have better degradability, their degradation still takes longer than anticipated. This study proposes a novel screening method to identify bioplastic degraders faster, saving time and providing more quantitative data.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Irem Okman Kocoglu, Pinar Esra Erden, Esma Kilic
Summary: In this study, an electrochemical biosensor based on carbon nanofibers and ionic liquid modification was constructed for tyramine detection. The biosensor showed linear response, low detection limit, high sensitivity, and exhibited good reproducibility, stability, and anti-interference ability.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Liana U. Akhmetzianova, Timur M. Davletkulov, Assol R. Sakhabutdinova, Alexey Chemeris, Irek M. Gubaydullin, Ravil R. Garafutdinov
Summary: A new program called LAMPrimers iQ has been developed for high-quality LAMP primer design, and its advantages in providing higher specificity and reliable detection of viral RNA were validated using SARS-CoV-2 coronavirus RNA as a model target.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Tommaso Pileri, Alberto Sinibaldi, Agostino Occhicone, Norbert Danz, Elena Giordani, Matteo Allegretti, Frank Sonntag, Peter Munzert, Patrizio Giacomini, Francesco Michelotti
Summary: This study developed a biosensing device based on one-dimensional photonic crystal to detect HER2 in breast cancer. The device combines label-free and fluorescence operation modes, allowing for real-time and accurate detection in less than 20 minutes. It offers a promising technique for combined label-free and fluorescence detection in disease diagnosis and therapeutic monitoring.
ANALYTICAL BIOCHEMISTRY
(2024)
