Review
Pharmacology & Pharmacy
Yun Li, Hong Yang, Tianhan He, Liang Zhang, Chao Liu
Summary: Cav1.2 plays a crucial role in neurodegenerative diseases, but the regulation of its activity remains incompletely understood. The repurposing of DHP drugs may offer potential therapeutic strategies, but further research is needed.
FRONTIERS IN PHARMACOLOGY
(2022)
Article
Multidisciplinary Sciences
Gonzalo J. Beitia, Trevor J. Rutherford, Stefan M. Freund, Hugh R. Pelham, Mariann Bienz, Melissa Gammons
Summary: The study reveals that intermolecular contacts in the DEP dimer of Dishevelled protein play a crucial role in its stability and function in relaying canonical Wnt signals, and these contacts are mediated by a phosphorylation site that can regulate the protein's activity.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Biochemical Research Methods
Mehar Un Nissa, Nevil Pinto, Arijit Mukherjee, Panga Jaipal Reddy, Biplab Ghosh, Zhi Sun, Saicharan Ghantasala, Chetanya Chetanya, Sanjyot Vinayak Shenoy, Robert L. Moritz, Mukunda Goswami, Sanjeeva Srivastava
Summary: Proteomic studies on Labeo rohita provided a comprehensive organ-based protein profiling, identifying a large number of proteins and global post-translational modifications. These findings offer important insights for basic and applied research in aquaculture field.
JOURNAL OF PROTEOME RESEARCH
(2022)
Review
Chemistry, Multidisciplinary
Bingjie Zhang, Shanshan Li, Wenqing Shui
Summary: G protein-coupled receptors (GPCRs) are a large family of proteins that play significant roles in cellular and physiological responses. Post-translational modifications (PTMs) of GPCRs, such as glycosylation, phosphorylation, ubiquitination and palmitoylation, have important regulatory functions in receptor folding, biosynthesis, trafficking, dimerization and signaling. This review provides an overview of PTMs in GPCRs, focusing on their types, locations, cross talk and dynamic regulation, which can shed light on the molecular basis of GPCRs and contribute to structure-based drug discovery.
FRONTIERS IN CHEMISTRY
(2022)
Article
Biochemistry & Molecular Biology
Kinga Gostomska-Pampuch, Jacek R. Wisniewski, Karol Sowinski, Wieslaw Gruszecki, Andrzej Gamian, Magdalena Staniszewska
Summary: The study found that the glycation product MAGE, generated from the reaction of melibiose with a protein, is more efficiently formed under dry conditions compared to aqueous conditions. Different structures of myoglobin with melibiose were identified, including crosslinking and non-crosslinking modifications. The results suggest that MAGE adduct is initiated by coupling melibiose to a model myoglobin protein and can further rearrange into more advanced structures.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Sorel Tchewonpi Sagu, Harshadrai M. Rawel, Sascha Rohn
Summary: This study investigated the post-translational modification (PTM) of kappa-casein (kappa-CN) during bovine milk fermentation. A LC-MS method was developed to identify and quantify the modified and unmodified variants of four peptides containing serine and threonine residues. The results showed that over 50% of kappa-CN existed in one of its modified forms in milk, and fermentation significantly altered the composition of unmodified/modified kappa-CN.
Review
Biochemical Research Methods
Mario Leutert, Samuel W. Entwisle, Judit Villen
Summary: Post-translational modifications (PTMs) play a crucial role in regulating protein functions and diversifying the proteome. PTM crosstalk, the interaction between multiple PTMs on the same or different proteins, has been elucidated through advanced proteomic technologies, mass spectrometry instrumentation, and bioinformatics, providing insights into the functional consequences of these interactions.
MOLECULAR & CELLULAR PROTEOMICS
(2021)
Article
Biochemical Research Methods
Oscar M. Camacho, Kerry A. Ramsbottom, Andrew Collins, Andrew R. Jones
Summary: Phosphorylation is a significant post-translational modification that researchers are interested in due to its involvement in various biological processes. LC-MS/MS techniques have allowed for high-throughput data acquisition and the identification and localization of numerous phosphosites. However, there is uncertainty in the analytical pipelines and scoring algorithms used, and little is known about the global false localization rate. A decoy amino acid approach has been suggested to estimate the false localization rates of phosphosites. In this study, a simple pipeline is described that improves phosphosite identification and combines findings from multiple studies while tracking false localization rates.
JOURNAL OF PROTEOME RESEARCH
(2023)
Article
Biochemical Research Methods
Hauh-Jyun Candy Chen, Yan-Ling Liao
Summary: Although malondialdehyde and methylglyoxal have the same molecular formula, they have different chemistry in forming protein adducts. The major lysine adduct of malondialdehyde in hemoglobin is the N-propenal type, while that of methylglyoxal is N6-(1-carboxyethyl)lysine. This Letter provides evidence that the methylglyoxal-like hemoglobin adducts are not derived from malondialdehyde. This Letter also discusses the quantification of malondialdehyde-induced post-translational modifications in human hemoglobin by different mass spectrometry-based methods.
JOURNAL OF PROTEOME RESEARCH
(2023)
Article
Oncology
Pooja Gulhane, Shailza Singh
Summary: Non-Small Cell Lung Cancer (NSCLC) is the most common type of lung cancer, accounting for about 85% of all cases. Despite the availability of numerous therapies, the survival rate is low, highlighting the need to understand the mechanisms underlying NSCLC cell survival and progression. Post Translational Modifications (PTMs), such as phosphorylation, methylation, and acetylation, have been implicated in cancer progression and metastasis, including NSCLC. A comprehensive understanding of PTMs associated with NSCLC biology can offer novel therapeutic targets and insights into current treatment approaches.
TRANSLATIONAL ONCOLOGY
(2023)
Article
Multidisciplinary Sciences
P. K. Rout, M. Verma
Summary: Goat milk is a valuable source of nutrition in challenging areas, with diverse post translational modifications observed in goat milk proteins, such as phosphorylation, impacting protein function and activity.
SCIENTIFIC REPORTS
(2021)
Review
Oncology
Longtao Yang, Wenwen Zhou, Hui Lin
Summary: Smurfs, belonging to the Nedd4 subfamily of HECT-type E3 ubiquitin ligases, are strictly managed by upstream regulators to control tumor biological processes. PTMs, such as phosphorylation and ubiquitination, play a crucial role in regulating Smurf activity.
FRONTIERS IN ONCOLOGY
(2021)
Article
Biochemical Research Methods
Juho Heininen, Catharina Erbacher, Tapio Kotiaho, Risto Kostiainen, Jaakko Teppo
Summary: Post-translational modifications (PTMs) can modify the function and fate of proteins and cells. We studied the enzymatic phosphorylation of oxidized tyrosine residues and found that this modification can occur simultaneously with oxidation at the same amino acid.
JOURNAL OF PROTEOME RESEARCH
(2023)
Review
Biotechnology & Applied Microbiology
Laura Bryan, Martin Clynes, Paula Meleady
Summary: CHO cells are commonly used host cell lines for producing human therapeutic proteins. Research has focused on improving growth, titre, and productivity of CHO cells to reduce production costs. Recent interest in CHO cell engineering has led to studies on post-translational modifications affecting protein functionality.
BIOTECHNOLOGY ADVANCES
(2021)
Article
Immunology
Neil G. Rumachik, Stacy A. Malaker, Nicole K. Paulk
Summary: Advances in gene therapy product and process development have improved our understanding of the basic biology of recombinant AAV, with a particular focus on post-translational modifications of the capsid protein. Concerns about immunogenic responses to high doses of systemically administered rAAV have emphasized the importance of cataloging and tracking potentially immunogenic components of vector lots.
FRONTIERS IN IMMUNOLOGY
(2021)
Article
Plant Sciences
Maria Flores-Tornero, Lele Wang, David Potesil, Said Hafidh, Frank Vogler, Zbynek Zdrahal, David Honys, Stefanie Sprunck, Thomas Dresselhaus
Summary: Analyses of secretomes from in vitro grown pollen tubes reveal significant differences in protein composition and pathways among different plant species, particularly in relation to functions associated with cell wall, cell surface, energy metabolism, lipid metabolism, proteolysis, and redox processes. Novel small secreted proteins were identified, and it was found that secreted proteins containing pro-peptides are processed in the apoplast.
PLANT REPRODUCTION
(2021)
Article
Plant Sciences
Kamil Mikulasek, Hana Konecna, David Potesil, Renata Holankova, Jan Havlis, Zbynek Zdrahal
Summary: The study evaluated four sample preparation methods and found that SP3 on carboxylated magnetic particles is the best choice for removing SDS and other contaminants from plant sample lysate, while reducing handling time and cost per assay.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Engineering, Environmental
Alper James G. Alcaraz, David Potesil, Kamil Mikulasek, Derek Green, Bradley Park, Connor Burbridge, Kerstin Bluhm, Othman Soufan, Taylor Lane, Marek Pipal, Markus Brinkmann, Jianguo Xia, Zbynek Zdrahal, David Schneider, Doug Crump, Niladri Basu, Natacha Hogan, Markus Hecker
Summary: This study aimed to develop a comprehensive early life stage toxicity pathway model for fish exposed to estrogenic chemicals, rooted in mechanistic toxicology. The integration of omics data improved the interpretation of perturbations in early life stage fish, showing promise as a replacement for standard adult live animal tests. The study provided evidence of conservation of toxicity pathways across levels of biological organization.
ENVIRONMENTAL SCIENCE & TECHNOLOGY
(2021)
Article
Environmental Sciences
Alper James G. Alcaraz, Shaina Baraniuk, Kamil Mikulasek, Bradley Park, Taylor Lane, Connor Burbridge, Jessica Ewald, David Potesil, Jianguo Xia, Zbynek Zdrahal, David Schneider, Doug Crump, Niladri Basu, Natacha Hogan, Markus Brinkmann, Markus Hecker
Summary: Current approaches in chemical hazard assessment, which rely on live animal testing, face challenges due to concerns about time, cost, and ethics. This study developed a new approach using a short-term embryo assay to predict the toxicity of fluoxetine and obtained protective points-of-departure.
ENVIRONMENTAL POLLUTION
(2022)
Article
Endocrinology & Metabolism
Pavel Hruska, Jan Kucera, Matej Pekar, Pavol Holeczy, Miloslav Mazur, Marek Buzga, Daniela Kuruczova, Peter Lenart, Jana Fialova Kucerova, David Potesil, Zbynek Zdrahal, Julie Bienertova-Vasku
Summary: The study compared the proteomic profiles of mature adipocytes from different adipose tissue depots, with findings showing that subcutaneous adipocytes are more active in vesicular transport, secretion, and lipid metabolism, while visceral adipocytes have higher protein expression related to mitochondrial energy metabolism and translational or biosynthetic activity.
JOURNAL OF CLINICAL ENDOCRINOLOGY & METABOLISM
(2022)
Article
Cell & Tissue Engineering
Sebastiano Giallongo, Daniela Rehakova, Tommaso Biagini, Oriana Lo Re, Priyanka Raina, Gabriela Lochmanova, Zbynek Zdrahal, Igor Resnick, Pille Pata, Illar Pata, Martin Mistrik, Joao Pedro de Magalhaes, Tommaso Mazza, Irena Koutna, Manlio Vinciguerra
Summary: The study identifies the splicing isoform macroH2A1.1 as a potential regulator of DNA damage repair (DDR) during iPSC reprogramming. MacroH2A1.1 overexpression enhances DDR efficiency through specific activation of the nonhomologous end joining (NHEJ) repair pathway. It also improves iPSC reprogramming, indicating its importance in maintaining genome stability and therapeutic potential.
Article
Food Science & Technology
Jan Barta, Veronika Bartova, Marketa Jarosova, Josef Svajner, Pavel Smetana, Jaromir Kadlec, Vladimir Filip, Jan Kyselka, Marketa Bercikova, Zbynek Zdrahal, Marie Bjelkova, Marcin Kozak
Summary: This study evaluated chemical composition, functional properties, and antioxidant activities of oilseed cake flours from eight different species. It was found that the A250 fractions, rich in protein and antioxidants, exhibited enhanced water holding capacity and color compared to the B250 fractions.
Article
Chemistry, Analytical
Petra Jezkova, Jana Skrickova, Gejza Wimmer, Jana Zelinkova, Zbynek Zdrahal, Erika Lattova
Summary: In this study, the advantage of phenylhydrazine labeling for the detection and discrimination of sialic acid linkages was demonstrated. The results showed that phenylhydrazine-labeled sialylated oligosaccharides can be easily recognized and produce favorable fragmentation patterns during mass spectrometry experiments. A comparison of two esterification methods showed that methylation exhibited slightly higher linkage specificity. The simplicity and effectiveness of this methodology were confirmed using model compounds and serum samples.
ANALYTICAL CHEMISTRY
(2022)
Article
Biochemistry & Molecular Biology
Iosif Kaurov, Jiri Heller, Sebastian Deisenhammer, David Potesil, Zbynek Zdrahal, Hassan Hashimi
Summary: The mitochondrial protein import machinery in trypanosomatids differs greatly from well-studied models such as baker's yeast. A central catalyst of the mitochondrial intermembrane space import and assembly pathway (MIA), Mia40, is missing in trypanosomatids. TbMic20, a thioredoxin-like subunit of the mitochondrial contact site and cristae organizing system (MICOS), was proposed as a potential replacement for Mia40. However, the study shows that TbMic20 is unlikely to be a true replacement for Mia40 and plays an unresolved role in the stability and/or import of MIA substrates in trypanosomatids.
MOLECULAR AND BIOCHEMICAL PARASITOLOGY
(2022)
Article
Environmental Sciences
Carly Colville, Alper James Alcaraz, Derek Green, Bradley Park, Jianguo Xia, Othman Soufan, Pavel Hruska, David Potesil, Zbynek Zdrahal, Doug Crump, Niladri Basu, Natacha Hogan, Markus Hecker
Summary: This study investigated the mechanistic toxicity of fluoxetine (FLX) in adult fathead minnows using new approach methodologies (NAMs). The results revealed that high concentrations of FLX caused molecular toxicity changes in the liver and brain, leading to lipid-type vacuolation in liver hepatocytes and alterations in serotonin-related signaling processes and reproductive behavior in the brain.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Article
Cell Biology
Zankruti Dave, Olga Vondalova Blanarova, Stepan Cada, Pavlina Janovska, Nikodem Zezula, Martin Behal, Katerina Hanakova, Sri Ranjani Ganji, Pavel Krejci, Kristina Gomoryova, Helena Peschelova, Michal Smida, Zbynek Zdrahal, Sarka Pavlova, Jana Kotaskova, Sarka Pospisilova, Vitezslav Bryja
Summary: In this study, the functional interaction between Lyn and ROR1 was analyzed, and it was found that Lyn could phosphorylate ROR1 and recruit c-CBL. The Lyn-mediated phosphorylation of ROR1 was shown to inhibit the migration and chemotactic properties of CLL cells, as demonstrated by the use of a Lyn inhibitor.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Pathology
Ximena M. Muresan, Eva Slabakova, Jirina Prochazkova, Stanislav Drapela, Radek Fedr, Marketa Pickova, Ondrej Vacek, Rachel Vichova, Tereza Suchankova, Jan Bouchal, Daniela Kurfurstova, Milan Kral, Tereza Hulinova, Radek P. Sykora, Vladimir Student, Vaclav Hejret, Wytske M. van Weerden, Martin Puhr, Vaclav Pustka, David Potesil, Zbynek Zdrahal, Zoran Culig, Karel Soucek
Summary: TLR3 may be involved in the progression and metastasis of prostate cancer by inducing cytokine secretion and regulating cell motility, migration, and tumor invasiveness.
AMERICAN JOURNAL OF PATHOLOGY
(2022)
Article
Cell Biology
Masa Zrimsek, Hana Kucharikova, Kristina Draganic, Pavlina Dobrovolna, Verena Heiss Spornberger, Lisa Winkelmayer, Melanie R. Hassler, Gabriela Lochmanova, Zbynek Zdrahal, Gerda Egger
Summary: Histone deacetylases (HDACs) play important roles in regulating genomic stability, cell cycle, cell death, and differentiation, particularly in tumorigenesis. This study investigated the effects of HDAC inhibition in tumor cells using drug treatment and gene deletion approaches. Changes in protein expression and acetylation were measured, revealing alterations in overall protein abundance and increased acetylation of histones and non-histone proteins, with potential implications for metabolic and DNA damage pathways.
Article
Multidisciplinary Sciences
Milan Hluchy, Pavla Gajduskova, Igor Ruiz de los Mozos, Michal Rajecky, Michael Kluge, Benedict-Tilman Berger, Zuzana Slaba, David Potesil, Elena Weiss, Jernej Ule, Zbynek Zdrahal, Stefan Knapp, Kamil Paruch, Caroline C. Friedel, Dalibor Blazek
Summary: RNA splicing, regulated by the spliceosome, is crucial for gene expression. CDK11 phosphorylates SF3B1 during spliceosome activation, which is important for spliceosome assembly and splicing regulation. Inhibition of CDK11 leads to defective spliceosome activation and disrupts the splicing process.
Article
Plant Sciences
Michal Stroch, Vaclav Karlicky, Petr Ilik, Iva Ilikova, Monika Opatikova, Lukas Nosek, Pavel Pospisil, Marika Svrckova, Marek Rac, Pavel Roudnicky, Zbynek Zdrahal, Vladimir Spunda, Roman Kouril
Summary: The adaptation of higher plants to different light intensities involves reorganization of the photosynthetic apparatus. Spruce has a distinct strategy compared to Arabidopsis in response to light acclimation, where it does not modify its PSII/PSI ratio and PSII antenna size but relies on a stable Chl a/b ratio. The crucial photoprotective mechanism in spruce involves a large PSII antenna with weakly bound LHCIIs and sensitive control of PSI level.
PHOTOSYNTHESIS RESEARCH
(2022)
