14 results on '"Dziubek K"'
Search Results
2. High-pressure studies of simple ethers
- Author
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Olejniczak, A., primary, Sacharczuk, N., additional, Bujak, M., additional, Dziubek, K., additional, Katrusiak, A., additional, and Podsiadło, M., additional
- Published
- 2023
- Full Text
- View/download PDF
3. High-pressure research and crystallography: the great unification
- Author
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Dziubek, K. F., primary
- Published
- 2023
- Full Text
- View/download PDF
4. Binary arsenic nitride synthesized from elements under pressure
- Author
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Dziubek, K., primary, Ceppatelli, M., additional, Scelta, D., additional, Serrano-Ruiz, M., additional, Morana, M., additional, Svitlyk, V., additional, Garbarino, G., additional, Poręba, T., additional, Mezouar, M., additional, Peruzzini, M., additional, and Bini, R., additional
- Published
- 2022
- Full Text
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5. PD-1 interactome in osteosarcoma: identification of a novel PD-1/AXL interaction conserved between humans and dogs.
- Author
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Dziubek K, Faktor J, Lokhande KB, Shrivastava A, Papak I, Chrusciel E, Pilch M, Hupp T, Marek-Trzonkowska N, Singh A, Parys M, and Kote S
- Subjects
- Humans, Animals, Dogs, Cell Line, Tumor, Protein Binding, Bone Neoplasms metabolism, Bone Neoplasms pathology, Bone Neoplasms genetics, Osteosarcoma metabolism, Osteosarcoma pathology, Osteosarcoma genetics, Programmed Cell Death 1 Receptor metabolism, Programmed Cell Death 1 Receptor genetics, Proto-Oncogene Proteins metabolism, Proto-Oncogene Proteins genetics, Receptor Protein-Tyrosine Kinases metabolism, Receptor Protein-Tyrosine Kinases genetics, Axl Receptor Tyrosine Kinase
- Abstract
The PD-1/PDL-1 immune checkpoint inhibitors revolutionized cancer treatment, yet osteosarcoma remains a therapeutic challenge. In some types of cancer, PD-1 receptor is not solely expressed by immune cells but also by cancer cells, acting either as a tumor suppressor or promoter. While well-characterized in immune cells, little is known about the role and interactome of the PD-1 pathway in cancer. We investigated PD-1 expression in human osteosarcoma cells and studied PD-1 protein-protein interactions in cancer. Using U2OS cells as a model, we confirmed PD-1 expression by western blotting and characterized its intracellular as well as surface localization through flow cytometry and immunofluorescence. High-throughput analysis of PD-1 interacting proteins was performed using a pull-down assay and quantitative mass spectrometry proteomic analysis. For validation and molecular modeling, we selected tyrosine kinase receptor AXL-a recently reported cancer therapeutic target. We confirmed the PD-1/AXL interaction by immunoblotting and proximity ligation assay (PLA). Molecular dynamics (MD) simulations uncovered binding affinities and domain-specific interactions between extracellular (ECD) and intracellular (ICD) domains of PD-1 and AXL. ECD complexes exhibited strong binding affinity, further increasing for the ICD complexes, emphasizing the role of ICDs in the interaction. PD-1 phosphorylation mutant variants (Y223F and Y248F) did not disrupt the interaction but displayed varying strengths and binding affinities. Using bemcentinib, a selective AXL inhibitor, we observed reduced binding affinity in the PD-1/AXL interaction, although it was not abrogated. To facilitate the future translation of this finding into clinical application, we sought to validate the interaction in canine osteosarcoma. Osteosarcoma spontaneously occurs at significantly higher frequency in dogs and shares close genetic and pathological similarities with humans. We confirmed endogenous expression of PD-1 and AXL in canine osteosarcoma cells, with PD-1/AXL interaction preserved in the dog cells. Also, the interacting residues remain conserved in both species, indicating an important biological function of the interaction. Our study shed light on the molecular basis of the PD-1/AXL interaction with the implication for its conservation across species, providing a foundation for future research aimed at improving immunotherapy strategies and developing novel therapeutic approaches., Competing Interests: Declarations. Competing interests: The authors declare no competing interests., (© 2024. The Author(s).)
- Published
- 2024
- Full Text
- View/download PDF
6. Comparative characterization of two monoclonal antibodies targeting canine PD-1.
- Author
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Kocikowski M, Dziubek K, Węgrzyn K, Hrabal V, Zavadil-Kokas F, Vojtesek B, Alfaro JA, Hupp T, and Parys M
- Subjects
- Animals, Humans, B7-H1 Antigen immunology, B7-H1 Antigen antagonists & inhibitors, B7-H1 Antigen metabolism, Dog Diseases immunology, Dog Diseases drug therapy, Epitopes immunology, Immune Checkpoint Inhibitors immunology, Immune Checkpoint Inhibitors pharmacology, Neoplasms immunology, Neoplasms veterinary, Neoplasms drug therapy, Protein Binding, Dogs, Antibodies, Monoclonal immunology, Programmed Cell Death 1 Receptor antagonists & inhibitors, Programmed Cell Death 1 Receptor immunology
- Abstract
Monoclonal antibodies targeting immune checkpoints have revolutionized oncology. Yet, the effectiveness of these treatments varies significantly among patients, and they are associated with unexpected adverse events, including hyperprogression. The murine research model used in drug development fails to recapitulate both the functional human immune system and the population heterogeneity. Hence, a novel model is urgently needed to study the consequences of immune checkpoint blockade. Dogs appear to be uniquely suited for this role. Approximately 1 in 4 companion dogs dies from cancer, yet no antibodies are commercially available for use in veterinary oncology. Here we characterize two novel antibodies that bind canine PD-1 with sub-nanomolar affinity as measured by SPR. Both antibodies block the clinically crucial PD-1/PD-L1 interaction in a competitive ELISA assay. Additionally, the antibodies were tested with a broad range of assays including Western Blot, ELISA, flow cytometry, immunofluorescence and immunohistochemistry. The antibodies appear to bind two distinct epitopes as predicted by molecular modeling and peptide phage display. Our study provides new tools for canine oncology research and a potential veterinary therapeutic., Competing Interests: BV is a consultant for Moravian Biotechnology, who originally produced the PD-1 monoclonal antibodies used in this study. The company did not provide financial support or have any influence over the design, execution, or interpretation of the data. MP is a founder of CanCan Diagnostics, which had no involvement in the study and its results, and declares no conflict of interest. The remaining authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest., (Copyright © 2024 Kocikowski, Dziubek, Węgrzyn, Hrabal, Zavadil-Kokas, Vojtesek, Alfaro, Hupp and Parys.)
- Published
- 2024
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7. Stability, Chemical Bonding, and Electron Lone Pair Localization in AsN at High Pressure by Density Functional Theory Calculations.
- Author
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Sukserm A, Ceppatelli M, Serrano-Ruiz M, Scelta D, Dziubek K, Morana M, Bini R, Peruzzini M, Bovornratanaraks T, Pinsook U, and Scandolo S
- Abstract
The covalent bonding framework of crystalline single-bonded cubic AsN, recently synthesized under high pressure and high temperature conditions in a laser-heated diamond anvil cell, is here studied by means of density functional theory calculations and compared to single crystal X-ray diffraction data. The precise localization of the nonbonding electron lone pairs and the determination of their distances and orientations are related to the presence of characteristic structural motifs and space regions of the unit cell dominated by repulsive electronic interactions, with the relative orientation of the electron lone pairs playing a key role in minimizing the energy of the structure. We find that the vibrational modes associated with the expression of the lone pairs are strongly localized, an observation that may have implications for the thermal conductivity of the compound. The results indicate the thermodynamic stability of the experimentally observed structure of AsN above ∼17 GPa, provide a detailed insight into the nature of the chemical bonding network underlying the formation of this compound, and open new perspectives to the design and high pressure synthesis of new pnictogen-based advanced materials for potential applications of energetic and technological relevance.
- Published
- 2024
- Full Text
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8. High-pressure and high-temperature synthesis of crystalline Sb 3 N 5 .
- Author
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Ceppatelli M, Serrano-Ruiz M, Morana M, Dziubek K, Scelta D, Garbarino G, Poręba T, Mezouar M, Bini R, and Peruzzini M
- Abstract
A chemical reaction between Sb and N
2 was induced under high-pressure (32-35 GPa) and high-temperature (1600-2200 K) conditions, generated by a laser heated diamond anvil cell. The reaction product was identified by single crystal synchrotron X-ray diffraction at 35 GPa and room temperature as crystalline antimony nitride with Sb3 N5 stoichiometry and structure belonging to orthorhombic space group Cmc21 . Only Sb-N bonds are present in the covalent bonding framework, with two types of Sb atoms respectively forming SbN6 distorted octahedra and trigonal prisms and three types of N atoms forming NSb4 distorted tetrahedra and NSb3 trigonal pyramids. Taking into account two longer Sb-N distances, the SbN6 trigonal prisms can be depicted as SbN8 square antiprisms and the NSb3 trigonal pyramids as NSb4 distorted tetrahedra. The Sb3 N5 structure can be described as an ordered stacking in the bc plane of bi- layers of SbN6 octahedra alternated to monolayers of SbN6 trigonal prisms (SbN8 square antiprisms). The discovery of Sb3 N5 finally represents the long sought-after experimental evidence for Sb to form a crystalline nitride, providing new insights about fundamental aspects of pnictogens chemistry and opening new perspectives for the high-pressure chemistry of pnictogen nitrides and the synthesis of an entire class of new materials., (© 2023 The Authors. Angewandte Chemie International Edition published by Wiley-VCH GmbH.)- Published
- 2024
- Full Text
- View/download PDF
9. What can a thermal imaging camera tell you? Idiopathic Harlequin Syndrome.
- Author
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Dziubek D, Dziubek K, and Stodolak M
- Subjects
- Adult, Humans, Thermography methods, Autonomic Nervous System Diseases diagnostic imaging, Autonomic Nervous System Diseases diagnosis, Flushing, Hypohidrosis diagnostic imaging, Hypohidrosis diagnosis
- Published
- 2024
- Full Text
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10. Development of Monoclonal Antibodies Targeting Canine PD-L1 and PD-1 and Their Clinical Relevance in Canine Apocrine Gland Anal Sac Adenocarcinoma.
- Author
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Minoli L, Licenziato L, Kocikowski M, Cino M, Dziubek K, Iussich S, Fanelli A, Morello E, Martano M, Hupp T, Vojtesek B, Parys M, and Aresu L
- Abstract
Canine apocrine gland anal sac adenocarcinoma (AGASACA) is an aggressive canine tumor originating from the anal sac glands. Surgical resection, with or without adjuvant chemotherapy, represents the standard of care for this tumor, but the outcome is generally poor, particularly for tumors diagnosed at an advanced stage. For this reason, novel treatment options are warranted, and a few recent reports have suggested the activation of the immune checkpoint axis in canine AGASACA. In our study, we developed canine-specific monoclonal antibodies targeting PD-1 and PD-L1. A total of 41 AGASACAs with complete clinical and follow-up information were then analyzed by immunohistochemistry for the expression of the two checkpoint molecules (PD-L1 and PD-1) and the presence of tumor-infiltrating lymphocytes (CD3 and CD20), which were evaluated within the tumor bulk (intratumor) and in the surrounding stroma (peritumor). Seventeen AGASACAs (42%) expressed PD-L1 in a range between 5% and 95%. The intratumor lymphocytes were predominantly CD3+ T-cells and were positively correlated with the number of PD-1+ intratumor lymphocytes ( ρ = 0.36; p = 0.02). The peritumor lymphocytes were a mixture of CD3+ and CD20+ cells with variable PD-1 expression (range 0-50%). PD-L1 expression negatively affected survival only in the subgroup of dogs treated with surgery alone ( n = 14; 576 vs. 235 days). The presence of a heterogeneous lymphocytic infiltrate and the expression of PD-1 and PD-L1 molecules support the relevance of the immune microenvironment in canine AGASACAs and the potential value of immune checkpoints as promising therapeutic targets.
- Published
- 2022
- Full Text
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11. High-Pressure and High-Temperature Chemistry of Phosphorus and Nitrogen: Synthesis and Characterization of α- and γ-P 3 N 5 .
- Author
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Ceppatelli M, Scelta D, Serrano-Ruiz M, Dziubek K, Izquierdo-Ruiz F, Recio JM, Garbarino G, Svitlyk V, Mezouar M, Peruzzini M, and Bini R
- Abstract
The direct chemical reactivity between phosphorus and nitrogen was induced under high-pressure and high-temperature conditions (9.1 GPa and 2000-2500 K), generated by a laser-heated diamond anvil cell and studied by synchrotron X-ray diffraction, Raman spectroscopy, and DFT calculations. α-P
3 N5 and γ-P3 N5 were identified as reaction products. The structural parameters and vibrational frequencies of γ-P3 N5 were characterized as a function of pressure during room-temperature compression and decompression to ambient conditions, determining the equation of state of the material up to 32.6 GPa and providing insight about the lattice dynamics of the unit cell during compression, which essentially proceeds through the rotation of the PN5 square pyramids and the distortion of the PN4 tetrahedra. Although the identification of α-P3 N5 demonstrates for the first time the direct synthesis of this compound from the elements, its detection in the outer regions of the laser-heated area suggests α-P3 N5 as an intermediate step in the progressive nitridation of phosphorus toward the formation of γ-P3 N5 with increasing coordination number of P by N from 4 to 5. No evidence of a higher-pressure phase transition was observed, excluding the existence of predicted structures containing octahedrally hexacoordinated P atoms in the investigated pressure range.- Published
- 2022
- Full Text
- View/download PDF
12. What Inhibits Natural Killers' Performance in Tumour.
- Author
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Papak I, Chruściel E, Dziubek K, Kurkowiak M, Urban-Wójciuk Z, Marjański T, Rzyman W, and Marek-Trzonkowska N
- Subjects
- Humans, Immunotherapy, Killer Cells, Natural, T-Lymphocytes, Immunotherapy, Adoptive methods, Neoplasms therapy
- Abstract
Natural killer cells are innate lymphocytes with the ability to lyse tumour cells depending on the balance of their activating and inhibiting receptors. Growing numbers of clinical trials show promising results of NK cell-based immunotherapies. Unlike T cells, NK cells can lyse tumour cells independent of antigen presentation, based simply on their activation and inhibition receptors. Various strategies to improve NK cell-based therapies are being developed, all with one goal: to shift the balance to activation. In this review, we discuss the current understanding of ways NK cells can lyse tumour cells and all the inhibitory signals stopping their cytotoxic potential.
- Published
- 2022
- Full Text
- View/download PDF
13. Autoimmunity and Cancer-Two Sides of the Same Coin.
- Author
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Sakowska J, Arcimowicz Ł, Jankowiak M, Papak I, Markiewicz A, Dziubek K, Kurkowiak M, Kote S, Kaźmierczak-Siedlecka K, Połom K, Marek-Trzonkowska N, and Trzonkowski P
- Subjects
- Autoimmunity, Humans, Immunotherapy, Antineoplastic Agents, Autoimmune Diseases etiology, Neoplasms therapy
- Abstract
Autoimmune disease results from the immune response against self-antigens, while cancer develops when the immune system does not respond to malignant cells. Thus, for years, autoimmunity and cancer have been considered as two separate fields of research that do not have a lot in common. However, the discovery of immune checkpoints and the development of anti-cancer drugs targeting PD-1 (programmed cell death receptor 1) and CTLA-4 (cytotoxic T lymphocyte antigen 4) pathways proved that studying autoimmune diseases can be extremely helpful in the development of novel anti-cancer drugs. Therefore, autoimmunity and cancer seem to be just two sides of the same coin. In the current review, we broadly discuss how various regulatory cell populations, effector molecules, genetic predisposition, and environmental factors contribute to the loss of self-tolerance in autoimmunity or tolerance induction to cancer. With the current paper, we also aim to convince the readers that the pathways involved in cancer and autoimmune disease development consist of similar molecular players working in opposite directions. Therefore, a deep understanding of the two sides of immune tolerance is crucial for the proper designing of novel and selective immunotherapies., Competing Interests: NM-T and PT are the co-authors of 2 patents related to the presented content and are shareholders of PolTREG S.A. company. The remaining authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest., (Copyright © 2022 Sakowska, Arcimowicz, Jankowiak, Papak, Markiewicz, Dziubek, Kurkowiak, Kote, Kaźmierczak-Siedlecka, Połom, Marek-Trzonkowska and Trzonkowski.)
- Published
- 2022
- Full Text
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14. Single-Bonded Cubic AsN from High-Pressure and High-Temperature Chemical Reactivity of Arsenic and Nitrogen.
- Author
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Ceppatelli M, Scelta D, Serrano-Ruiz M, Dziubek K, Morana M, Svitlyk V, Garbarino G, Poręba T, Mezouar M, Peruzzini M, and Bini R
- Abstract
Chemical reactivity between As and N
2 , leading to the synthesis of crystalline arsenic nitride, is here reported under high pressure and high temperature conditions generated by laser heating in a diamond anvil cell. Single-crystal synchrotron X-ray diffraction at different pressures between 30 and 40 GPa provides evidence for the synthesis of a covalent compound of AsN stoichiometry, crystallizing in a cubic P21 3 space group, in which each of the two elements is single-bonded to three atoms of the other and hosts an electron lone pair, in a tetrahedral anisotropic coordination. The identification of characteristic structural motifs highlights the key role played by the directional repulsive interactions between non-bonding electron lone pairs in the formation of the AsN structure. Additional data indicate the existence of AsN at room temperature from 9.8 up to 50 GPa. Implications concern fundamental aspects of pnictogens chemistry and the synthesis of innovative advanced materials., (© 2021 The Authors. Angewandte Chemie International Edition published by Wiley-VCH GmbH.)- Published
- 2022
- Full Text
- View/download PDF
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