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1.
Int J Mol Sci ; 24(3)2023 Jan 26.
Article in English | MEDLINE | ID: mdl-36768766

ABSTRACT

Cells of the cardiovascular system are physiologically exposed to a variety of mechanical forces fundamental for both cardiac development and functions. In this context, forces generated by actomyosin networks and those transmitted through focal adhesion (FA) complexes represent the key regulators of cellular behaviors in terms of cytoskeleton dynamism, cell adhesion, migration, differentiation, and tissue organization. In this study, we investigated the involvement of FAs on cardiomyocyte differentiation. In particular, vinculin and focal adhesion kinase (FAK) family, which are known to be involved in cardiac differentiation, were studied. Results revealed that differentiation conditions induce an upregulation of both FAK-Tyr397 and vinculin, resulting also in the translocation to the cell membrane. Moreover, the role of mechanical stress in contractile phenotype expression was investigated by applying a uniaxial mechanical stretching (5% substrate deformation, 1 Hz frequency). Morphological evaluation revealed that the cell shape showed a spindle shape and reoriented following the stretching direction. Substrate deformation resulted also in modification of the length and the number of vinculin-positive FAs. We can, therefore, suggest that mechanotransductive pathways, activated through FAs, are highly involved in cardiomyocyte differentiation, thus confirming their role during cytoskeleton rearrangement and cardiac myofilament maturation.


Subject(s)
Focal Adhesions , Focal Adhesions/metabolism , Vinculin/metabolism , Cell Adhesion/physiology , Cell Membrane/metabolism , Focal Adhesion Protein-Tyrosine Kinases/metabolism , Focal Adhesion Kinase 1/metabolism , Cell Differentiation
2.
Nucleic Acids Res ; 48(W1): W200-W207, 2020 07 02.
Article in English | MEDLINE | ID: mdl-32402076

ABSTRACT

High-Throughput Sequencing technologies are transforming many research fields, including the analysis of phage display libraries. The phage display technology coupled with deep sequencing was introduced more than a decade ago and holds the potential to circumvent the traditional laborious picking and testing of individual phage rescued clones. However, from a bioinformatics point of view, the analysis of this kind of data was always performed by adapting tools designed for other purposes, thus not considering the noise background typical of the 'interactome sequencing' approach and the heterogeneity of the data. InteractomeSeq is a web server allowing data analysis of protein domains ('domainome') or epitopes ('epitome') from either Eukaryotic or Prokaryotic genomic phage libraries generated and selected by following an Interactome sequencing approach. InteractomeSeq allows users to upload raw sequencing data and to obtain an accurate characterization of domainome/epitome profiles after setting the parameters required to tune the analysis. The release of this tool is relevant for the scientific and clinical community, because InteractomeSeq will fill an existing gap in the field of large-scale biomarkers profiling, reverse vaccinology, and structural/functional studies, thus contributing essential information for gene annotation or antigen identification. InteractomeSeq is freely available at https://InteractomeSeq.ba.itb.cnr.it/.


Subject(s)
Cell Surface Display Techniques , Epitopes , High-Throughput Nucleotide Sequencing , Protein Domains , Software , Bacteriophages/genetics , Internet
3.
Nucleic Acids Res ; 47(20): 10728-10743, 2019 11 18.
Article in English | MEDLINE | ID: mdl-31584077

ABSTRACT

Friedreich's ataxia (FRDA) is an untreatable disorder with neuro- and cardio-degenerative progression. This monogenic disease is caused by the hyper-expansion of naturally occurring GAA repeats in the first intron of the FXN gene, encoding for frataxin, a protein implicated in the biogenesis of iron-sulfur clusters. As the genetic defect interferes with FXN transcription, FRDA patients express a normal frataxin protein but at insufficient levels. Thus, current therapeutic strategies are mostly aimed to restore physiological FXN expression. We have previously described SINEUPs, natural and synthetic antisense long non-coding RNAs, which promote translation of partially overlapping mRNAs through the activity of an embedded SINEB2 domain. Here, by in vitro screening, we have identified a number of SINEUPs targeting human FXN mRNA and capable to up-regulate frataxin protein to physiological amounts acting at the post-transcriptional level. Furthermore, FXN-specific SINEUPs promote the recovery of disease-associated mitochondrial aconitase defects in FRDA-derived cells. In summary, we provide evidence that SINEUPs may be the first gene-specific therapeutic approach to activate FXN translation in FRDA and, more broadly, a novel scalable platform to develop new RNA-based therapies for haploinsufficient diseases.


Subject(s)
Friedreich Ataxia/genetics , Gene Expression Regulation , Iron-Binding Proteins/genetics , Models, Biological , RNA, Untranslated/metabolism , Aconitate Hydratase/metabolism , Cell Line , Fibroblasts/metabolism , Humans , Lymphocytes/metabolism , Phenotype , RNA, Messenger/genetics , RNA, Messenger/metabolism , RNA, Untranslated/genetics , Frataxin
4.
Int J Mol Sci ; 22(17)2021 Aug 30.
Article in English | MEDLINE | ID: mdl-34502309

ABSTRACT

Skeletal muscles represent 40% of body mass and its native regenerative capacity can be permanently lost after a traumatic injury, congenital diseases, or tumor ablation. The absence of physiological regeneration can hinder muscle repair preventing normal muscle tissue functions. To date, tissue engineering (TE) represents one promising option for treating muscle injuries and wasting. In particular, hydrogels derived from the decellularized extracellular matrix (dECM) are widely investigated in tissue engineering applications thanks to their essential role in guiding muscle regeneration. In this work, the myogenic potential of dECM substrate, obtained from decellularized bovine pericardium (Tissuegraft Srl), was evaluated in vitro using C2C12 murine muscle cells. To assess myotubes formation, the width, length, and fusion indexes were measured during the differentiation time course. Additionally, the ability of dECM to support myogenesis was assessed by measuring the expression of specific myogenic markers: α-smooth muscle actin (α-sma), myogenin, and myosin heavy chain (MHC). The results obtained suggest that the dECM niche was able to support and enhance the myogenic potential of C2C12 cells in comparison of those grown on a plastic standard surface. Thus, the use of extracellular matrix proteins, as biomaterial supports, could represent a promising therapeutic strategy for skeletal muscle tissue engineering.


Subject(s)
Cell Differentiation , Extracellular Matrix/physiology , Muscle Development , Myoblasts/cytology , Pericardium/cytology , Tissue Engineering/methods , Animals , Cattle , Hydrogels/chemistry , Mice , Tissue Scaffolds/chemistry
5.
FASEB J ; 33(2): 2327-2342, 2019 02.
Article in English | MEDLINE | ID: mdl-30285580

ABSTRACT

The interaction between the enzyme transglutaminase 2 (TG2) and fibronectin (FN) is involved in the cell-matrix interactions that regulate cell signaling, adhesion, and migration and play central roles in pathologic conditions, particularly fibrosis and cancer. A precise definition of the exact interaction domains on both proteins could provide a tool to design novel molecules with potential therapeutic applications. Although specific residues involved in the interaction within TG2 have been analyzed, little is known regarding the TG2 binding site on FN. This site has been mapped to a large internal 45-kDa protein fragment coincident with the gelatin binding domain (GBD). With the goal of defining the minimal FN interacting domain for TG2, we produced several expression constructs encoding different portions or modules of the GBD and tested their binding and functional properties. The results demonstrate that the I8 module is necessary and sufficient for TG2-binding in vitro, but does not have functional effects on TG2-expressing cells. Modules I7 and I9 increase the strength of the binding and are required for cell adhesion. A 15-kDa fragment encompassing modules I7-9 behaves as the whole 45-kDa GBD and mediates signaling, adhesion, spreading, and migration of TG2+ cells. This study provides new insights into the mechanism for TG2 binding to FN.-Soluri, M. F., Boccafoschi, F., Cotella, D., Moro, L., Forestieri, G., Autiero, I., Cavallo, L., Oliva, R., Griffin, M., Wang, Z., Santoro, C., Sblattero, D. Mapping the minimum domain of the fibronectin binding site on transglutaminase 2 (TG2) and its importance in mediating signaling, adhesion, and migration in TG2-expressing cells.


Subject(s)
Cell Adhesion , Cell Movement , Fibronectins/metabolism , GTP-Binding Proteins/metabolism , Transglutaminases/metabolism , Animals , Binding Sites , Cells, Cultured , Fibronectins/chemistry , Fibronectins/genetics , GTP-Binding Proteins/chemistry , GTP-Binding Proteins/genetics , Humans , Mice , Mice, Knockout , Models, Molecular , Protein Binding , Protein Conformation , Protein Domains , Protein Glutamine gamma Glutamyltransferase 2 , Signal Transduction , Transglutaminases/chemistry , Transglutaminases/genetics
6.
FASEB J ; 33(12): 13572-13589, 2019 12.
Article in English | MEDLINE | ID: mdl-31570000

ABSTRACT

Transposable elements (TEs) compose about half of the mammalian genome and, as embedded sequences, up to 40% of long noncoding RNA (lncRNA) transcripts. Embedded TEs may represent functional domains within lncRNAs, providing a structured RNA platform for protein interaction. Here we show the interactome profile of the mouse inverted short interspersed nuclear element (SINE) of subfamily B2 (invSINEB2) alone and embedded in antisense (AS) ubiquitin C-terminal hydrolase L1 (Uchl1), an lncRNA that is AS to Uchl1 gene. AS Uchl1 is the representative member of a functional class of AS lncRNAs, named SINEUPs, in which the invSINEB2 acts as effector domain (ED)-enhancing translation of sense protein-coding mRNAs. By using RNA-interacting domainome technology, we identify the IL enhancer-binding factor 3 (ILF3) as a protein partner of AS Uchl1 RNA. We determine that this interaction is mediated by the RNA-binding motif 2 of ILF3 and the invSINEB2. Furthermore, we show that ILF3 is able to bind a free right Arthrobacter luteus (Alu) monomer sequence, the embedded TE acting as ED in human SINEUPs. Bioinformatic analysis of Encyclopedia of DNA Elements-enhanced cross-linking immunoprecipitation data reveals that ILF3 binds transcribed human SINE sequences at transcriptome-wide levels. We then demonstrate that the embedded TEs modulate AS Uchl1 RNA nuclear localization to an extent moderately influenced by ILF3. This work unveils the existence of a specific interaction between embedded TEs and an RNA-binding protein, strengthening the model of TEs as functional modules in lncRNAs.-Fasolo, F., Patrucco, L., Volpe, M., Bon, C., Peano, C., Mignone, F., Carninci, P., Persichetti, F., Santoro, C., Zucchelli, S., Sblattero, D., Sanges, R., Cotella, D., Gustincich, S. The RNA-binding protein ILF3 binds to transposable element sequences in SINEUP lncRNAs.


Subject(s)
DNA Transposable Elements , Nuclear Factor 90 Proteins/metabolism , RNA, Antisense/genetics , RNA, Long Noncoding/metabolism , RNA, Messenger/metabolism , Ubiquitin Thiolesterase/metabolism , Animals , Computational Biology , High-Throughput Screening Assays , Humans , Mice , Nuclear Factor 90 Proteins/genetics , Protein Biosynthesis , Protein Interaction Domains and Motifs , RNA, Long Noncoding/genetics , RNA, Messenger/genetics , Ubiquitin Thiolesterase/genetics
7.
Genes Immun ; 20(6): 509-513, 2019 07.
Article in English | MEDLINE | ID: mdl-30282994

ABSTRACT

Skin melanoma remains one of the most aggressive and difficult to treat human malignancy, with an increasing incidence every year. Although surgical resection represents the best therapeutic approach, this is only feasible in cases of early diagnosis. Furthermore, the established malignancy is resistant to all therapeutic strategies employed so far, resulting in an unacceptable patient survival rate. Although the immune-mediated therapeutic approaches, based on anti-PD1 or anti-CTLA4, are very promising and under clinical trial experimentation, they could conceal not yet fully emerged pitfalls such as the development of autoimmune diseases. Therefore, alternative therapeutic approaches are still under investigation, such as the immunogenic cell death (ICD) process. Here we show that the lack of calreticulin translocation onto mouse melanoma cell membrane prevents the stimulation of an effective ICD response in vivo.


Subject(s)
Calbindin 2/metabolism , Cell Membrane/metabolism , Immunogenic Cell Death , Melanoma, Experimental/drug therapy , Skin Neoplasms/drug therapy , Animals , Apoptosis/immunology , Calbindin 2/immunology , Cell Line, Tumor , Female , Humans , Melanoma, Experimental/immunology , Mice , Mice, Inbred C57BL , Skin Neoplasms/immunology
8.
RNA Biol ; 12(12): 1289-300, 2015.
Article in English | MEDLINE | ID: mdl-26512911

ABSTRACT

We describe here a platform for high-throughput protein expression and interaction analysis aimed at identifying the RNA-interacting domainome. This approach combines the selection of a phage library displaying "filtered" open reading frames with next-generation DNA sequencing. The method was validated using an RNA bait corresponding to the AU-rich element of α-prothymosin, an RNA motif that promotes mRNA stability and translation through its interaction with the RNA-binding protein ELAVL1. With this strategy, we not only confirmed known RNA-binding proteins that specifically interact with the target RNA (such as ELAVL1/HuR and RBM38) but also identified proteins not previously known to be ARE-binding (R3HDM2 and RALY). We propose this technology as a novel approach for studying the RNA-binding proteome.


Subject(s)
AU Rich Elements/genetics , Open Reading Frames/genetics , Protein Interaction Domains and Motifs/genetics , Protein Precursors/genetics , RNA-Binding Proteins/metabolism , Thymosin/analogs & derivatives , HEK293 Cells , Humans , Protein Binding , Protein Precursors/metabolism , RNA, Messenger/genetics , RNA, Messenger/metabolism , Reproducibility of Results , Thymosin/genetics , Thymosin/metabolism
9.
FASEB J ; 27(4): 1381-93, 2013 Apr.
Article in English | MEDLINE | ID: mdl-23233530

ABSTRACT

Voltage-gated K(+) channels of the Shaw family (also known as the KCNC or Kv3 family) play pivotal roles in mammalian brains, and genetic or pharmacological disruption of their activities in mice results in a spectrum of behavioral defects. We have used the model system of Caenorhabditis elegans to elucidate conserved molecular mechanisms that regulate these channels. We have now found that the C. elegans Shaw channel KHT-1, and its mammalian homologue, murine Kv3.1b, are both modulated by acid phosphatases. Thus, the C. elegans phosphatase ACP-2 is stably associated with KHT-1, while its mammalian homolog, prostatic acid phosphatase (PAP; also known as ACPP-201) stably associates with murine Kv3.1b K(+) channels in vitro and in vivo. In biochemical experiments both phosphatases were able to reverse phosphorylation of their associated channel. The effect of phosphorylation on both channels is to produce a decrease in current amplitude and electrophysiological analyses demonstrated that dephosphorylation reversed the effects of phosphorylation on the magnitude of the macroscopic currents. ACP-2 and KHT-1 were colocalized in the nervous system of C. elegans and, in the mouse nervous system, PAP and Kv3.1b were colocalized in subsets of neurons, including in the brain stem and the ventricular zone. Taken together, this body of evidence suggests that acid phosphatases are general regulatory partners of Shaw-like K(+) channels.


Subject(s)
Brain Stem/metabolism , Evolution, Molecular , Neurons/metabolism , Shaw Potassium Channels/genetics , Shaw Potassium Channels/metabolism , Animals , Brain Stem/pathology , Caenorhabditis elegans , Membrane Potentials/genetics , Mice , Mice, Inbred C57BL , Phosphorylation/physiology
10.
Microb Cell Fact ; 13: 132, 2014 Sep 14.
Article in English | MEDLINE | ID: mdl-25218288

ABSTRACT

BACKGROUND: Over the last few years High-Throughput Protein Production (HTPP) has played a crucial role for functional proteomics. High-quality, high yield and fast recombinant protein production are critical for new HTPP technologies. Escherichia coli is usually the expression system of choice in protein production thanks to its fast growth, ease of handling and high yields of protein produced. Even though shake-flask cultures are widely used, there is an increasing need for easy to handle, lab scale, high throughput systems. RESULTS: In this article we described a novel minifermenter system suitable for HTPP. The Air-Well minifermenter system is made by a homogeneous air sparging device that includes an air diffusion system, and a stainless steel 96 needle plate integrated with a 96 deep well plate where cultures take place. This system provides aeration to achieve higher optical density growth compared to classical shaking growth without the decrease in pH value and bacterial viability. Moreover the yield of recombinant protein is up to 3-fold higher with a considerable improvement in the amount of full length proteins. CONCLUSIONS: High throughput production of hundreds of proteins in parallel can be obtained sparging air in a continuous and controlled manner. The system used is modular and can be easily modified and scaled up to meet the demands for HTPP.


Subject(s)
Air , Bioreactors , Biotechnology/instrumentation , Biotechnology/methods , High-Throughput Screening Assays/methods , Recombinant Proteins/biosynthesis , Bioreactors/microbiology , Escherichia coli/growth & development , Escherichia coli/metabolism , Protein Array Analysis
11.
J Neurosci ; 32(12): 4133-44, 2012 Mar 21.
Article in English | MEDLINE | ID: mdl-22442077

ABSTRACT

Potassium (K(+)) channels are essential to neuronal signaling and survival. Here we show that these proteins are targets of reactive oxygen species in mammalian brain and that their oxidation contributes to neuropathy. Thus, the KCNB1 (Kv2.1) channel, which is abundantly expressed in cortex and hippocampus, formed oligomers upon exposure to oxidizing agents. These oligomers were ∼10-fold more abundant in the brain of old than young mice. Oxidant-induced oligomerization of wild-type KCNB1 enhanced apoptosis in neuronal cells subject to oxidative insults. Consequently, a KCNB1 variant resistant to oxidation, obtained by mutating a conserved cysteine to alanine, (C73A), was neuroprotective. The fact that oxidation of KCNB1 is toxic, argues that this mechanism may contribute to neuropathy in conditions characterized by high levels of oxidative stress, such as Alzheimer's disease (AD). Accordingly, oxidation of KCNB1 channels was exacerbated in the brain of a triple transgenic mouse model of AD (3xTg-AD). The C73A variant protected neuronal cells from apoptosis induced by incubation with ß-amyloid peptide (Aß(1-42)). In an invertebrate model (Caenorhabditis elegans) that mimics aspects of AD, a C73A-KCNB1 homolog (C113S-KVS-1) protected specific neurons from apoptotic death induced by ectopic expression of human Aß(1-42). Together, these data underscore a novel mechanism of toxicity in neurodegenerative disease.


Subject(s)
Brain/cytology , Neurons/physiology , Oxidative Stress/physiology , Shab Potassium Channels/physiology , 2,2'-Dipyridyl/analogs & derivatives , 2,2'-Dipyridyl/toxicity , Age Factors , Alanine/genetics , Alzheimer Disease/genetics , Alzheimer Disease/pathology , Alzheimer Disease/physiopathology , Amyloid beta-Peptides/toxicity , Amyloid beta-Protein Precursor/genetics , Analysis of Variance , Animals , Animals, Genetically Modified , Apoptosis/drug effects , Apoptosis/genetics , Apoptosis/physiology , Caenorhabditis elegans , Cells, Cultured , Cricetinae , Cricetulus , Cysteine/genetics , Disease Models, Animal , Disulfides/toxicity , Electric Stimulation , Embryo, Mammalian , Female , Fluoresceins/pharmacology , Humans , Hydrogen Peroxide/pharmacology , Male , Mass Spectrometry/methods , Membrane Potentials/genetics , Membrane Potentials/physiology , Mice , Neurons/drug effects , Oxidants/toxicity , Oxidation-Reduction/drug effects , Oxidative Stress/drug effects , Oxidative Stress/genetics , Patch-Clamp Techniques , Peptide Fragments/toxicity , Presenilin-1/genetics , Propanols/pharmacology , Shab Potassium Channels/genetics , Transfection
12.
Can J Physiol Pharmacol ; 91(8): 648-56, 2013 Aug.
Article in English | MEDLINE | ID: mdl-23889090

ABSTRACT

Dilated cardiomyopathy (DCM) is a multifactorial disease characterized by left ventricular dilation that is associated with systolic dysfunction and increased action potential duration. The Kir2.x K⁺ channels (encoded by KCNJ genes) regulate the inward rectifier current (IK1) contributing to the final repolarization in cardiac muscle. Here, we describe the transitions in the gene expression profiles of 4 KCNJ genes from healthy or dilated cardiomyopathic human hearts. In the healthy adult ventricles, KCNJ2, KCNJ12, and KCNJ4 (Kir2.1-2.3, respectively) genes were expressed at high levels, while expression of the KCNJ14 (Kir2.4) gene was low. In DCM ventricles, the levels of Kir2.1 and Kir2.3 were upregulated, but those of Kir2.2 channels were downregulated. Additionally, the expression of the DLG1 gene coding for the synapse-associated protein 97 (SAP97) anchoring molecule exhibited a 2-fold decline with increasing age in normal hearts, and it was robustly downregulated in young DCM patients. These adaptations could offer a new aspect for the explanation of the generally observed physiological and molecular alterations found in DCM.


Subject(s)
Cardiomyopathy, Dilated/genetics , Cardiomyopathy, Dilated/metabolism , Gene Expression , Heart Ventricles/metabolism , Potassium Channels, Inwardly Rectifying/genetics , Adolescent , Adult , Aging/genetics , Blotting, Western , Cardiomyopathy, Dilated/pathology , Female , Heart Ventricles/pathology , Humans , Male , Membrane Potentials , Middle Aged , Myocytes, Cardiac/metabolism , Myocytes, Cardiac/pathology , Patch-Clamp Techniques , Protein Isoforms , Reverse Transcriptase Polymerase Chain Reaction , Young Adult
13.
Essays Biochem ; 65(4): 775-789, 2021 10 27.
Article in English | MEDLINE | ID: mdl-34623427

ABSTRACT

RNA molecules have emerged as a new class of promising therapeutics to expand the range of druggable targets in the genome. In addition to 'canonical' protein-coding mRNAs, the emerging richness of sense and antisense long non-coding RNAs (lncRNAs) provides a new reservoir of molecular tools for RNA-based drugs. LncRNAs are composed of modular structural domains with specific activities involving the recruitment of protein cofactors or directly interacting with nucleic acids. A single therapeutic RNA transcript can then be assembled combining domains with defined secondary structures and functions, and antisense sequences specific for the RNA/DNA target of interest. As the first representative molecules of this new pharmacology, we have identified SINEUPs, a new functional class of natural antisense lncRNAs that increase the translation of partially overlapping mRNAs. Their activity is based on the combination of two domains: an embedded mouse inverted SINEB2 element that enhances mRNA translation (effector domain) and an overlapping antisense region that provides specificity for the target sense transcript (binding domain). By genetic engineering, synthetic SINEUPs can potentially target any mRNA of interest increasing translation and therefore the endogenous level of the encoded protein. In this review, we describe the state-of-the-art knowledge of SINEUPs and discuss recent publications showing their potential application in diseases where a physiological increase of endogenous protein expression can be therapeutic.


Subject(s)
Protein Biosynthesis , RNA, Long Noncoding , Animals , Mice , Proteins/metabolism , RNA, Antisense/genetics , RNA, Antisense/metabolism , RNA, Long Noncoding/chemistry , RNA, Messenger/genetics , RNA, Messenger/metabolism
14.
Pflugers Arch ; 460(1): 87-97, 2010 Jun.
Article in English | MEDLINE | ID: mdl-20354865

ABSTRACT

DPP10 is a transmembrane glycosylated protein belonging to the family of dipeptidyl aminopeptidase-like proteins (DPPLs). DPPLs are auxiliary subunits involved in the regulation of voltage-gated Kv4 channels, key determinants of cardiac and neuronal excitability. Although it is known that DPPLs are needed to generate native-like currents in heterologous expression systems, the molecular basis of this involvement are still poorly defined. In this study, we investigated the functional relevance of DPP10 glycosylation in modulating Kv4.3 channel activities. Using transfected Chinese hamster ovary (CHO) cells to reconstitute Kv4 complex, we show that the pharmacological inhibition of DPP10 glycosylation by tunicamycin and neuraminidase affects transient outward potassium current (I (to)) kinetics. Tunicamycin completely blocked DPP10 glycosylation and reduced DPP10 cell surface expression. The accelerating effects of DPP10 on Kv4.3 current kinetics, i.e. on inactivation and recovery from inactivation, were abolished. Neuraminidase produced different effects on current kinetics than tunicamycin, i.e., shifted the voltage dependence to more negative potentials. The effects of tunicamycin on the native I (to) currents of human atrial myocytes expressing DPP10 were similar to those of the KV4.3/KChIP2/DPP10 complex in CHO cells. Our results suggest that N-linked glycosylation of DPP10 plays an important role in modulating Kv4 channel activities.


Subject(s)
Cell Membrane/metabolism , Dipeptidyl-Peptidases and Tripeptidyl-Peptidases/metabolism , Ion Channel Gating , Kv Channel-Interacting Proteins/metabolism , Potassium/metabolism , Protein Processing, Post-Translational , Shal Potassium Channels/metabolism , Animals , CHO Cells , Cell Membrane/drug effects , Cricetinae , Cricetulus , Dipeptidyl-Peptidases and Tripeptidyl-Peptidases/genetics , Glycosylation , Heart Atria/metabolism , Humans , Ion Channel Gating/drug effects , Kinetics , Kv Channel-Interacting Proteins/genetics , Membrane Potentials , Myocytes, Cardiac/metabolism , Neuraminidase/pharmacology , Protein Processing, Post-Translational/drug effects , Protein Transport , Shal Potassium Channels/drug effects , Shal Potassium Channels/genetics , Transfection , Tunicamycin/pharmacology
15.
Biomedicines ; 8(10)2020 Oct 20.
Article in English | MEDLINE | ID: mdl-33092064

ABSTRACT

Hydrogels are three-dimensional (3D) materials able to absorb and retain water in large amounts while maintaining their structural stability. Due to their considerable biocompatibility and similarity with the body's tissues, hydrogels are one of the most promising groups of biomaterials. The main application of these hydrogels is in regenerative medicine, in which they allow the formation of an environment suitable for cell differentiation and growth. Deriving from these hydrogels, it is, therefore, possible to obtain bioactive materials that can regenerate tissues. Because vessels guarantee the right amount of oxygen and nutrients but also assure the elimination of waste products, angiogenesis is one of the processes at the base of the regeneration of a tissue. On the other hand, it is a very complex mechanism and the parameters to consider are several. Indeed, the factors and the cells involved in this process are numerous and, for this reason, it has been a challenge to recreate a biomaterial able to adequately sustain the angiogenic process. However, in this review the focal point is the application of natural hydrogels in angiogenesis enhancing and their potential to guide this process.

16.
Cell Death Dis ; 10(12): 902, 2019 11 28.
Article in English | MEDLINE | ID: mdl-31780644

ABSTRACT

The incidence of melanoma is increasing over the years with a still poor prognosis and the lack of a cure able to guarantee an adequate survival of patients. Although the new immuno-based coupled to target therapeutic strategy is encouraging, the appearance of targeted/cross-resistance and/or side effects such as autoimmune disorders could limit its clinical use. Alternative therapeutic strategies are therefore urgently needed to efficiently kill melanoma cells. Ferroptosis induction and execution were evaluated in metastasis-derived wild-type and oncogenic BRAF melanoma cells, and the process responsible for the resistance has been dissected at molecular level. Although efficiently induced in all cells, in an oncogenic BRAF- and ER stress-independent way, most cells were resistant to ferroptosis execution. At molecular level we found that: resistant cells efficiently activate NRF2 which in turn upregulates the early ferroptotic marker CHAC1, in an ER stress-independent manner, and the aldo-keto reductases AKR1C1 ÷ 3 which degrades the 12/15-LOX-generated lipid peroxides thus resulting in ferroptotic cell death resistance. However, inhibiting AKRs activity/expression completely resensitizes resistant melanoma cells to ferroptosis execution. Finally, we found that the ferroptotic susceptibility associated with the differentiation of melanoma cells cannot be applied to metastatic-derived cells, due to the EMT-associated gene expression reprogramming process. However, we identified SCL7A11 as a valuable marker to predict the susceptibility of metastatic melanoma cells to ferroptosis. Our results identify the use of pro-ferroptotic drugs coupled to AKRs inhibitors as a new valuable strategy to efficiently kill human skin melanoma cells.


Subject(s)
Aldo-Keto Reductases/metabolism , Endoplasmic Reticulum Stress , Ferroptosis , Melanoma/enzymology , Melanoma/pathology , Aldo-Keto Reductases/antagonists & inhibitors , Arachidonate 15-Lipoxygenase/metabolism , Biomarkers, Tumor/metabolism , Cell Differentiation/drug effects , Cell Line, Tumor , Cell Survival/drug effects , Endoplasmic Reticulum Stress/drug effects , Enzyme Inhibitors/pharmacology , Ferroptosis/drug effects , Gene Expression Regulation, Neoplastic/drug effects , Humans , Lipid Peroxides/metabolism , Melanoma/genetics , NF-E2-Related Factor 2/metabolism , Neoplasm Metastasis , Oncogenes , Piperazines/pharmacology , Proto-Oncogene Proteins B-raf/metabolism , Up-Regulation/drug effects , gamma-Glutamylcyclotransferase/metabolism
17.
Oncoimmunology ; 8(9): e1614856, 2019.
Article in English | MEDLINE | ID: mdl-31428516

ABSTRACT

The identification of effective biomarkers for early diagnosis, prognosis, and response to treatments remains a challenge in ovarian cancer (OC) research. Here, we present an unbiased high-throughput approach to profile ascitic fluid autoantibodies in order to obtain a tumor-specific antigen signature in OC. We first reported the reactivity of immunoglobulins (Igs) purified from OC patient ascites towards two different OC cell lines. Using a discovery set of Igs, we selected tumor-specific antigens from a phage display cDNA library. After biopanning, 700 proteins were expressed as fusion protein and used in protein array to enable large-scale immunoscreening with independent sets of cancer and noncancerous control. Finally, the selected antigens were validated by ELISA. The initial screening identified eight antigenic clones: CREB3, MRPL46, EXOSC10, BCOR, HMGN2, HIP1R, OLFM4, and KIAA1755. These antigens were all validated by ELISA in a study involving ascitic Igs from 153 patients (69 with OC, 34 with other cancers and 50 without cancer), with CREB3 showing the highest sensitivity (86.95%) and specificity (98%). Notably, we were able to identify an association between the tumor-associated (TA) antibody response and the response to a first-line tumor treatment (platinum-based chemotherapy). A stronger association was found by combining three antigens (BCOR, CREB3, and MRLP46) as a single antibody signature. Measurement of an ascitic fluid antibody response to multiple TA antigens may aid in the identification of new prognostic signatures in OC patients and shift attention to new potentially relevant targets.

18.
Cells ; 8(9)2019 09 18.
Article in English | MEDLINE | ID: mdl-31540356

ABSTRACT

Recent evidence suggests that hepatic dendritic cells (HDCs) contribute to the evolution of chronic liver diseases. However, the HDC subsets involved and the mechanisms driving these responses are still poorly understood. In this study, we have investigated the role of the fractalkine receptor CX3CR1 in modulating monocyte-derived dendritic cell (moDC) differentiation during liver inflammation. The phenotype of HDC and functional relevance of CX3CR1 was assessed in mice following necro-inflammatory liver injury induced by the hepatotoxic agent carbon tetrachloride (CCl4) and in steatohepatitis caused by a methionine/choline-deficient (MCD) diet. In both the experimental models, hepatic inflammation was associated with a massive expansion of CD11c+/MHCIIhigh/CD11b+ myeloid HDCs. These cells also expressed the monocyte markers Ly6C, chemokine (C-C Motif) receptor 2 (CCR2), F4/80 and CD88, along with CX3CR1, allowing their tentative identification as moDCs. Mice defective in CX3CR1 showed a reduction in liver-moDC recruitment following CCl4 poisoning in parallel with a defective maturation of monocytes into moDCs. The lack of CX3CR1 also affected moDC differentiation from bone marrow myeloid cells induced by granulocyte-macrophage colony stimulating factor (GM-CSF) and interleukin-4 (IL-4) in vitro. In wild-type mice, treatment with the CX3CR1 antagonist CX3-AT (150 µg, i.p.) 24 h after CCl4 administration reduced liver moDCS and significantly ameliorated hepatic injury and inflammation. Altogether, these results highlight the possible involvement of moDCs in promoting hepatic inflammation following liver injury and indicated a novel role of CX3CL1/CX3CR1 dyad in driving the differentiation of hepatic moDCs.


Subject(s)
CX3C Chemokine Receptor 1/metabolism , Dendritic Cells/chemistry , Inflammation/metabolism , Liver/metabolism , Monocytes/chemistry , Animals , CX3C Chemokine Receptor 1/antagonists & inhibitors , Carbon Tetrachloride/administration & dosage , Cell Differentiation , Chemical and Drug Induced Liver Injury , Dendritic Cells/metabolism , Disease Models, Animal , Inflammation/chemically induced , Male , Mice , Mice, Inbred C57BL , Mice, Transgenic , Monocytes/metabolism
19.
BMC Immunol ; 9: 50, 2008 Aug 29.
Article in English | MEDLINE | ID: mdl-18759974

ABSTRACT

BACKGROUND: Amplification and cloning of naïve T cell Receptor (TR) repertoires or antigen-specific TR is crucial to shape immune response and to develop immuno-based therapies. TR variable (V) regions are encoded by several genes that recombine during T cell development. The cloning of expressed genes as large diverse libraries from natural sources relies upon the availability of primers able to amplify as many V genes as possible. RESULTS: Here, we present a list of primers computationally designed on all functional TR V and J genes listed in the IMGT, the ImMunoGeneTics information system. The list consists of unambiguous or degenerate primers suitable to theoretically amplify and clone the entire TR repertoire. We show that it is possible to selectively amplify and clone expressed TR V genes in one single RT-PCR step and from as little as 1000 cells. CONCLUSION: This new primer set will facilitate the creation of more diverse TR libraries than has been possible using currently available primer sets.


Subject(s)
Cloning, Molecular , Complementarity Determining Regions/genetics , DNA Primers/genetics , Gene Rearrangement, T-Lymphocyte/genetics , Genes, T-Cell Receptor , Receptors, Antigen, T-Cell/genetics , T-Cell Antigen Receptor Specificity/genetics , Algorithms , Antigens , Base Sequence/genetics , Complementarity Determining Regions/immunology , DNA Primers/chemistry , DNA Primers/immunology , Gene Library , Gene Rearrangement, T-Lymphocyte/immunology , Humans , Immunoglobulin Variable Region/genetics , Leukocytes, Mononuclear/cytology , Leukocytes, Mononuclear/metabolism , Receptors, Antigen, T-Cell/immunology , Reverse Transcriptase Polymerase Chain Reaction , T-Cell Antigen Receptor Specificity/immunology
20.
Oncoimmunology ; 7(8): e1466765, 2018.
Article in English | MEDLINE | ID: mdl-30221067

ABSTRACT

The immunogenic cell death (ICD) process represents a novel therapeutic approach to treat tumours, in which cytotoxic compounds promote both cancer cell death and the emission of damage-associated molecular patterns (DAMPs) from dying cells, to activate the immune system against the malignancy. Therefore, we explored the possibility to stimulate the key molecular players with a pivotal role in the execution of the ICD program in melanoma cells. To this aim, we used the pro-ICD agents mitoxantrone and doxorubicin and found that both agents could induce cell death and stimulate the release/exposure of the strictly required DAMPs in melanoma cells: i) calreticulin (CRT) exposure on the cell membrane; ii) ATP secretion; iii) type I IFNs gene up-regulation and iv) HMGB1 secretion, highlighting no interference by oncogenic BRAF. Importantly, although the ER stress-related PERK activation has been linked to CRT externalization, through the phosphorylation of eIF2α, we found that this stress pathway together with PERK were not involved in melanoma cells. Notably, we identified PKR and GCN2 as key mediators of eIF2α phosphorylation, facilitating the translocation of CTR on melanoma cells surface, under pro-ICD drugs stimulation. Therefore, our data indicate that pro-ICD drugs are able to stimulate the production/release of DAMPs in melanoma cells at least in vitro, indicating in this approach a potential new valuable therapeutic strategy to treat human skin melanoma malignancy.

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