2,665 research outputs found

    Bioactive Self-Assembled Protein Nanosheets for Stem Cell-Based Biotechnologies

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    Tissue and stem cell culture methods have been dominated by glass and plastic substrates such as Tissue culture plastic. These solid substrates, although widely used, are associated with poor scalability for adherent stem cell expansion in systems such as 3D bioreactors and the design of parallel culture systems. Therefore, investigating strategies to bypass these obstacles in stem cell expansion is essential to enable the wider translation of stem cell technologies. An alternative strategy recently proposed consists in using a liquid surface instead, such as an oil, and associated oil droplets. Indeed, emulsions can be formed using protein nanosheets to stabilise oil/water interfaces to promote the adhesion of stem cells and enable their proliferation. These nanosheets exhibit enhanced interfacial mechanics and allow the introduction of bioactive components via recombinant protein expression to promote bioactivity. Beyond the application of resulting bioemulsions for the expansion of Mesenchymal stem cells, the impact of these bioactive interfaces on the differentiation of iPSCs and the development of cerebral organoids will be presented. The Bovine serum albumin protein was recombinantly modified to attach an N-terminal Avi-Tag, this was expressed and purified from the yeast P. pastoris expression system. The Avi-tag was then biotinylated in vitro by recombinantly expressed BirA. Emulsions of a specific size were formed using the newly biotinylated Bt-BSA protein and functionalized with a cascade of components to mimic cell-cell ligands, this resulted in bioemulsions with a bioactive surface that can interact with surrounding cells. These functionalised droplets were integrated into developing cerebral organoids and their impact on phenotype was studied. The droplets were found not to deform sufficiently to allow mechanical forces to be measured, yet the many of these droplets were retained within the organoids which led to an interesting phenotype within the organoids. The developing rosettes were found to develop enlarged lumens shown by an increase in area, this phenotype did not impact the differentiation into the cerebral lineage depicted by immunohistochemistry of hallmark marker of neuronal differentiation within organoids retaining droplets. The interfacial mechanics of fibrinogen nanosheets treated with varying concentrations of thrombin was studied using interfacial shear rheology. The effect of thrombin significantly altered the interfacial mechanics with the lower concentration of thrombin significantly increasing the toughness multiple folds and decreasing the elasticity of the nanosheets. Additionally, the nanostructure of nanosheets was studied using SEM and TEM and traditional fibrin fibres were found to not form at these interfaces, but local rearrangements and retractions in the thrombin treated nanosheets were observed. Finally, these enhanced mechanical properties promoted the proliferation and expansion of Mesenchymal stem cells on quasi-2D and 3D interfaces

    Investigating the effects of palmitoylation on the dopamine 1 receptor (D1)

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    The dopamine D1 receptor (D1) is a G protein-coupled receptor (GPCR) which regulates various key brain functions like attention, movement, reward, and memory. Understanding D1 signalling may open the horizon for novel treatments for neurological disorders. Upon agonist activation, the heterotrimeric G proteins Gαs activate adenylyl cyclase to increase cAMP/PKA signalling. D1 also engages β-arrestin proteins leading to β-arrestin dependent signalling. The D1 has two palmitoylation sites on cysteines 347&351 in its C-tail domain. However, the distinct roles and implications of palmitoylation on the D1 signalling, trafficking and β-arrestins recruitment are still largely unexplored. A palmitoylation D1 mutant was generated and luminescent based techniques such as BRET and split-Nanoluc complementation assay were employed, to delineate D1 palmitoylation effects on its pharmacology and signalling. The D1 agonists induced 50% less cAMP production in the mutant compared to wildtype (WT) and WT showed a more efficient dissociation of its Gαs. Moreover, the mutant receptor failed to recruit β-arrestin1&2, induced less ERK1/2 activation and internalises in an agonist-independent process while showing an altered intracellular Golgi trafficking. Also, in β-arrestin 1&2 KO HEK 293 cells similar cAMP production levels were reported for D1 WT and palmitoylation mutant. β-arrestin 1&2 KO blocked agonist-induced WT D1 plasma membrane trafficking, indicating that these β-arrestins are driving the differences between WT and the palmitoylation mutant D1. Taken together, our studies indicate that Gαs is the main transducer for D1 cAMP and ERK1/2 signalling and that palmitoylation is essential for its β-arrestin 1&2 interactions and modulating D1 signalling cascades in a drug-dependant process

    Advanced cellular models for rare disease study: exploring neural, muscle and skeletal organoids

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    Organoids are self-organized, three-dimensional structures derived from stem cells that can mimic the structure and physiology of human organs. Patient-specific induced pluripotent stem cells (iPSCs) and 3D organoid model systems allow cells to be analyzed in a controlled environment to simulate the characteristics of a given disease by modeling the underlying pathophysiology. The recent development of 3D cell models has offered the scientific community an exceptionally valuable tool in the study of rare diseases, overcoming the limited availability of biological samples and the limitations of animal models. This review provides an overview of iPSC models and genetic engineering techniques used to develop organoids. In particular, some of the models applied to the study of rare neuronal, muscular and skeletal diseases are described. Furthermore, the limitations and potential of developing new therapeutic approaches are discussed

    Analysis and monitoring of single HaCaT cells using volumetric Raman mapping and machine learning

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    No explorer reached a pole without a map, no chef served a meal without tasting, and no surgeon implants untested devices. Higher accuracy maps, more sensitive taste buds, and more rigorous tests increase confidence in positive outcomes. Biomedical manufacturing necessitates rigour, whether developing drugs or creating bioengineered tissues [1]–[4]. By designing a dynamic environment that supports mammalian cells during experiments within a Raman spectroscope, this project provides a platform that more closely replicates in vivo conditions. The platform also adds the opportunity to automate the adaptation of the cell culture environment, alongside spectral monitoring of cells with machine learning and three-dimensional Raman mapping, called volumetric Raman mapping (VRM). Previous research highlighted key areas for refinement, like a structured approach for shading Raman maps [5], [6], and the collection of VRM [7]. Refining VRM shading and collection was the initial focus, k-means directed shading for vibrational spectroscopy map shading was developed in Chapter 3 and exploration of depth distortion and VRM calibration (Chapter 4). “Cage” scaffolds, designed using the findings from Chapter 4 were then utilised to influence cell behaviour by varying the number of cage beams to change the scaffold porosity. Altering the porosity facilitated spectroscopy investigation into previously observed changes in cell biology alteration in response to porous scaffolds [8]. VRM visualised changed single human keratinocyte (HaCaT) cell morphology, providing a complementary technique for machine learning classification. Increased technical rigour justified progression onto in-situ flow chamber for Raman spectroscopy development in Chapter 6, using a Psoriasis (dithranol-HaCaT) model on unfixed cells. K-means-directed shading and principal component analysis (PCA) revealed HaCaT cell adaptations aligning with previous publications [5] and earlier thesis sections. The k-means-directed Raman maps and PCA score plots verified the drug-supplying capacity of the flow chamber, justifying future investigation into VRM and machine learning for monitoring single cells within the flow chamber

    p-tau Ser356 is associated with Alzheimer's disease pathology and is lowered in brain slice cultures using the NUAK inhibitor WZ4003

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    Tau hyperphosphorylation and aggregation is a common feature of many dementia-causing neurodegenerative diseases. Tau can be phosphorylated at up to 85 different sites, and there is increasing interest in whether tau phosphorylation at specific epitopes, by specific kinases, plays an important role in disease progression. The AMP-activated protein kinase (AMPK)-related enzyme NUAK1 has been identified as a potential mediator of tau pathology, whereby NUAK1-mediated phosphorylation of tau at Ser356 prevents the degradation of tau by the proteasome, further exacerbating tau hyperphosphorylation and accumulation. This study provides a detailed characterisation of the association of p-tau Ser356 with progression of Alzheimer's disease pathology, identifying a Braak stage-dependent increase in p-tau Ser356 protein levels and an almost ubiquitous presence in neurofibrillary tangles. We also demonstrate, using sub-diffraction-limit resolution array tomography imaging, that p-tau Ser356 co-localises with synapses in AD postmortem brain tissue, increasing evidence that this form of tau may play important roles in AD progression. To assess the potential impacts of pharmacological NUAK inhibition in an ex vivo system that retains multiple cell types and brain-relevant neuronal architecture, we treated postnatal mouse organotypic brain slice cultures from wildtype or APP/PS1 littermates with the commercially available NUAK1/2 inhibitor WZ4003. Whilst there were no genotype-specific effects, we found that WZ4003 results in a culture-phase-dependent loss of total tau and p-tau Ser356, which corresponds with a reduction in neuronal and synaptic proteins. By contrast, application of WZ4003 to live human brain slice cultures results in a specific lowering of p-tau Ser356, alongside increased neuronal tubulin protein. This work identifies differential responses of postnatal mouse organotypic brain slice cultures and adult human brain slice cultures to NUAK1 inhibition that will be important to consider in future work developing tau-targeting therapeutics for human disease.</p

    Generation of human astrocytes for disease modeling. A study based on stem cells, direct conversion and genome engineering to dissect the role of astrocytes in leukodystrophies

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    Astrocytes are one of the major cell types in the central nervous system and are indispensable for brain development and function. The human brain and human astrocytes have unique structures and functions that are not present in other animal species. Studies of fundamental astrocyte biology in humans and their role in neurological disease have been hindered by shortage of native human astrocytes for research purposes and inadequate animal and cell models. With advancements in stem cell technology, the possibility to generate astrocytes in vitro from human pluripotent stem cells (hPSCs), ultimately derived from patient cells, emerged. However, traditional differentiation protocols of hPSCs to functional astrocytes, based on external cues to mimic development, are complex and time-consuming. In contrast, ectopic overexpression of cell lineage-specific transcription factors can fast forward this process.Here we have developed a rapid and efficient method to generate functional and mature astrocytes from hPSCs through overexpression of the gliogenic transcription factors Sox9 and Nfib. We have performed extensive phenotypic and functional characterization to confirm an astrocytic identity of the obtained cells. This method reduces the time to generate mature astrocytes from months to weeks. By combining our method with CRISPR/Cas9 genome editing we demonstrate that our method is feasible for disease modeling of the leukodystrophies Alexander disease (AxD) and Megalencephalic leukoencephalopathy with subcortical cysts (MLC).Furthermore, we have developed an efficient method to directly convert human fibroblasts to astrocytes. We show that our method can be used with fibroblasts obtained from the entire human lifespan. We also, for the first time, show a co-culture system of astrocytes and neurons obtained through direct conversion of the same starting fibroblast populations. Finally, we provide proof-of-principle that our direct conversion method can be used for disease modeling by directly converting AxD patient fibroblasts to astrocytes. The methods developed in this thesis allow for rapid generation of patient specific astrocytes which have the potential to uncover the role of astrocytes in neurological disorders and reveal novel targets for therapeutic interventions

    Synthesis of multifunctional glyco-pseudodendrimers and glyco-dendrimers and their investigation as anti-Alzheimer agents

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    As the world population is aging, the cases of Alzheimer’s Disease (AD) are increasing. AD is a disorder of the brain which is characterized by the aggregation of amyloid beta (Aβ) plaques. This leads to the death of numerous brain cells thus affecting the cognitive and motor functions of the individual. Till date, no cure for the disease is available. Aβ are peptides with 40/42 amino acid residues but, their exact mechanism(s) of action in AD is under debate. Having different amino acid residues makes them susceptible to form hydrogen bonds. Dendrimers with sugar units are often referred to as glycopolymers and have been shown to have potential anti-amyloidogenic activity. However, they also have drawbacks, the synthesis involves multiple tedious steps, and dendrimers themselves offer only a limited number of functional units. Pseudodendrimers are another class of branched polymers based on hyperbranched polymers. Unlike the dendrimers, they are easy to synthesize with a dense shell of functional units on the surface. One of the main goals in this dissertation is the synthesis and characterization of pseudodendrimers and dendrimers based on 2,2-bis(hydroxymethyl)-propionic acid (bis-MPA), an aliphatic polyester scaffold, as it offers biocompatibility and easy degradability. Furthermore, they are decorated with mannose units on the surface using a ‘click’ reaction forming glyco-pseudodendrimers and glyco-dendrimers. A detailed characterization of their structures and physical properties was undertaken using techniques such as size exclusion chromatography, asymmetric flow field flow fractionation (AF4), and dynamic light scattering. The second main focus of this work has been to investigate the interaction of synthesized glyco-pseudodendrimers and glyco-dendrimers with Aβ 40 peptides. For this task, five different concentrations of the synthesized glycopolymers were tested with Aβ 40 using the Thioflavin T assay. The results of the synthesized polymers which produced the best results of showing maximum anti-aggregation behavior against Aβ 40 were confirmed with circular dichroism spectroscopy. AF4 was also used to investigate Aβ 40-glycopolymer aggregates, which has never been done before and constitutes the highlight of this dissertation. Atomic force microscopy was used to image Aβ 40-glycopseudodenrimer aggregates. A basic but important step in the development of drug delivery platforms is to evaluate the toxicity of the drugs synthesized. In this work, preliminary studies of the cytotoxicity of glyco-pseudodendrimers were performed in two different cell lines. Thus, this study comprises a preliminary investigation of the anti-amyloidogenic activity of glyco-pseudodendrimers synthesized on an aliphatic polyester backbone.:Abstract List of Tables List of Figures Abbreviations 1 Introduction 1.1 Objectives of the work 1.2 Thesis overview 2 Fundamentals and Literature 2.1 Alzheimer’s Disease and its impact 2.1.1 Neurological diagnosis of AD 2.1.2 Histopathology of AD 2.1.3 Amyloid precursor protein (APP) and its role in AD 2.2. Amyloid Beta (Aβ) peptide 2.2.1 Aβ peptide 2.2.2. Location and function 2.2.3 Amyloid hypothesis 2.2.4 The mechanism of Aβ aggregation 2.2.5 Amyloid fibrils 2.2.6 Toxicity of Aβ 2.3 Research methods to study Aβ aggregates 2.3.1 Models to study the mode of action of aggregates 2.3.2 Endogenous Aβ aggregates and synthetic aggregates 2.3.3 Strategies to alter aggregation of amyloids 2.4 Treatment and therapeutics 2.4.1 Current therapeutics 2.4.2 Current therapeutic research 2.4.2.1 Reduction of Aβ production 2.4.2.2 Reduction of Aβ plaque accumulation 2.4.2.2.1 Anti-amyloid aggregation agents 2.4.2.2.2 Metals 2.4.2.2.3 Immunotherapy 2.4.2.2.4 Dendrimers as potential anti-amyloidogenic agent 2.6 Dendrimers 2.6.1 Definition 2.6.2 Structure Table of Contents 2.6.3 Synthesis 2.6.4 Properties 2.7 Pseudodendrimers - a sub-class of hyperbranched polymer 2.7.1 Definition 2.7.2 Structure 2.7.3 Synthesis 3 Analytical Techniques 3.1 Size Exclusion Chromatography Coupled to Light Scattering (SEC-MALS) 3.2 Asymmetric Flow Field Flow Fractionation (AF4) 3.3 Dynamic Light Scattering 3.4 Molecular Dynamics Simulation 3.5 Nuclear Magnetic Resonance Spectroscopy 3.6 Thioflavin T fluorescence 3.6.1 Kinetic analysis 3.7 Circular Dichroism Spectroscopy 3.8 Atomic Force Microscopy 3.9 Cytotoxic assay 3.9.1 MTT assay 3.9.2 Determining the level of reactive oxygen species 3.9.3 Changes in mitochondrial transmembrane potential 3.9.4 Flow cytometric detection of phosphatidyl serine exposure 4 Experimental Details and Methodology 4.1 Details of chemicals/components used 4.1.1 Other materials 4.1.2 Peptide preparation 4.1.3 Buffer preparation 4.1.4 Fibril growth conditions 4.2 Synthesis and characterization of polymers 4.2.1 Synthesis and characterization of pseudodendrimers and dendrimers 4.2.1.1 Synthesis of hyperbranched polymer (1) 4.2.1.2 Synthesis of protected monomer 4.2.1.2.1 bis-MPA acetonide (2) 4.2.1.2.2 bis-MPA-acetonide anhydride (3) 4.2.1.3 Synthesis of protected pseudodendrimers (4, 6 and 8) and protected dendrimers (10, 12, and 14) 4.2.1.4 Deprotection of pseudodendrimers (5,7, and 9) and dendrimers (11,13 and 15) 4.2.2 Synthesis of glyco-pseudodendrimers and glyco-dendrimers 4.2.2.1 Pentynoic anhydride (16) 4.2.2.2 Synthesis of pentinate modified pseudodendrimers (17, 18 and 19) and dendrimers (20, 21 and 22) 4.2.2.3 3-Azido-1-propanol (23) 4.2.2.4 Mannose propyl azide tetraacetate (24) Table of Contents 4.2.2.5 Mannosepropylazide (25) 4.2.2.6 Glyco-pseudodendrimers (Gl-P) (26, 27 and 28) and glyco- dendrimers (Gl-D) (29, 30 and 31) 4.3 Analytical techniques and their general details 4.3.1 SEC-MALS - Instrumentation, software and analysis 4.3.2 AF4 - Instrumentation, software and analysis 4.3.2.1 Sample preparation 4.3.2.2 Method development for analysis of Gl-P and Gl-D 4.3.2.3 Method development for analysis of Aβ 40 and its interaction with Gl-P and Gl-D 4.3.3 Batch DLS - Instrumentation, software and analysis 4.3.3.1 Sample preparation 4.3.4 Theoretical calculations and molecular dynamics simulations 4.3.4.1 Ab-initio calculations 4.3.4.2 Modelling of the polymer structures 4.3.4.2.1 Pseudodendrimers 4.3.4.2.2 Dendrimers 4.3.4.2.3 Modification of the polymers with special end groups 4.3.4.2.4 Preparing of the THF solvent box 4.3.4.2.5 Solvation of the polymer structures 4.3.4.3 Molecular dynamics simulations 4.3.4.3.1 Evaluation of the simulation trajectories 4.4 Investigation of interaction of Gl-P and Gl-D with amyloid beta (Aβ 40) 4.4.1 ThT Assay - Instrumentation and software 4.4.1.1 Sample preparation 4.4.1.2 Kinetics based on ThT assay- software and data analysis 4.4.2 CD spectroscopy - Instrumentation and software 4.4.2.1 Sample preparation 4.4.3 AFM - Instrumentation and software 4.4.3.1 Substrate and sample preparation 4.4.3.2 Height determination and counting procedures 4.4.3.3 Topography and diameter 4.5 Cytotoxicity 4.5.1 Zeta potential 4.5.2 Cell culturing 4.5.3 Sample preparation 4.5.4 MTT assay 4.5.5 Changes in mitochondrial transmembrane potential (JC-1 method) 4.5.6 Flow cytometric detection of phosphatidyl serine exposure (Annexin V and PI method) 5 Results and Discussion 5.1 Synthesis and characterization of glyco-pseudodendrimers and glyco- dendrimers 5.1.1 Synthesis and characterization of hyperbranched polyester Table of Contents 5.1.2 Synthesis and characterization of pseudodendrimers P-G1-OH, P-G2-OH and P-G3-OH 5.1.3 Synthesis and characterization of dendrimers D-G4-OH, D-G5-OH and D-G6-OH 5.1.4 Synthesis and characterization of Gl-P and Gl-D 5.1.4.1 Molecular size determination of Gl-P and Gl-D using SEC 5.1.4.2 Particle size determination using batch DLS 5.1.4.3 Apparent densities 5.1.4.4 Molecular size determination of Gl-P and Gl-D using AF4 ..... 5.1.5 Molecular dynamics simulation 5.2 Investigation of interaction of Gl-P and Gl-D with amyloid beta (Aβ 40) ...... 5.2.1 ThT Assay 5.2.1.1 Kinetics based on ThT assay 5.2.2 CD spectroscopy 5.2.3 Time dependent AF4 5.3.2.1 Separation of Aβ 40 by AF4 5.3.2.2 Aβ 40 amyloid aggregation in the presence of Gl-P and Gl-D 5.2.4 AFM 5.2.4.1 Height 5.2.4.2 Topography and diameter 5.2.4.3 Length 5.2.4.4 Morphology 5.2.5 Cytotoxicity 5.2.5.1 MTT assay 5.2.5.2 Changes in mitochondrial transmembrane potential 5.2.5.3 Flow cytometric detection of phosphatidyl serine exposure 6 Conclusions and Outlook 7 Bibliography Appendix Acknowledgement
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