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21.
Phase behaviour of self-assembled monolayers controlled by tuning physisorbed and chemisorbed states: a lattice-model view
Sara Fortuna, David L. Cheung, Karen Johnston, 2016, izvirni znanstveni članek

Opis: The self-assembly of molecules on surfaces into 2D structures is important for the bottom-up fabrication of functional nanomaterials, and the self-assembledstructure depends on the interplay between molecule-molecule interactions and molecule-surface interactions. Halogenated benzene derivatives on platinum have been shown to have two distinct adsorption states: a physisorbed state and a chemisorbed state, and the interplay between the two can be expected to have a profound effect on the self-assembly and phase behaviour of these systems. We developed a lattice model that explicitly includes both adsorption states, with representative interactions parameterised using density functional theory calculations. This model was used in Monte Carlo simulations to investigate pattern formation of hexahalogenated benzene molecules on the platinumsurface. Molecules that prefer the physisorbed state were found to self-assemble with ease, depending on the interactions between physisorbed molecules. In contrast, molecules that preferentially chemisorb tend to get arrested in disordered phases. However, changing the interactions between chemisorbed and physisorbed molecules affects the phase behaviour. We propose functionalising molecules in order to tune their adsorption states, as an innovative way to control monolayer structure, leading to a promising avenue for directed assembly of novel 2D structures.
Najdeno v: osebi
Ključne besede: lattice model, hexagonal lattice, Monte Carlo, DFT, density functional theory, benzene, physisorption, chemisorption, halogenated
Objavljeno: 11.10.2016; Ogledov: 1414; Prenosov: 0
.pdf Polno besedilo (5,75 MB)

22.
Nanobodies against surface biomarkers enable the analysis of tumor genetic heterogeneity in uveal melanoma Patient Derived Xenografts
Ronan Crepin, David Gentien, Angeline Duche, Audrey Rapinat, Cecile Reyes, Fariba Nemati, Gerald Massonnet, Didier Deacaudin, Selma Djander, Sandrine Moutel, Klervi Even Desrumeaux, Nathalie Cassoux, Sophie Piperno-Neumann, Sebastian Amigorena, Franck Perez, Sergio Roman-Roman, Ario de Marco, 2017, izvirni znanstveni članek

Opis: Monoclonal antibodies specific for biomarkers expressed on the surface of uveal melanoma (UM) cells would simplify the immune-capture and genomic characterization of heterogeneous tumor cells originated from patient derived xenografts (PDXs). Antibodies against four independent tumor antigens were isolated by panning a nanobody synthetic library. Such antibodies enabled flow-cytometry-based sorting of distinct cell sub-populations from UM PDXs and to analyze their genomic features. The complexity and specificity of the biochemical and genomic biomarker combinations mirrored the UM tumor polyclonality. The data showed that MUC18 is highly and universally displayed at the surface of UM cells with different genetic background and consequently represents a reliable pan-biomarker for their identification and purification. In contrast, the other three biomarkers were detected in very variable combinations in UM PDX cells. The availability of the identified nanobodies will be instrumental in developing clone-specific drug evaluation and rational clinical strategies based on accurate genomic profiling
Najdeno v: osebi
Ključne besede: nanobodies, uveal melanoma, patient derived xenografts, MUC18, membrane surface biomarkers, panning, tumor polyclonality
Objavljeno: 19.04.2017; Ogledov: 1263; Prenosov: 0
.pdf Polno besedilo (1,11 MB)

23.
The VPS4 component of the ESCRT machinery plays an essential role in HPV infectious entry and capsid disassembly
Lawrence Banks, Colin Crump, Anna Gozdzicka-Jozefiak, Martina Bergant, David Pim, Paola Massimi, Justyna Broniarczyk, 2017, izvirni znanstveni članek

Opis: Human Papillomavirus (HPV) infection involves multiple steps, from cell attachment, through endocytic trafficking towards the trans-Golgi network, and, ultimately, the entry into the nucleus during mitosis. An essential viral protein in infectious entry is the minor capsid protein L2, which engages different components of the endocytic sorting machinery during this process. The ESCRT machinery is one such component that seems to play an important role in the early stages of infection. Here we have analysed the role of specific ESCRT components in HPV infection, and we find an essential role for VPS4. Loss of VPS4 blocks infection with multiple PV types, suggesting an evolutionarily conserved critical step in infectious entry. Intriguingly, both L1 and L2 can interact with VPS4, and appear to be in complex with VPS4 during the early stages of virus infection. By using cell lines stably expressing a dominant-negative mutant form of VPS4, we also show that loss of VPS4 ATPase activity results in a marked delay in capsid uncoating, resulting in a defect in the endocytic transport of incoming PsVs. These results demonstrate that the ESCRT machinery, and in particular VPS4, plays a critical role in the early stages of PV infection.
Najdeno v: osebi
Ključne besede: HPV, ESCRT machinery, infection
Objavljeno: 08.05.2017; Ogledov: 1208; Prenosov: 89
.pdf Polno besedilo (1,10 MB)

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Toxins in microalgae
Tanja Batkovič, Mojca Zotler, Meta Križaj, Jan David, Dani Bratuž, Anže Kuraj, 2017, končno poročilo o rezultatih raziskav

Opis: The aim of the project is to develop a detection system for the toxic algae Alexandrium minutum which can be than used as part of biosensor. First, we will isolate a single-domain antibody from a pre-immune library, then subclone its sequence in different vectors and produce it. Finally, we will design alternative ELISA methods and choose the most suitable to quantify the microalgae in water samples.
Najdeno v: osebi
Ključne besede: Alexandrium minutum, mikroalge, biosenzorji ELISA
Objavljeno: 02.11.2018; Ogledov: 457; Prenosov: 0
.pdf Polno besedilo (5,00 MB)

29.
Phosphorylation of HPV-16 L2 Contributes To Efficient Virus Infectious Entry
Robert L. Garcea, Michael P. Myers, Martina Bergant Marušič, David Pim, Paola Massimi, Justyna Broniarczyk, Lawrence Banks, 2019, izvirni znanstveni članek

Opis: The Human Papillomavirus (HPV) capsid comprises two viral proteins, L1 and L2, with the L2 component being essential to ensure efficient endocytic transport of incoming viral genomes. Several studies have previously reported that L1 and L2 are post-translationally modified, but it is uncertain whether these modifications affect HPV infectious entry. Using a proteomic screen, we identified a highly conserved phospho-acceptor site on the HPV-16 and BPV-1 L2 proteins. The phospho-modification of L2, and its presence in HPV pseudovirions (PsVs), was confirmed using anti-phospho L2-specific antibodies. Mutation of the phospho-acceptor sites of both HPV-16 and BPV-1 L2 resulted in the production of infectious virus particles, with no differences in efficiency of packaging the reporter DNA. However, these mutated PsVs showed marked defects in infectious entry. Further analysis revealed a defect in uncoating, characterized by a delay in the exposure of a conformational epitope on L1 that indicates capsid uncoating. This uncoating defect was accompanied by a delay in the proteolysis of both L1 and L2 in mutated HPV-16 PsVs. Taken together, these studies indicate that phosphorylation of L2 during virus assembly plays an important role in optimal uncoating of virions during infection, suggesting that phosphorylation of the viral capsid proteins contributes to infectious entry.
Najdeno v: osebi
Ključne besede: HPV, L2, infection, protein phosphorylation
Objavljeno: 05.06.2019; Ogledov: 372; Prenosov: 0
.pdf Polno besedilo (1,70 MB)

30.
Atmospheric chemistry and physics in the atmosphere of a developed megacity (London): An overview of the REPARTEE experiment and its conclusions
Gavin J Phillips, Carole Helfter, Chiara F Di Marco, Eiko Nemitz, Fay Davies, Janet F Barlow, Tyrone Dunbar, Iain R White, Dudley E Shallcross, Stephen J Henshaw, K Fredrik Peterson, Brian Davison, Damien Martin, Ben Langford, C Nicholas Hewitt, Stephen M Ball, Justin M Langridge, A K Benton, Roderick L Jones, Paul I Williams, John Whitehead, Martin W Gallagher, Claire Martin, James R Dorsey, Hugh Coe, James D Allan, William J Bloss, Alistair J Thorpe, David C S Beddows, Manuel DallOsto, Roy M Harrison, Steven Smith, 2012, pregledni znanstveni članek

Opis: The Regents Park and Tower Environmental Experiment (REPARTEE) comprised two campaigns in London in October 2006 and October/November 2007. The experiment design involved measurements at a heavily trafficked roadside site, two urban background sites and an elevated site at 160-190 m above ground on the BT Tower, supplemented in the second campaign by Doppler lidar measurements of atmospheric vertical structure. A wide range of measurements of airborne particle physical metrics and chemical composition were made as well as measurements of a considerable range of gas phase species and the fluxes of both particulate and gas phase substances. Significant findings include (a) demonstration of the evaporation of traffic-generated nanoparticles during both horizontal and vertical atmospheric transport; (b) generation of a large base of information on the fluxes of nanoparticles, accumulation mode particles and specific chemical components of the aerosol and a range of gas phase species, as well as the elucidation of key processes and comparison with emissions inventories; (c) quantification of vertical gradients in selected aerosol and trace gas species which has demonstrated the important role of regional transport in influencing concentrations of sulphate, nitrate and secondary organic compounds within the atmosphere of London; (d) generation of new data on the atmospheric structure and turbulence above London, including the estimation of mixed layer depths; (e) provision of new data on trace gas dispersion in the urban atmosphere through the release of purposeful tracers; (f) the determination of spatial differences in aerosol particle size distributions and their interpretation in terms of sources and physico-chemical transformations; (g) studies of the nocturnal oxidation of nitrogen oxides and of the diurnal behaviour of nitrate aerosol in the urban atmosphere, and (h) new information on the chemical composition and source apportionment of particulate matter size fractions in the atmosphere of London derived both from bulk chemical analysis and aerosol mass spectrometry with two instrument types.
Najdeno v: osebi
Ključne besede: megacity, trace gas, urban atmosphere, atmospheric transport, chemical composition, aerosol
Objavljeno: 18.07.2019; Ogledov: 192; Prenosov: 0
.pdf Polno besedilo (4,66 MB)

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