426 results on '"Curmi, P."'
Search Results
2. Factors affecting interface bonding in multi-material additive manufacturing
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Delia, Sarah, Rochman, Arif, and Curmi, Albert
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- 2024
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3. Miniaturized fused granulate fabrication of polyether ether ketone (PEEK)
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Curmi, Albert and Rochman, Arif
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- 2024
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4. Screw extrusion additive manufacturing of thermoplastic polyolefin elastomer
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Curmi, Albert, Rochman, Arif, and Gatt, Alfred
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- 2024
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5. Runtime Verification for Trustworthy Computing
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Abela, Robert, Colombo, Christian, Curmi, Axel, Fenech, Mattea, Vella, Mark, and Ferrando, Angelo
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Computer Science - Cryptography and Security ,Computer Science - Robotics - Abstract
Autonomous and robotic systems are increasingly being trusted with sensitive activities with potentially serious consequences if that trust is broken. Runtime verification techniques present a natural source of inspiration for monitoring and enforcing the desirable properties of the communication protocols in place, providing a formal basis and ways to limit intrusiveness. A recently proposed approach, RV-TEE, shows how runtime verification can enhance the level of trust to the Rich Execution Environment (REE), consequently adding a further layer of protection around the Trusted Execution Environment (TEE). By reflecting on the implication of deploying RV in the context of trustworthy computing, we propose practical solutions to two threat models for the RV-TEE monitoring process: one where the adversary has gained access to the system without elevated privileges, and another where the adversary gains all privileges to the host system but fails to steal secrets from the TEE., Comment: In Proceedings AREA 2023, arXiv:2310.00333
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- 2023
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6. On the Nash points of subanalytic sets
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da Silva, Andre Belotto, Curmi, Octave, and Rond, Guillaume
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Mathematics - Algebraic Geometry - Abstract
Based on a recently developed rank Theorem for Eisenstein power series, we provide new proofs of the following two results of W. Pawlucki: I) The non regular locus of a complex or real analytic map is an analytic set. II) The set of semianalytic or Nash points of a subanalytic set X is a subanalytic set, whose complement has codimension two in X., Comment: Important: Our original pre-print arXiv:2205.03079 had two set of distinct results. We have divided that pre-print in two. This paper contains the second set of results ; v2 of the original submission contains the first set of results. We have divided our pre-print
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- 2023
7. On rank Theorems for morphisms of local rings
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da Silva, André Belotto, Curmi, Octave, and Rond, Guillaume
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Mathematics - Algebraic Geometry ,Mathematics - Commutative Algebra ,Mathematics - Complex Variables - Abstract
We prove a generalization of Gabrielov's rank theorem for families of rings of power series which we call W-temperate. Examples include the families of complex analytic functions and of Eisenstein series. As a Corollary, we provide rank Theorems for convergent series in general characteristic zero complete valued fields (not necessarily algebraically closed, nor archimedean)., Comment: Two important changes from previous version: 1) The previous paper had two sets of distinct results. We have divided the paper in two, and this version contains the first set of results. The second part will appear in a new arXiv submission. The title has changed. 2) Corollary 1.2 has been added
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- 2022
8. Motility of an autonomous protein-based artificial motor that operates via a burnt-bridge principle
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Chapin S. Korosec, Ivan N. Unksov, Pradheebha Surendiran, Roman Lyttleton, Paul M. G. Curmi, Christopher N. Angstmann, Ralf Eichhorn, Heiner Linke, and Nancy R. Forde
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Science - Abstract
Abstract Inspired by biology, great progress has been made in creating artificial molecular motors. However, the dream of harnessing proteins – the building blocks selected by nature – to design autonomous motors has so far remained elusive. Here we report the synthesis and characterization of the Lawnmower, an autonomous, protein-based artificial molecular motor comprised of a spherical hub decorated with proteases. Its “burnt-bridge” motion is directed by cleavage of a peptide lawn, promoting motion towards unvisited substrate. We find that Lawnmowers exhibit directional motion with average speeds of up to 80 nm/s, comparable to biological motors. By selectively patterning the peptide lawn on microfabricated tracks, we furthermore show that the Lawnmower is capable of track-guided motion. Our work opens an avenue towards nanotechnology applications of artificial protein motors.
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- 2024
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9. The Lawnmower: an autonomous, protein-based artificial molecular motor
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Korosec, Chapin S., Unksov, Ivan, Surendiran, Pradheebha, Lyttleton, Roman, Curmi, Paul M. G., Angstmann, Christopher N., Eichhorn, Ralf, Linke, Heiner, and Forde, Nancy R.
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Physics - Biological Physics - Abstract
Inspired by biology, great progress has been made in creating artificial molecular motors. However, the dream of harnessing proteins - the building blocks selected by Nature - to design autonomous motors has so far remained elusive. Here we report the synthesis and characterization of the Lawnmower, an autonomous, protein-based artificial molecular motor comprised of a spherical hub decorated with proteases. Its "burnt-bridge" motion is directed by cleavage of a peptide lawn, promoting motion towards unvisited substrate. We find that Lawnmowers exhibit directional motion with average speeds of up to 80 nm/s, comparable to biological motors. By selectively patterning the peptide lawn on microfabricated tracks, we furthermore show that the Lawnmower is capable of track-guided motion. Our work opens an avenue towards nanotechnology applications of artificial protein motors.
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- 2021
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10. Molecular dissection of the soluble photosynthetic antenna from the cryptophyte alga Hemiselmis andersenii
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Rathbone, Harry W., Laos, Alistair J., Michie, Katharine A., Iranmanesh, Hasti, Biazik, Joanna, Goodchild, Sophia C., Thordarson, Pall, Green, Beverley R., and Curmi, Paul M. G.
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- 2023
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11. Location of the axon initial segment assembly can be predicted from neuronal shape
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Zhuang Xu, Christopher N. Angstmann, Yuhuang Wu, Holly Stefen, Esmeralda Parić, Thomas Fath, and Paul M.G. Curmi
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Classification Description: Molecular neuroscience ,Cellular neuroscience ,Science - Abstract
Summary: The axon initial segment (AIS) is located at the proximal axon demarcating the boundary between axonal and somatodendritic compartments. The AIS facilitates the generation of action potentials and maintenance of neuronal polarity. In this study, we show that the location of AIS assembly, as marked by Ankyrin G, corresponds to the nodal plane of the lowest-order harmonic of the Laplace-Beltrami operator solved over the neuronal shape. This correlation establishes a coupling between location of AIS assembly and neuronal cell morphology. We validate this correlation for neurons with atypical morphology and neurons containing multiple AnkG clusters on distinct neurites, where the nodal plane selects the appropriate axon showing enriched Tau. Based on our findings, we propose that Turing patterning systems are candidates for dynamically governing AIS location. Overall, this study highlights the importance of neuronal cell morphology in determining the precise localization of the AIS within the proximal axon.
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- 2024
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12. Molecular dissection of the soluble photosynthetic antenna from the cryptophyte alga Hemiselmis andersenii
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Harry W. Rathbone, Alistair J. Laos, Katharine A. Michie, Hasti Iranmanesh, Joanna Biazik, Sophia C. Goodchild, Pall Thordarson, Beverley R. Green, and Paul M. G. Curmi
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Biology (General) ,QH301-705.5 - Abstract
Abstract Cryptophyte algae have a unique phycobiliprotein light-harvesting antenna that fills a spectral gap in chlorophyll absorption from photosystems. However, it is unclear how the antenna transfers energy efficiently to these photosystems. We show that the cryptophyte Hemiselmis andersenii expresses an energetically complex antenna comprising three distinct spectrotypes of phycobiliprotein, each composed of two αβ protomers but with different quaternary structures arising from a diverse α subunit family. We report crystal structures of the major phycobiliprotein from each spectrotype. Two-thirds of the antenna consists of open quaternary form phycobiliproteins acting as primary photon acceptors. These are supplemented by a newly discovered open-braced form (~15%), where an insertion in the α subunit produces ~10 nm absorbance red-shift. The final components (~15%) are closed forms with a long wavelength spectral feature due to substitution of a single chromophore. This chromophore is present on only one β subunit where asymmetry is dictated by the corresponding α subunit. This chromophore creates spectral overlap with chlorophyll, thus bridging the energetic gap between the phycobiliprotein antenna and the photosystems. We propose that the macromolecular organization of the cryptophyte antenna consists of bulk open and open-braced forms that transfer excitations to photosystems via this bridging closed form phycobiliprotein.
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- 2023
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13. A proof of A. Gabrielov's rank Theorem
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da Silva, André Belotto, Curmi, Octave, and Rond, Guillaume
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Mathematics - Complex Variables ,Mathematics - Commutative Algebra ,Mathematics - Algebraic Geometry ,Primary 13J05, 32B05, Secondary 12J10, 13A18, 13B35, 14B05, 14B20, 30C10, 32A22, 32S45 - Abstract
This article contains a complete proof of Gabrielov's rank Theorem, a fundamental result in the study of analytic map germs. Inspired by the works of Gabrielov and Tougeron, we develop formal-geometric techniques which clarify the difficult parts of the original proof. These techniques are of independent interest, and we illustrate this by adding a new (very short) proof of the Abhyankar-Jung Theorem. We include, furthermore, new extensions of the rank Theorem (concerning the Zariski main Theorem and elimination theory) to commutative algebra., Comment: Final version, 62 pages, to appear in J. Ec. polytech. Math
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- 2020
14. Boundary of the Milnor fiber of a Newton non degenerate surface singularity
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Curmi, Octave
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Mathematics - Algebraic Geometry - Abstract
We give in this work an explicit combinatorial algorithm for the description of the Milnor fiber of a Newton non degenerate surface singularity as a graph manifold. This is based on a previous work by the author describing a general method for the computation of the boundary of the Milnor fiber of any reduced non isolated singularity of complex surface., Comment: arXiv admin note: substantial text overlap with arXiv:1910.04145
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- 2019
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15. Topology of smoothings of non-isolated singularities of complex surfaces
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Curmi, Octave
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Mathematics - Algebraic Geometry - Abstract
We prove that the boundaries of the Milnor fibers of smoothings of non-isolated reduced complex surface singularities are graph manifolds. Moreover, we give a method, inspired by previous work of N\'emethi and Szilard, to compute associated plumbing graphs., Comment: This is a preprint of a work to appear in Mathematische Annalen
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- 2019
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16. Comportement physique intrinsèque de mottes à macroporosité différente
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Curmi, P., primary
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- 2022
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17. Vibronic resonances facilitate excited state coherence in light harvesting proteins at room temperature
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Novelli, Fabio, Nazir, Ahsan, Richards, Gethin H., Roozbeh, Ashkan, Wilk, Krystyna E., Curmi, Paul M. G., and Davis, Jeffrey A.
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Physics - Biological Physics ,Physics - Chemical Physics ,Physics - Optics ,Quantum Physics - Abstract
Until recently it was believed that photosynthesis, a fundamental process for life on earth, could be fully understood with semi-classical models. However, puzzling quantum phenomena have been observed in several photosynthetic pigment-protein complexes, prompting questions regarding the nature and role of these effects. Recent attention has focused on discrete vibrational modes that are resonant or quasi-resonant with excitonic energy splittings and strongly coupled to these excitonic states. Here we unambiguously identify excited state coherent superpositions in photosynthetic light-harvesting complexes using a new experimental approach. Decoherence on the timescale of the excited state lifetime allows low energy (56 cm-1) oscillations on the signal intensity to be observed. In conjunction with an appropriate model, these oscillations provide clear and direct experimental evidence that the persistent coherences observed require strong vibronic mixing among excited states.
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- 2015
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18. Scaffolding proteins guide the evolution of algal light harvesting antennas
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Harry W. Rathbone, Katharine A. Michie, Michael J. Landsberg, Beverley R. Green, and Paul M. G. Curmi
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Science - Abstract
Cryptophytes acquired plastids from red algae but replaced the light-harvesting phycobilisome with a unique cryptophyte antenna. Here via analysis of phycobilisome cryo-EM structures, Rathbone et al. propose that the α subunit of the cryptophyte antenna originated from phycobilisome linker proteins
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- 2021
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19. Transforming School Hallways through Critical Inquiry: Multimodal Literacies for Civic Engagement
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DeJaynes, Tiffany and Curmi-Hall, Christopher
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The authors examined the research and activism of 10th graders (ages 15-16) involved in a youth participatory action research project in a course in qualitative research at their small public school in New York City, New York. The authors, a classroom researcher and a high school teacher, looked closely at how the youth researchers used photography, collage, and videography to transform their school hallways into a space for critical conversations about race and gender. The authors examined how the hallways became a civic space shaped by collective youth resistance, multimodal counterstories, and negotiated civic engagement.
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- 2019
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20. Cecal Bascule in a COVID-19 Positive Patient: Case Report
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Arthur Curmi and Robert Cuschieri
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volvulus ,bascule ,cecum ,obstruction ,anastomotic leak ,case report ,Surgery ,RD1-811 - Abstract
Cecal volvulus is an uncommon cause of acute intestinal obstruction accounting for around 10% of intestinal volvuli. There are three main variants of cecal volvuli including the axial, loop, and bascule types. Diagnosis is confirmed via a computed tomography scan and surgery is the mainstay treatment due to a high risk of morbidity and mortality. Here we report a rare presentation of cecal volvulus in a COVID-19 positive patient that was complicated by an anastomotic leak.
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- 2022
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21. Publisher Correction: Molecular dynamics of the histamine H3 membrane receptor reveals different mechanisms of GPCR signal transduction
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Herrera-Zúñiga, Leonardo David, Moreno‑Vargas, Liliana Marisol, Ballaud, Luck, Correa‑Basurto, José, Prada‑Gracia, Diego, Pastré, David, Curmi, Patrick A., Arrang, Jean Michel, and Maroun, Rachid C.
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- 2021
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22. Scaffolding proteins guide the evolution of algal light harvesting antennas
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Rathbone, Harry W., Michie, Katharine A., Landsberg, Michael J., Green, Beverley R., and Curmi, Paul M. G.
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- 2021
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23. Synthetic biology approaches to dissecting linear motor protein function: towards the design and synthesis of artificial autonomous protein walkers
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Linke, Heiner, Höcker, Birte, Furuta, Ken’ya, Forde, Nancy R., and Curmi, Paul M. G.
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- 2020
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24. Topology of smoothings of non-isolated singularities of complex surfaces
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Curmi, Octave
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- 2020
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25. Disentangling electronic and vibrational coherence in the Phycocyanin-645 light-harvesting complex
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Richards, Gethin H., Wilk, Krystyna E., Curmi, Paul M. G., and Davis, Jeffrey A.
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Physics - Chemical Physics ,Physics - Biological Physics ,Physics - Optics - Abstract
Energy transfer between chromophores in photosynthesis proceeds with near unity quantum efficiency. Understanding the precise mechanisms of these processes is made difficult by the complexity of the electronic structure and interactions with different vibrational modes. Two-dimensional spectroscopy has helped resolve some of the ambiguities and identified quantum effects that may be important for highly efficient energy transfer. Many questions remain, however, including whether the coherences observed are electronic and/or vibrational in nature and what role they play. We utilise a two-colour four-wave mixing experiment with control of the wavelength and polarization to selectively excite specific coherence pathways. For the light-harvesting complex PC645, from cryptophyte algae, we reveal and identify specific contributions from both electronic and vibrational coherences and determine an excited state structure based on two strongly-coupled electronic states and two vibrational modes. Separation of the coherence pathways also uncovers the complex evolution of these coherences and the states involved.
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- 2013
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26. How Authors Did It--A Methodological Analysis of Recent Engineering Education Research Papers in the European Journal of Engineering Education
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Malmi, Lauri, Adawi, Tom, Curmi, Ronald, de Graaff, Erik, Duffy, Gavin, Kautz, Christian, Kinnunen, Päivi, and Williams, Bill
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We investigated research processes applied in recent publications in the "European Journal of Engineering Education" (EJEE), exploring how papers link to theoretical work and how research processes have been designed and reported. We analysed all 155 papers published in EJEE in 2009, 2010 and 2013, classifying the papers using a taxonomy of research processes in engineering education research (EER) (Malmi et al. 2012). The majority of the papers presented either empirical work (59%) or were case reports (27%). Our main findings are as follows: (1) EJEE papers build moderately on a wide selection of theoretical work; (2) a great majority of papers have a clear research strategy, but data analysis methods are mostly simple descriptive statistics or simple/undocumented qualitative research methods; and (3) there are significant shortcomings in reporting research questions, methodology and limitations of studies. Our findings are consistent with and extend analyses of EER papers in other publishing venues; they help to build a clearer picture of the research currently published in EJEE and allow us to make recommendations for consideration by the editorial team of the journal. Our employed procedure also provides a framework that can be applied to monitor future global evolution of this and other EER journals.
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- 2018
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27. Hip Fractures in Malta: Are we Missing an Opportunity?
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Mark Bugeja, Arthur Curmi, Daniel Desira, Gregory Apap Bologna, Francesco Galea, and Ivan Esposito
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hip fractures ,fragility fractures ,calcium ,vitamin d ,bisphosphonates ,Surgery ,RD1-811 - Abstract
Introduction Osteoporosis is a bone disease that is both preventable and treatable. It usually becomes evident when a fragility fracture occurs. Unfortunately, most studies show that only a small percentage of individuals at increased risk of fracture are assessed and treated, even following a fragility fracture. Objective The aim of this study was to determine whether patients suffering from a low-energy hip fractures in the Maltese Islands are given osteoporosis treatment. Method All patients older than 50 years presenting to the acute care hospitals in Malta and Gozo with a fragility hip fracture during December 1, 2015 and November 30, 2016 were included. Data on mortality, other fragility fractures, prescription of calcium, vitamin D, and antiresorptive therapy were collected. Results Calcium with vitamin D supplements were prescribed to 40% of patients; however, only 2.64% of patients were given pharmacological therapy. Following a hip fracture, the mortality rate was 18.5% at 1 year and 26.21% at 2 years. Apart from a high mortality rate, 28.19% of individuals sustained another fragility fracture before or after the hip fracture. Conclusion There should be increased osteoporosis awareness in Malta and a national bone mineral density screening program should be set up. An active role of the orthogeriatrics team in the management and treatment of osteoporosis following a fragility fracture might improve treatment rate and decrease refracture and mortality rates.
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- 2021
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28. Photoluminescent diamond nanoparticles for cell labeling: study of the uptake mechanism in mammalian cells
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Faklaris, Orestis, Joshi, Vandana, Irinopoulou, Theano, Tauc, Patrick, Girard, Hugues, Gesset, Celine, Senour, Mohamed, Thorel, Alain, Arnault, Jean-Charles, Boudou, Jean-Paul, Curmi, Patrick A., and Treussart, François
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Physics - Optics - Abstract
Diamond nanoparticles (nanodiamonds) have been recently proposed as new labels for cellular imaging. For small nanodiamonds (size <40 nm) resonant laser scattering and Raman scattering cross-sections are too small to allow single nanoparticle observation. Nanodiamonds can however be rendered photoluminescent with a perfect photostability at room temperature. Such a remarkable property allows easier single-particle tracking over long time-scales. In this work we use photoluminescent nanodiamonds of size <50 nm for intracellular labeling and investigate the mechanism of their uptake by living cells . By blocking selectively different uptake processes we show that nanodiamonds enter cells mainly by endocytosis and converging data indicate that it is clathrin mediated. We also examine nanodiamonds intracellular localization in endocytic vesicles using immunofluorescence and transmission electron microscopy. We find a high degree of colocalization between vesicles and the biggest nanoparticles or aggregates, while the smallest particles appear free in the cytosol. Our results pave the way for the use of photoluminescent nanodiamonds in targeted intracellular labeling or biomolecule delivery
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- 2009
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29. Comparison of the photoluminescence properties of semiconductor quantum dots and non-blinking diamond nanoparticles. Observation of the diffusion of diamond nanoparticles in living cells
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Faklaris, Orestis, Garrot, Damien, Treussart, François, Joshi, Vandana, Curmi, Patrick, Boudou, Jean-Paul, and Sauvage, Thierry
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Physics - Optics ,Condensed Matter - Materials Science ,Quantum Physics - Abstract
Long-term observations of photoluminescence at the single-molecule level were until recently very diffcult, due to the photobleaching of organic ?uorophore molecules. Although inorganic semiconductor nanocrystals can overcome this diffculty showing very low photobleaching yield, they suffer from photoblinking. A new marker has been recently introduced, relying on diamond nanoparticles containing photoluminescent color centers. In this work we compare the photoluminescence of single quantum dots (QDs) to the one of nanodiamonds containing a single-color center. Contrary to other markers, photoluminescent nanodiamonds present a perfect photostability and no photoblinking. At saturation of their excitation, nanodiamonds photoluminescence intensity is only three times smaller than the one of QDs. Moreover, the bright and stable photoluminescence of nanodiamonds allows wide field observations of single nanoparticles motion. We demonstrate the possibility of recording the tra jectory of such single particle in culture cells.
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- 2009
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30. Influencing Factors Affecting Young People's Attitude Towards Online Advertising: A Systematic Literature Review
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Ivan De Battista, Franco Curmi, and Emanuel Said
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Management. Industrial management ,HD28-70 ,Business ,HF5001-6182 - Abstract
Young people are constantly targeted by online advertisements. This systematic literature review aims to identify the principal factors that influence young people's attitude towards online advertising. It seeks to understand if the influence of online advertising is dependent on gender and age differences in young people. The methodology involves the systematic review of empirical studies published from 1994 to 2020 and identifies the factors that impact young people's attitude towards online advertising. The review commences with a scoping study and follows the PRISMA structure, which includes identifying studies, screening and evaluation, the analysis and synthesis of studies, and the presentation of the final studies. This work reveals two main observations from a thematic content analysis of the appraised studies. The first relates to the principal factors influencing young people's attitude towards advertising. These factors comprise informativeness, entertainment, irritation, credibility, personalisation, and interactivity. In general, studies show that when informativeness, entertainment, credibility and interactivity are present, the more positive the attitude towards advertising is, while irritation fosters an unfavourable attitude. Studies provide a dichotomous stand on personalisation. The second relates to young people's age and gender. Our review notes that earlier studies lack focus on audiences predominantly between 10 and 15 years. Keywords: Attitude towards online advertising, advertising value, young people JEL Classifications: M31, M37 DOI: https://doi.org/10.32479/irmm.11398
- Published
- 2021
31. Molecular dynamics of the histamine H3 membrane receptor reveals different mechanisms of GPCR signal transduction
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Herrera-Zúñiga, Leonardo David, Moreno-Vargas, Liliana Marisol, Ballaud, Luck, Correa-Basurto, José, Prada-Gracia, Diego, Pastré, David, Curmi, Patrick A., Arrang, Jean Michel, and Maroun, Rachid C.
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- 2020
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32. The impact of drip irrigation on soil quality in sloping orchards developed on marl - A case study
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Mateja MURŠEC, Jean LEVEQUE, Remi CHAUSSOD, and Pierre CURMI
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water ,topography ,stable soil aggregates ,soil organic matter ,caco3 ,Plant culture ,SB1-1110 - Abstract
The impact of drip irrigation on structural stability of soil aggregates was studied in soils of an apple (Malus domestica Borkh.) orchard, developed on marl. The field study was carried out in a sloping (20%) terrain in the north-eastern Slovenia at three slope positions (upslope, mid-slope and downslope), involving a comparison of irrigated versus non-irrigated situations after 6 years of drip irrigation practice. Structural stability was studied in three soil layers (0-5, 5-15 and 15-30 cm) at the end of the irrigation season (in September). In the same samples, soil organic carbon, total carbonates and soil moisture contents were determined. Drip irrigation significantly reduced structural stability and soil organic carbon in the surface soil layer (0-5 cm), while total carbonates increased. Based on the whole set of data, structural stability was strongly positively correlated with total carbonates and negatively correlated with soil organic carbon. This means that the effect of higher level of organic matter mineralisation on structural stability, due to irrigation, is counterbalanced by the increase of total carbonates content in the fine textured calcareous soils. Thus, a negative effect of irrigation on soil organic carbon had less destructive consequences on structural stability than expected.
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- 2018
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33. Teaching Sustainable and Integrated Resource Management Using an Interactive Nexus Model
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Bajzelj, Bojana, Fenner, Richard A., Curmi, Elizabeth, and Richards, Keith S.
- Abstract
Purpose: The purpose of this paper was to enhance and complement teaching about resource system feedbacks and environmental modelling. Students were given an interactive exercise based on a research model (ForeseerTM), developed by an inter-disciplinary research team, that explores the interconnectivity of water, energy and land resources. Two groups of students were involved, one of undergraduates and the other of graduates. Design/methodology/approach: The Foreseer model represents physical flows of the three resources (water, energy and land) using an interactive visual interface. The exercise was set up by giving students short instructions about how to use the tool to create four scenarios, and an online questionnaire was used to capture their understanding and their ability to extract information from the model. Findings: The exercise proved to be a helpful way to connect research and teaching in higher education, to the benefit of both. For students, it was an interactive and engaging way to learn about these complex sustainability issues. At the same time, it provided tangible feedback to researchers working on the model about the clarity of its user interface and its pedagogic value. Originality/value: This exercise represents a novel use of a resource model as a teaching tool in the study of the water, energy and land nexus, and is relevant to sustainability educators as an example of a model-centred learning approach on this topic.
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- 2016
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34. Systematics of U–Th disequilibrium in calcrete profiles: Lessons from southwest India
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Durand, N., Hamelin, B., Deschamps, P., Gunnell, Y., and Curmi, P.
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- 2016
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35. Mechanisms of thermal adaptation revealed from the genomes of the Anta rctic and
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Saunders, Neil F.W., Thomas, Torsten, Curmi, Paul M.G., Mattick, John S., Kuczek, Elizabeth, Slade, Rob, Davis, John, Franzmann, Peter, Boone, David, Rusterholtz, Karl, Feldman, Robert, Gates, Chris, Bench, Shellie, Sowers, Kevin, Kadner, Kristen, Aerts, Andrea, Dehal, Paramvir, Detter, Chris, Glavina, Tijana, Lucas, Susan, Richardson, Paul, Larimer, Frank, Hauser, Frank, Hauser, Loren, Land, Miriam, and Cavicchioli, Richard
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Genomes of the Antarctic Archaea Methanogenium frididum and Methanococcoides burtonii - Abstract
We generated draft genome sequences for two cold-adapted Archaea, Methanogenium frigidum and Methanococcoides burtonii, to identify genotypic characteristics that distinguish them from Archaea with a higher optimal growth temperature (OGT). Comparative genomics revealed trends in amino acid and tRNA composition, and structural features of proteins. Proteins from the cold-adapted Archaea are characterized by a higher content of non-charged polar amino acids, particularly Gln and Thr and a lower content of hydrophobic amino acids, particularly Leu. Sequence data from nine methanogen genomes (OGT 15-98oC) was used to generate 1 111 modeled protein structures. Analysis of the models from the cold-adapted Archaea showed a strong tendency in the solvent accessible area for more Gln, Thr an hydrophobic residues and fewer charged residues. A cold shock domain (CSD) protein (CspA homolog) was identified in M. frigidum, two hypothetical proteins with CSD-folds in M. burtonii, and a unique winged helix DNA-binding domain protein in M. burtonii. This suggests that these types of nucleic acid binding proteins have a critical role in cold-adapted Archaea. Structural analysis of tRNA sequences from the Archaea indicated that GC content is the major factor influencing tRNA stability in hyperthermophiles, but not in the psychrophiles, mesophiles or moderate thermophiles. Below an OGT of 60oC, the GC content in tRNA was largely unchanged, indicating that any requirement for flexibility of tRNA in psychrophiles is mediated by other means. This is the first time that comparisons have been performed with genome data from Archaea spanning the growth temperature extremes from psychrophiles to hyperthermophiles.
- Published
- 2003
36. Coherent phenomena in photosynthetic light harvesting: part two—observations in biological systems
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Rathbone, Harry W., Davis, Jeffery A., Michie, Katharine A., Goodchild, Sophia C., Robertson, Neil O., and Curmi, Paul M. G.
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- 2018
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37. Coherent phenomena in photosynthetic light harvesting: part one—theory and spectroscopy
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Rathbone, Harry W., Davis, Jeffery A., Michie, Katharine A., Goodchild, Sophia C., Robertson, Neil O., and Curmi, Paul M. G.
- Published
- 2018
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38. Physical attributes of Cambisol in apple (Malus domestica Borkh. cv. Gala) orchard under different weed management systems in Urubici, Plan alto Serrano SC, Brasil
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Daniela Schmitz, Arcangelo Loss, Bruno Salvador Oliveira, Paulo Emilio Lovato, Milton da Veiga, Gustavo Brunetto, Pierre Curmi, and Jucinei José Comin
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Bulk density ,chemical desiccation and mowing of weeds ,aggregate indices ,penetration resistance ,principal component analysis ,Agriculture - Abstract
The aim of this research was to evaluate the physical attributes of Cambisol in apple (Malus domestica Borkh. cv. Gala) orchard under different weed management systems in the state of Santa Catarina (SC), Brazil. The treatments were as follows: control (no weed management), chemical desiccation and mowing. We took samples of undisturbed soil at depths of 0-5, 5-10, 10-15 and 15-20 cm. We evaluated hydraulic conductivity (HC); bulk density (BD); soil penetration resistance (Pr); total porosity (TP), macropores (MaP), micropores (MiP); soil aggregation indices such as arithmetic and geometric mean diameter of air-dried and water-stable aggregates (AMDad, AMDws, GMDad, GMDws, respectively); aggregate stability index (ASIAMD and ASIGMD) and volumetric water content (VWC). We also carried out principal component analysis (PCA) with the data. The mowing or desiccation treatments increased BD at the 15-20 cm depth compared to control. The mowing treatment had the highest ASIGMD while desiccation contributed to the lowest ASIGMD. The desiccation treatment decreased AMDws (0-10 cm), ASIAMD (0-5 cm) GMDws (5-10 cm) and reduced HC by 26% and 22%, respectively, compared to the mowing and control treatments. Through PCA we were able to separate the three treatments. The mowing treatment was correlated with HC, VWC at pressure of 600 kPa and ASIGMD; desiccation was correlated with BD and Pr; and control with ASIAMD, MaP and TP.
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- 2017
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39. A Rare Case of Acquired Transthoracic Littre's Hernia
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Arthur Curmi, Anthony P. Dimech, Rebecca Dalli, Ayman Mostafa, and Joseph Debono
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case report ,meckel's diverticulum ,littre's hernia ,diaphragmatic defect ,transthoracic ,acquired ,Surgery ,RD1-811 - Abstract
Introduction The Littre hernia is a rare complication of Meckel's diverticulum. Meckel's diverticulum is vestigial remnant of the omphalomesenteric duct occurring in approximately 2% of the general population with an estimated 4 to 16% risk of complications. Usual sites of the Littre hernia include inguinal (50%), umbilical (20%), and femoral (20%). We report a case of an acquired transthoracic Littre's hernia occurring through the left part of the diaphragm triggered by a history of traumatic rib fractures associated with alcohol abuse. Case Report A 71-year-old man presented with 4-day history of worsening shortness of breath, colicky lower abdominal pain, and inability to open bowels despite passing flatus, without nausea or vomiting. His past medical history was remarkable for multiple traumatic rib fractures caused by falls which were associated with excessive alcohol consumption. A noncontrast computed tomography (CT) scan of the abdomen and pelvis showed distended jejunal loops containing air/fluid levels likely resulting from herniated jejunum between the left chest wall and left diaphragm. An urgent laparotomy was performed which revealed small bowel and omentum herniating through a small defect in the left posterior hemidiaphragm. The contents of the sac were reduced and a Meckel's diverticulum was found inside the sac, characteristic of Littre's hernia. The diaphragmatic defect was closed and the Meckel diverticulum stapled and excised. Discussion Herniation of Meckel's diverticulum through the diaphragm most commonly occurs in the pediatric population. Acquired transthoracic Littre's hernia is rare and may arise following thoracobdominal trauma caused by surgery, motor vehicle accidents, and falls from height. Left-diaphragmatic tears are characteristically more clinically apparent and symptomatic than the right since the liver often has a protective effect on the right part of the diaphragm. Herniation of abdominal contents in the chest cavity causes respiratory distress and requires urgent surgical correction. Diagnosis is often delayed since diaphragmatic hernia tends to present very late after the initial trauma, subjecting the patient to possible life-threatening complications. While it is easier to reduce the herniated contents and repair the diaphragm via a thoracic approach, laparotomy is often preferred in cases of acute trauma associated with intra-abdominal injuries. Repair of Littre's hernia then consists of resection of the diverticulum and herniorraphy. Conclusion Internal Littre's hernia is usually of congenital origin. This is the first case of a transthoracic Littre's hernia caused by traumatic rib fractures. Hence, it is of utter importance that a clinician is aware of such uncommon pathology.
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- 2019
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40. Publisher Correction: Molecular dynamics of the histamine H3 membrane receptor reveals different mechanisms of GPCR signal transduction
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Leonardo David Herrera-Zúñiga, Liliana Marisol Moreno‑Vargas, Luck Ballaud, José Correa‑Basurto, Diego Prada‑Gracia, David Pastré, Patrick A. Curmi, Jean Michel Arrang, and Rachid C. Maroun
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Medicine ,Science - Abstract
An amendment to this paper has been published and can be accessed via a link at the top of the paper.
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- 2021
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41. CLIC1 regulates dendritic cell antigen processing and presentation by modulating phagosome acidification and proteolysis
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Kanin Salao, Lele Jiang, Hui Li, Vicky W.-W. Tsai, Yasmin Husaini, Paul M. G. Curmi, Louise J. Brown, David A. Brown, and Samuel N. Breit
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CLIC1 ,Dendritic cells ,Phagosome ,Acidification ,Proteolysis ,Antigen presentation ,Science ,Biology (General) ,QH301-705.5 - Abstract
Intracellular chloride channel protein 1 (CLIC1) participates in inflammatory processes by regulating macrophage phagosomal functions such as pH and proteolysis. Here, we sought to determine if CLIC1 can regulate adaptive immunity by actions on dendritic cells (DCs), the key professional antigen presenting cells. To do this, we first generated bone marrow-derived DCs (BMDCs) from germline CLIC1 gene-deleted (CLIC1−/−) and wild-type (CLIC1+/+) mice, then studied them in vitro and in vivo. We found phagocytosis triggered cytoplasmic CLIC1 translocation to the phagosomal membrane where it regulated phagosomal pH and proteolysis. Phagosomes from CLIC1−/− BMDCs displayed impaired acidification and proteolysis, which could be reproduced if CLIC1+/+, but not CLIC1−/− cells, were treated with IAA94, a CLIC family ion channel blocker. CLIC1−/− BMDC displayed reduced in vitro antigen processing and presentation of full-length myelin oligodendrocyte glycoprotein (MOG) and reduced MOG-induced experimental autoimmune encephalomyelitis. These data suggest that CLIC1 regulates DC phagosomal pH to ensure optimal processing of antigen for presentation to antigen-specific T-cells. Further, they indicate that CLIC1 is a novel therapeutic target to help reduce the adaptive immune response in autoimmune diseases.
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- 2016
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42. Patterning of the MinD cell division protein in cells of arbitrary shape can be predicted using a heuristic dispersion relation
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James C. Walsh, Christopher N. Angstmann, Anna V. McGann, Bruce I. Henry, Iain G. Duggin, and Paul M. G. Curmi
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reaction-diffusion ,pattern formation ,cell division ,Min system ,Turing patterns ,Biology (General) ,QH301-705.5 ,Biotechnology ,TP248.13-248.65 - Abstract
Many important cellular processes require the accurate positioning of subcellular structures. Underpinning many of these are protein systems that spontaneously generate spatiotemporal patterns. In some cases, these systems can be described by non-linear reaction-diffusion equations, however, a full description of such equations is rarely available. A well-studied patterning system is the Min protein system that underpins the positioning of the FtsZ contractile ring during cell division in Escherichia coli. Using a coordinate-free linear stability analysis, the reaction terms can be separated from the geometry of a cell. The reaction terms produce a dispersion relation that can be used to predict patterning on any cell shape and size. Applying linear stability analysis to an accurate mathematical model of the Min system shows that while it correctly predicts the onset of patterning, the dispersion relation fails to predict oscillations and quantitative mode transitions. However, we show that data from full solutions of the Min model can be used to generate a heuristic dispersion relation. We show that this heuristic dispersion relation can be used to approximate the Min protein patterning obtained by full simulations of the non-linear reaction-diffusion equations. Moreover, it also predicts Min patterning obtained from experiments where the shapes of E. coli cells have been deformed into rectangles or arbitrary shapes. Using this procedure, it should be possible to generate heuristic dispersion relations from protein patterning data or simulations for any patterning process and subsequently use these to predict patterning for arbitrary cell shapes.
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- 2016
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43. Functional differences of short and long isoforms of spastin harboring missense mutation
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Clément Plaud, Vandana Joshi, Natallie Kajevu, Christian Poüs, Patrick A. Curmi, and Andrea Burgo
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Spastin ,SPG4 ,HSP ,Missense mutations ,Microtubules ,Medicine ,Pathology ,RB1-214 - Abstract
Mutations of the SPG4 (SPAST) gene encoding for spastin protein are the main causes of hereditary spastic paraplegia. Spastin binds to microtubules and severs them through the enzymatic activity of its AAA domain. Several missense mutations located in this domain lead to stable, nonsevering spastins that decorate a subset of microtubules, suggesting a possible negative gain-of-function mechanism for these mutants. Of the two main isoforms of spastin, only mutations of the long isoform, M1, are supposed to be involved in the onset of the pathology, leaving the role of the ubiquitously expressed shorter one, M87, not fully investigated and understood. Here, we show that two isoforms of spastin harboring the same missense mutation bind and bundle different subsets of microtubules in HeLa cells, and likely stabilize them by increasing the level of acetylated tubulin. However, only mutated M1 has the ability to interact with wild-type M1, and decorates a subset of perinuclear microtubules associated with the endoplasmic reticulum that display higher resistance to microtubule depolymerization and increased intracellular ionic strength, compared with those decorated by mutated M87. We further show that only mutated M1 decorates microtubules of proximal axons and dendrites, and strongly impairs axonal transport in cortical neurons through a mechanism likely independent of the microtubule-severing activity of this protein.
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- 2018
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44. Inhibition of Transcription Induces Phosphorylation of YB-1 at Ser102 and Its Accumulation in the Nucleus
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Dmitry A. Kretov, Daria A. Mordovkina, Irina A. Eliseeva, Dmitry N. Lyabin, Dmitry N. Polyakov, Vandana Joshi, Bénédicte Desforges, Loic Hamon, Olga I. Lavrik, David Pastré, Patrick A. Curmi, and Lev P. Ovchinnikov
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yb-1 ,nuclear translocation ,inhibition of transcription ,phosphorylation ,Cytology ,QH573-671 - Abstract
The Y-box binding protein 1 (YB-1) is an RNA/DNA-binding protein regulating gene expression in the cytoplasm and the nucleus. Although mostly cytoplasmic, YB-1 accumulates in the nucleus under stress conditions. Its nuclear localization is associated with aggressiveness and multidrug resistance of cancer cells, which makes the understanding of the regulatory mechanisms of YB-1 subcellular distribution essential. Here, we report that inhibition of RNA polymerase II (RNAPII) activity results in the nuclear accumulation of YB-1 accompanied by its phosphorylation at Ser102. The inhibition of kinase activity reduces YB-1 phosphorylation and its accumulation in the nucleus. The presence of RNA in the nucleus is shown to be required for the nuclear retention of YB-1. Thus, the subcellular localization of YB-1 depends on its post-translational modifications (PTMs) and intracellular RNA distribution.
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- 2019
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45. CARBONO ORGÂNICO TOTAL E AGREGAÇÃO DO SOLO EM SISTEMA DE PLANTIO DIRETO AGROECOLÓGICO E CONVENCIONAL DE CEBOLA
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Arcângelo Loss, Alex Basso, Bruno Salvador Oliveira, Leôncio de Paula Koucher, Rodolfo Assis de Oliveira, Claudinei Kurtz, Paulo Emílio Lovato, Pierre Curmi, Gustavo Brunetto, and Jucinei José Comin
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sistema plantio direto de hortaliças ,plantas de cobertura ,índices de agregação ,análise de componentes principais ,Agriculture (General) ,S1-972 - Abstract
Decorrente dos sistemas de manejo empregados no solo, como o sistema de preparo convencional (SPC) versus o sistema de plantio direto de hortaliças (SPDH), modificações nos atributos edáficos ocorrem; por exemplo, nos índices de agregação do solo e seu teor de carbono orgânico total (COT). Objetivaram-se quantificar os teores de COT e avaliar os índices de agregação do solo e a distribuição dos agregados por classes de diâmetro sob cultivo de cebola em SPDH e SPC, comparados a uma área de mata adjacente em Ituporanga, SC. Os tratamentos constituíram-se da semeadura de plantas de cobertura, solteiras e consorciadas, em SPDH: vegetação espontânea (VE); 100 % aveia; 100 % centeio; 100 % nabo-forrageiro; consórcio de nabo-forrageiro (14 %) e centeio (86 %); e consórcio de nabo-forrageiro (14 %) e aveia (86 %). Adicionalmente, foram avaliadas uma área de cultivo de cebola em SPC por ±37 anos e uma área de mata (floresta secundária; ±30 anos), ambas adjacentes ao experimento. Em setembro de 2013, cinco anos após a implantação dos tratamentos com plantas de cobertura, foram coletadas amostras indeformadas do solo nas camadas de 0-5, 5-10 e 10-20 cm e separados os agregados para avaliar a estabilidade via úmida. Nos agregados, foi quantificado o COT; após a separação em classes de diâmetro (8,00 mm>Ø≥0,105 mm), calcularam-se o diâmetro médio ponderado (DMP) e o geométrico (DMG) dos agregados; a distribuição deles em macroagregados (Ø≥2,0 mm), mesoagregados (2,0>Ø≥0,25 mm) e microagregados (Ø
- Published
- 2015
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46. Non-linear Min protein interactions generate harmonics that signal mid-cell division in Escherichia coli.
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James C Walsh, Christopher N Angstmann, Iain G Duggin, and Paul M G Curmi
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Medicine ,Science - Abstract
The Min protein system creates a dynamic spatial pattern in Escherichia coli cells where the proteins MinD and MinE oscillate from pole to pole. MinD positions MinC, an inhibitor of FtsZ ring formation, contributing to the mid-cell localization of cell division. In this paper, Fourier analysis is used to decompose experimental and model MinD spatial distributions into time-dependent harmonic components. In both experiment and model, the second harmonic component is responsible for producing a mid-cell minimum in MinD concentration. The features of this harmonic are robust in both experiment and model. Fourier analysis reveals a close correspondence between the time-dependent behaviour of the harmonic components in the experimental data and model. Given this, each molecular species in the model was analysed individually. This analysis revealed that membrane-bound MinD dimer shows the mid-cell minimum with the highest contrast when averaged over time, carrying the strongest signal for positioning the cell division ring. This concurs with previous data showing that the MinD dimer binds to MinC inhibiting FtsZ ring formation. These results show that non-linear interactions of Min proteins are essential for producing the mid-cell positioning signal via the generation of second-order harmonic components in the time-dependent spatial protein distribution.
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- 2017
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47. Two Sides of the Coin: Ezrin/Radixin/Moesin and Merlin Control Membrane Structure and Contact Inhibition
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Katharine A. Michie, Adam Bermeister, Neil O. Robertson, Sophia C. Goodchild, and Paul M. G. Curmi
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merlin ,ezrin ,moesin ,radixin ,FERM domain ,Biology (General) ,QH301-705.5 ,Chemistry ,QD1-999 - Abstract
The merlin-ERM (ezrin, radixin, moesin) family of proteins plays a central role in linking the cellular membranes to the cortical actin cytoskeleton. Merlin regulates contact inhibition and is an integral part of cell–cell junctions, while ERM proteins, ezrin, radixin and moesin, assist in the formation and maintenance of specialized plasma membrane structures and membrane vesicle structures. These two protein families share a common evolutionary history, having arisen and separated via gene duplication near the origin of metazoa. During approximately 0.5 billion years of evolution, the merlin and ERM family proteins have maintained both sequence and structural conservation to an extraordinary level. Comparing crystal structures of merlin-ERM proteins and their complexes, a picture emerges of the merlin-ERM proteins acting as switchable interaction hubs, assembling protein complexes on cellular membranes and linking them to the actin cytoskeleton. Given the high level of structural conservation between the merlin and ERM family proteins we speculate that they may function together.
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- 2019
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48. The bar-hinge motor: a synthetic protein design exploiting conformational switching to achieve directional motility
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Lara S R Small, Martin J Zuckermann, Richard B Sessions, Paul M G Curmi, Heiner Linke, Nancy R Forde, and Elizabeth H C Bromley
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molecular motors ,artificial protein motor ,langevin dynamics ,synthetic biology ,nanoscale motion ,Science ,Physics ,QC1-999 - Abstract
One challenge to synthetic biology is to design functional machines from natural building blocks, from individual amino acids up to larger motifs such as the coiled coil. Here we investigate a novel bipedal motor concept, the Bar-Hinge Motor (BHM), a peptide-based motor capable of executing directed motion via externally controlled conformational switching between a straight bar and a V -shaped hinged form. Incorporating ligand-regulated binding to a DNA track and periodic control of ligand supply makes the BHM an example of a ‘clocked walker’. Here, we employ a coarse-grained computational model for the BHM to assess the feasibility of a proposed experimental realization, with conformational switching regulated through the photoisomerization of peptide-bound azobenzene molecules. The results of numerical simulations using the model show that the incorporation of this conformational switch is necessary for the BHM to execute directional, rather than random, motion on a one-dimensional track. The power-stroke-driven directed motion is seen in the model even under conditions that underestimate the level of control we expect to be able to produce in the experimental realisation, demonstrating that this type of design should be an excellent vehicle for exploring the physics behind protein motion. By investigating its force-dependent dynamics, we show that the BHM is capable of directional motion against an applied load, even in the more relaxed conformational switching regimes. Thus, BHM appears to be an excellent candidate for a motor design incorporating a power stroke, enabling us to explore the ability of switchable coiled-coil designs to deliver power strokes within synthetic biology.
- Published
- 2019
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49. Microtubule-targeting drugs rescue axonal swellings in cortical neurons from spastin knockout mice
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Coralie Fassier, Anne Tarrade, Leticia Peris, Sabrina Courageot, Philippe Mailly, Cécile Dalard, Stéphanie Delga, Natacha Roblot, Julien Lefèvre, Didier Job, Jamilé Hazan, Patrick A. Curmi, and Judith Melki
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Medicine ,Pathology ,RB1-214 - Abstract
SUMMARY Mutations in SPG4, encoding the microtubule-severing protein spastin, are responsible for the most frequent form of hereditary spastic paraplegia (HSP), a heterogeneous group of genetic diseases characterized by degeneration of the corticospinal tracts. We previously reported that mice harboring a deletion in Spg4, generating a premature stop codon, develop progressive axonal degeneration characterized by focal axonal swellings associated with impaired axonal transport. To further characterize the molecular and cellular mechanisms underlying this mutant phenotype, we have assessed microtubule dynamics and axonal transport in primary cultures of cortical neurons from spastin-mutant mice. We show an early and marked impairment of microtubule dynamics all along the axons of spastin-deficient cortical neurons, which is likely to be responsible for the occurrence of axonal swellings and cargo stalling. Our analysis also reveals that a modulation of microtubule dynamics by microtubule-targeting drugs rescues the mutant phenotype of cortical neurons. Together, these results contribute to a better understanding of the pathogenesis of SPG4-linked HSP and ascertain the influence of microtubule-targeted drugs on the early axonal phenotype in a mouse model of the disease.
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- 2013
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50. Physical properties of an Alfisol and no-till soybean yield
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João Tavares Filho, Maria de Fátima Guimarães, Pierre Curmi, and Daniel Tessier
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semeadura direta ,propriedades físicas ,matéria orgânica ,rotação de culturas ,Agriculture (General) ,S1-972 - Abstract
It is known that any kind of soil management causes changes in the soil physical characteristics and can affect agricultural yield. The purpose of this study was to evaluate soil properties of an Alfisol and soybean yield under different management systems for no-tillage annual crops, no-tillage with chiseling and no-tillage crop rotation. The 11-year experiment was initiated in the 1998/99 growing season, on 100 x 30 m plots (11 % slope). Soil samples (5 per management system) were systematically collected (0-25 cm layer) in the summer growing season, to quantify soil organic matter, bulk density, macroporosity and flocculation, as well as soybean yield. The highest values for soil bulk density and organic matter content and the lowest for macroporosity were observed in the no-till system alone, whereas in the no-till system with quarterly chiseling the values for organic matter content were lowest, and no-tillage crop rotation resulted in the highest values for organic matter and macroporosity, and the lowest for soil bulk density. The average soybean yield was highest under no-till and trimestrial chiseling or crop rotation, and lowest for no-tillage annual crops no-tillage annual crops alone.
- Published
- 2012
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