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Protocells and LUCA: Transport of substances from first physicochemical principles
Publication date: Available online 3 January 2019Source: Progress in Biophysics and Molecular BiologyAuthor(s): Alexey V. Melkikh, Maria SutorminaAbstractModels of the transport of substances in protocells are considered from first physicochemical principles. Functional similarities and differences in the transport systems of archaea, cyanobacteria, E. coli, and diatoms have been analyzed. Based on the selection of the most important transport systems, a model of transport of substances through the membrane of the last universal common ancestor, LUCA, was constructed. Models of isotope separation in protocells were consid...
Source: Progress in Biophysics and Molecular Biology - January 4, 2019 Category: Molecular Biology Source Type: research

Investigation of caffeine taste mechanism through a statistical physics modeling of caffeine dose-taste response curve by a biological putative caffeine adsorption process in electrophysiological response
Publication date: Available online 31 December 2018Source: Progress in Biophysics and Molecular BiologyAuthor(s): Amel Nakbi, Mohamed Bouzid, Fakher Ayechi, Fatma Aouaini, Abdelmottaleb Ben LamineAbstract:This work is a contribution to understand the taste mechanism of caffeine molecule using a modeling of a putative adsorption process by model expressions established by a statistical physics treatment. A physicochemical and a gustative parts are the main constituents of this work. We start with a physicochemical investigation of the adsorption process of caffeine molecule, as adsorbate in liquid phase, onto β-cyclodextri...
Source: Progress in Biophysics and Molecular Biology - January 1, 2019 Category: Molecular Biology Source Type: research

Circadian leaf movements facilitate overtopping of neighbors
Publication date: Available online 28 December 2018Source: Progress in Biophysics and Molecular BiologyAuthor(s): Michael A. Woodley Of Menie, Piotr Pawlik, Matthew T. Webb, Kenneth D. Bruce, Paul F. DevlinAbstractMany plants exhibit circadian clock-driven leaf movements whereby the leaves are raised during the day to achieve a relatively high angle during the evening, before lowering late in the night. Such leaf movements were first recorded over 2000 years ago but there is still much debate as to their purpose. We investigated whether such leaf movements within Arabidopsis, a ruderal rosette plant, can aid in overtopping...
Source: Progress in Biophysics and Molecular Biology - December 29, 2018 Category: Molecular Biology Source Type: research

Editorial
Publication date: Available online 25 December 2018Source: Progress in Biophysics and Molecular BiologyAuthor(s): Noble Dennis (Source: Progress in Biophysics and Molecular Biology)
Source: Progress in Biophysics and Molecular Biology - December 25, 2018 Category: Molecular Biology Source Type: research

Engineering hiPSC cardiomyocyte in vitro model systems for functional and structural assessment
Publication date: Available online 20 December 2018Source: Progress in Biophysics and Molecular BiologyAuthor(s): Alison Schroer, Gaspard Pardon, Erica Castillo, Cheavar Blair, Beth PruittAbstractThe study of human cardiomyopathies and the development and testing of new therapies has long been limited by the availability of appropriate in vitro model systems. Cardiomyocytes are highly specialized cells whose internal structure and contractile function are sensitive to the local microenvironment and the combination of mechanical and biochemical cues they receive. The complementary technologies of human induced pluripotent ...
Source: Progress in Biophysics and Molecular Biology - December 20, 2018 Category: Molecular Biology Source Type: research

Decoding systems biology of plant stress for sustainable agriculture development and optimized food production
We present various areas of scientific and technological advances, such as increased availability of genomics data through whole genome sequencing that require attention. We also discuss emerging techniques including CRISPR-Cas9 based genome engineering systems to develop plant varieties that can handle combinatorial stress signals. Growing trend of converging multiple omics technologies and availability of accurate, multi-scale models of plant stress through the study of orthologs and synteny studies, would improve our knowledge of how plants perceive, respond, and manage stress to thrive as resilient crop species and thu...
Source: Progress in Biophysics and Molecular Biology - December 16, 2018 Category: Molecular Biology Source Type: research

The Golden Section and beauty in nature: The perfection of symmetry and the charm of asymmetry
Publication date: Available online 14 December 2018Source: Progress in Biophysics and Molecular BiologyAuthor(s): Ulrich Lüttge, G.M. SouzaAbstractIt is not unanimous among scientists if there is beauty in science. Some deny it. Mental clarity of conclusions when captured in simple looking equations is mathematical beauty. This we also find in the Euclidian geometry when performing the Golden Section and by deriving the Golden or Devine Number in golden rectangles, spirals and the Golden Angle. The Golden Section is considered as most beautiful and used in architecture and art. It is found everywhere in nature, e.g. in th...
Source: Progress in Biophysics and Molecular Biology - December 15, 2018 Category: Molecular Biology Source Type: research

Rooting of eucalypt cuttings as a problem-solving oriented model in plant biology
Publication date: Available online 14 December 2018Source: Progress in Biophysics and Molecular BiologyAuthor(s): Johnatan Vilasboa, Cibele Tesser da Costa, Arthur Germano Fett-NetoAbstractSpecies of Eucalyptus are some of the most planted trees in the world, providing fiber, cellulose, energy, and wood for construction and furniture in renewable fashion, with the added advantage of fixing large amounts of atmospheric carbon. The efficiency of eucalypts in forestry relies mostly on the clonal propagation of selected genotypes both as pure species and interspecific hybrids. The formation of new roots from cambium tissues at...
Source: Progress in Biophysics and Molecular Biology - December 15, 2018 Category: Molecular Biology Source Type: research

Agonistic and antagonistic roles of fibroblasts and cardiomyocytes on viscoelastic stiffening of engineered human myocardium
Publication date: Available online 12 December 2018Source: Progress in Biophysics and Molecular BiologyAuthor(s): Susanne F. Schlick, Florian Spreckelsen, Malte Tiburcy, Lavanya M. Iyer, Tim Meyer, Laura C. Zelarayan, Stefan Luther, Ulrich Parlitz, Wolfram-Hubertus Zimmermann, Florian RehfeldtAbstractCardiomyocyte and stroma cell cross-talk is essential for the formation of collagen-based engineered heart muscle, including engineered human myocardium (EHM). Fibroblasts are a main component of the myocardial stroma. We hypothesize that fibroblasts, by compacting the surrounding collagen network, support the self-organizatio...
Source: Progress in Biophysics and Molecular Biology - December 13, 2018 Category: Molecular Biology Source Type: research

Uncovering metastability and disassembly hotspots in whole viral particles
Publication date: Available online 13 December 2018Source: Progress in Biophysics and Molecular BiologyAuthor(s): Ranita Ramesh, Xin Xiang Lim, Palur Venkata Raghuvamsi, Wu Chao, Wong Sek Man, Ganesh Srinivasan AnandAbstractViruses are metastable macromolecular assemblies that toggle between multiple conformational states through molecular rearrangements that are critical for mediating viral host entry. Viruses respond to different host specific environmental cues to form disassembly intermediates for the eventual release of genomic material required for replication. Although static snapshots of these intermediates have be...
Source: Progress in Biophysics and Molecular Biology - December 13, 2018 Category: Molecular Biology Source Type: research

A structural and functional perspective on the enzymes of Mycobacterium tuberculosis involved in the L-rhamnose biosynthesis pathway
Publication date: Available online 11 December 2018Source: Progress in Biophysics and Molecular BiologyAuthor(s): Devendra K. Dhaked, M. Bala Divya, Lalitha GuruprasadAbstractTuberculosis is one of the leading causes of death from bacterial infections. The multi-drugresistant strain has warranted the development of new drug molecules which can inhibit the growth of Mycobacterium tuberculosis. Most of the known drugs inhibit the enzymes in the cell wall biosynthesis. One of such pathway is L-rhamnose, which involves four druggableenzymes RmlA, B, C and D. The 3D structure analyses of these protein models (RmlA, B and D) and...
Source: Progress in Biophysics and Molecular Biology - December 12, 2018 Category: Molecular Biology Source Type: research

Molecular binding response of naringin and naringenin to H46R mutant SOD1 protein in combating protein aggregation using density functional theory and discrete molecular dynamics
Publication date: Available online 10 December 2018Source: Progress in Biophysics and Molecular BiologyAuthor(s): E. Srinivasan, R. RajasekaranAbstractAmyotrophic lateral sclerosis (ALS) is a calamitous neurodegenerative disorder characterized by denervation of upper and lower motor neurons. Numerous hypotheses suggest that toxic protein misfolding and aggregation cause ALS, similar to that of other neurodegenerative diseases, such as Alzheimers and Parkinsons. Protruding causes of familial ALS are mutations in the gene encoding Cu/Zn superoxide dismutase-1 (SOD1), which decrease protein stability and endorse protein aggre...
Source: Progress in Biophysics and Molecular Biology - December 11, 2018 Category: Molecular Biology Source Type: research

Structural basis for renal cancer by the dynamics of pVHL-dependent JADE1 stabilization and β-catenin regulation
Publication date: Available online 7 December 2018Source: Progress in Biophysics and Molecular BiologyAuthor(s): Shagufta Shafique, Sajid RashidAbstractRenal cancer is the major cause of mortality due to abnormal functioning of von Hippel-Lindau (pVHL) and Jade Family PHD Finger 1 (JADE1) complex. E3 ubiquitin ligase JADE1 is stabilized by pVHL interaction through its plant homeodomains (PHDs). JADE1 acts as a renal tumor suppressor that promotes the ubiquitination and degradation of β-catenin by inhibiting canonical WNT signalling. Current study focuses on the structural characterization of reported missense mutations in...
Source: Progress in Biophysics and Molecular Biology - December 8, 2018 Category: Molecular Biology Source Type: research

Editorial Board
Publication date: December 2018Source: Progress in Biophysics and Molecular Biology, Volume 140Author(s): (Source: Progress in Biophysics and Molecular Biology)
Source: Progress in Biophysics and Molecular Biology - December 7, 2018 Category: Molecular Biology Source Type: research

Progress in biophysics and molecular biology: A brief history of the journal
Publication date: December 2018Source: Progress in Biophysics and Molecular Biology, Volume 140Author(s): Denis Noble, Tom L. Blundell, Peter Kohl (Source: Progress in Biophysics and Molecular Biology)
Source: Progress in Biophysics and Molecular Biology - December 7, 2018 Category: Molecular Biology Source Type: research