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https://www.readbyqxmd.com/read/28813074/oral-narrative-of-individuals-with-fetal-alcohol-spectrum-disorder
#1
Giulia Ganthous, Natalia Freitas Rossi, Célia Maria Giacheti
Purpose: To investigate and compare the oral narrative of individuals with FASD and individuals with typical language development (TLD), as well as to correlate the narrative performance with the score from 4-Digit Diagnostic Code. Methods: Participants were 20 individuals with FASD, of both genders, with chronological age between 6 and 16 years, and 20 individuals with TLD, same gender and similar to the FASD group in age and socioeconomic status. The oral narrative was elicited using the book Frog, where are you? and the data were analyzed in terms of macrostructure, microstructure and global coherence level...
August 10, 2017: CoDAS
https://www.readbyqxmd.com/read/28813042/the-carotenoid-pathway-what-is-important-for-excitation-quenching-in-plant-antenna-complexes
#2
Kieran F Fox, Vytautas Balevičius, Jevgenij Chmeliov, Leonas Valkunas, Alexander V Ruban, Christopher D P Duffy
Plant light-harvesting is regulated by the Non-Photochemical Quenching (NPQ) mechanism involving the reversible formation of excitation quenching sites in the Photosystem II (PSII) antenna in response to high light. While the major antenna complex, LHCII, is known to be a site of NPQ, the precise mechanism of excitation quenching is not clearly understood. A preliminary model of the quenched crystal structure of LHCII implied that quenching arises from slow energy capture by Car pigments. It predicted a thoroughly quenched system but offered little insight into the defining aspects of this quenching...
August 16, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28812992/endolysosomal-degradation-of-allergenic-ole-e-1-like-proteins-analysis-of-proteolytic-cleavage-sites-revealing-t-cell-epitope-containing-peptides
#3
Sabrina Wildner, Brigitta Elsässer, Teresa Stemeseder, Peter Briza, Wai Tuck Soh, Mayte Villalba, Jonas Lidholm, Hans Brandstetter, Gabriele Gadermaier
Knowledge of the susceptibility of proteins to endolysosomal proteases provides valuable information on immunogenicity. Though Ole e 1-like proteins are considered relevant allergens, little is known about their immunogenic properties and T cell epitopes. Thus, six representative molecules, i.e., Ole e 1, Fra e 1, Sal k 5, Che a 1, Phl p 11 and Pla l 1, were investigated. Endolysosomal degradation and peptide generation were simulated using microsomal fractions of JAWS II dendritic cells. Kinetics and peptide patterns were evaluated by gel electrophoresis and mass spectrometry...
August 16, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/28812905/correlation-of-the-solubility-with-the-metastable-limit-of-nucleation-using-gauge-cell-monte-carlo-simulations
#4
Michael David Clark, Kenneth R Morris, Maria Silvina Tomassone
We present a novel simulation-based investigation of the nucleation of nanodroplets from solution and from vapor. Nucleation is difficult to measure or model accurately, and predicting when nucleation should occur remains an open problem. Of specific interest is the "metastable limit", the observed concentration at which nucleation occurs spontaneously, which cannot currently be estimated a priori. To investigate the nucleation process, we employ Gauge Cell Monte Carlo simulations to target spontaneous nucleation and measure thermodynamic properties of the system at nucleation...
August 16, 2017: Langmuir: the ACS Journal of Surfaces and Colloids
https://www.readbyqxmd.com/read/28812895/correlating-free-volume-hole-distribution-to-the-glass-transition-temperature-of-epoxy-polymers
#5
Amin Aramoon, Timothy D Breitzman, Christopher F Woodward, Jaafar A El-Awady
A new algorithm is developed to quantify the free-volume hole distribution and its evolution in coarse-grained molecular dynamics simulations of polymeric networks. This is achieved by analyzing the geometry of the network rather than a voxelized image of the structure to accurately and efficiently find and quantify free-volume hole distributions within large scale simulations of polymer networks. The free-volume holes are quantified by fitting the largest ellipsoids and spheres in the free-volumes between polymer chains...
August 16, 2017: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/28812881/predicting-microbial-fuel-cell-biofilm-communities-and-bioreactor-performance-using-artificial-neural-networks
#6
Keaton Larson Lesnik, Hong Liu
The complex interactions that occur in mixed-species bioelectrochemical reactors, like microbial fuel cells (MFCs), make accurate predictions of performance outcomes under untested conditions difficult. While direct correlations between any individual waste stream characteristic or microbial community structure and reactor performance have not been able to be directly established, the increase in sequencing data and readily available computational power enables the development of alternate approaches. In the current study, 33 MFCs were evaluated under a range of conditions including 8 separate substrates and 3 different wastewaters...
August 16, 2017: Environmental Science & Technology
https://www.readbyqxmd.com/read/28812880/an-exceptionally-narrow-band-gap-%C3%A2-4-ev-silicate-predicted-in-the-cubic-perovskite-structure-basio3
#7
Hidenori Hiramatsu, Hitoshi Yusa, Ryo Igarashi, Yasuo Ohishi, Toshio Kamiya, Hideo Hosono
The electronic structures of 35 A(2+)B(4+)O3 ternary cubic perovskite oxides, including their hypothetical chemical compositions, were calculated by a hybrid functional method with the expectation that peculiar electronic structures and unique carrier transport properties suitable for semiconductor applications would be hidden in high-symmetry cubic perovskite oxides. We found unique electronic structures of Si-based oxides (A = Mg, Ca, Sr, and Ba, and B = Si). In particular, the unreported cubic BaSiO3 has a very narrow band gap (4...
August 16, 2017: Inorganic Chemistry
https://www.readbyqxmd.com/read/28812872/effect-of-mineral-dissolution-precipitation-and-co2-exsolution-on-co2-transport-in-geological-carbon-storage
#8
Ruina Xu, Rong Li, Jin Ma, Di He, Peixue Jiang
Geological carbon sequestration (GCS) in deep saline aquifers is an effective means for storing carbon dioxide to address global climate change. As the time after injection increases, the safety of storage increases as the CO2 transforms from a separate phase to CO2(aq) and HCO3(-) by dissolution and then to carbonates by mineral dissolution. However, subsequent depressurization could lead to dissolved CO2(aq) escaping from the formation water and creating a new separate phase which may reduce the GCS system safety...
August 16, 2017: Accounts of Chemical Research
https://www.readbyqxmd.com/read/28812691/a-macroecological-theory-of-microbial-biodiversity
#9
William R Shoemaker, Kenneth J Locey, Jay T Lennon
Microorganisms are the most abundant, diverse and functionally important organisms on Earth. Over the past decade, microbial ecologists have produced the largest ever community datasets. However, these data are rarely used to uncover law-like patterns of commonness and rarity, test theories of biodiversity, or explore unifying explanations for the structure of microbial communities. Using a global scale compilation of >20,000 samples from environmental, engineered and host-related ecosystems, we test the power of competing theories to predict distributions of microbial abundance and diversity-abundance scaling laws...
April 3, 2017: Nature ecology & evolution
https://www.readbyqxmd.com/read/28812687/community-structure-follows-simple-assembly-rules-in-microbial-microcosms
#10
Jonathan Friedman, Logan M Higgins, Jeff Gore
Microorganisms typically form diverse communities of interacting species, whose activities have tremendous impact on the plants, animals and humans they associate with. The ability to predict the structure of these complex communities is crucial to understanding and managing them. Here, we propose a simple, qualitative assembly rule that predicts community structure from the outcomes of competitions between small sets of species, and experimentally assess its predictive power using synthetic microbial communities composed of up to eight soil bacterial species...
March 27, 2017: Nature ecology & evolution
https://www.readbyqxmd.com/read/28812673/craniofacial-diversification-in-the-domestic-pigeon-and-the-evolution-of-the-avian-skull
#11
Nathan M Young, Marta Linde-Medina, John W Fondon, Benedikt Hallgrímsson, Ralph S Marcucio
A central question in evolutionary developmental biology is how highly conserved developmental systems can generate the remarkable phenotypic diversity observed among distantly related species. In part, this paradox reflects our limited knowledge about the potential for species to both respond to selection and generate novel variation. Consequently, the developmental links between small-scale microevolutionary variations within populations to larger macroevolutionary patterns among species remain unbridged...
March 13, 2017: Nature ecology & evolution
https://www.readbyqxmd.com/read/28812672/rapid-and-direct-recoveries-of-predators-and-prey-through-synchronized-ecosystem-management
#12
Jameal F Samhouri, Adrian C Stier, Shannon M Hennessey, Mark Novak, Benjamin S Halpern, Phillip S Levin
One of the twenty-first century's greatest environmental challenges is to recover and restore species, habitats and ecosystems. The decision about how to initiate restoration is best-informed by an understanding of the linkages between ecosystem components and, given these linkages, an appreciation of the consequences of choosing to recover one ecosystem component before another. However, it remains difficult to predict how the sequence of species' recoveries within food webs influences the speed and trajectory of restoration, and what that means for human well-being...
March 1, 2017: Nature ecology & evolution
https://www.readbyqxmd.com/read/28812535/associating-mutations-causing-cystinuria-with-disease-severity-with-the-aim-of-providing-precision-medicine
#13
Henry J Martell, Kathie A Wong, Juan F Martin, Ziyan Kassam, Kay Thomas, Mark N Wass
BACKGROUND: Cystinuria is an inherited disease that results in the formation of cystine stones in the kidney, which can have serious health complications. Two genes (SLC7A9 and SLC3A1) that form an amino acid transporter are known to be responsible for the disease. Variants that cause the disease disrupt amino acid transport across the cell membrane, leading to the build-up of relatively insoluble cystine, resulting in formation of stones. Assessing the effects of each mutation is critical in order to provide tailored treatment options for patients...
August 11, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28812395/current-research-on-circular-rnas-associated-with-colorectal-cancer
#14
Penghui Wang, Xiaodong He
Representing a novel type of endogenous noncoding RNAs, circular RNAs (circRNAs) have recently gained much attention for their involvement in multiple biological processes. CircRNAs are ubiquitously expressed in eukaryotic cells and modulate gene expression by acting as sponges of microRNAs (miRNAs) or other proteins, such as RNA-binding proteins (RBPs). Due to their unique structure, circRNAs are more stable than linear RNAs. Expression profiles of circRNAs are associated with clinicopathological characteristics of colorectal cancer patients, such as differentiation, TNM classification and distant metastasis...
August 16, 2017: Scandinavian Journal of Gastroenterology
https://www.readbyqxmd.com/read/28812079/computational-evaluation-of-aluminophosphate-zeotypes-for-co2-n2-separation
#15
Michael Fischer
Zeolites and structurally related materials (zeotypes) have received considerable attention as potential adsorbents for selective carbon dioxide adsorption. Within this group, zeotypes with aluminophosphate composition (AlPOs) could be an interesting alternative to the more frequently studied aluminosilicate zeolites. So far, however, only a few AlPOs have been characterised experimentally in terms of their CO2 adsorption properties. In this study, force-field based grand-canonical Monte Carlo (GCMC) simulations were used to evaluate the potential of AlPOs for CO2/N2 separation, a binary mixture that constitutes a suitable model system for the removal of carbon dioxide from flue gases...
August 16, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28811833/nsitematch-prediction-of-binding-sites-of-nucleotides-by-identifying-the-structure-similarity-of-local-surface-patches
#16
Jie Sun, Ke Chen
Nucleotides play a central role in life-form metabolism, by interacting with proteins and mediating the function of proteins. It is estimated that nucleotides constitute about 15% of the biologically relevant ligands included in PDB. Prediction of binding sites of nucleotides is useful in understanding the function of proteins and can facilitate the in silico design of drugs. In this study, we propose a nucleotide-binding site predictor, namely, NSiteMatch. The NSiteMatch algorithm integrates three different strategies: geometrical analysis, energy calculation, and template comparison...
2017: Computational and Mathematical Methods in Medicine
https://www.readbyqxmd.com/read/28811753/characterization-of-the-rosellinia-necatrix-transcriptome-and-genes-related-to-pathogenesis-by-single-molecule-mrna-sequencing
#17
Hyeongmin Kim, Seung Jae Lee, Ick-Hyun Jo, Jinsu Lee, Wonsil Bae, Hyemin Kim, Kyungho Won, Tae Kyung Hyun, Hojin Ryu
White root rot disease, caused by the pathogen Rosellinia necatrix, is one of the world's most devastating plant fungal diseases and affects several commercially important species of fruit trees and crops. Recent global outbreaks of R. necatrix and advances in molecular techniques have both increased interest in this pathogen. However, the lack of information regarding the genomic structure and transcriptome of R. necatrix has been a barrier to the progress of functional genomic research and the control of this harmful pathogen...
August 2017: Plant Pathology Journal
https://www.readbyqxmd.com/read/28811478/reduced-and-unstratified-crust-in-cv-chondrite-parent-body
#18
Clément Ganino, Guy Libourel
Early Solar System planetesimal thermal models predict the heating of the chondritic protolith and the preservation of a chondritic crust on differentiated parent bodies. Petrological and geochemical analyses of chondrites have suggested that secondary alteration phases formed at low temperatures (<300 °C) by fluid-rock interaction where reduced and oxidized Vigarano type Carbonaceous (CV) chondrites witness different physicochemical conditions. From a thermodynamical survey of Ca-Fe-rich secondary phases in CV3 chondrites including silica activity (aSiO2), here we show that the classical distinction between reduced and oxidized chondrites is no longer valid and that their Ca-Fe-rich secondary phases formed in similar reduced conditions near the iron-magnetite redox buffer at low aSiO2 (log(aSiO2) <-1) and moderate temperature (210-610 °C)...
August 15, 2017: Nature Communications
https://www.readbyqxmd.com/read/28811207/anion-%C3%AF-interactions-in-active-centers-of-superoxide-dismutases
#19
Vesna R Ribić, Srđan Đ Stojanović, Mario V Zlatović
We investigated 1060 possible anion-π interactions in a data set of 41 superoxide dismutase active centers. Our observations indicate that majority of the aromatic residues are capable to form anion-π interactions, mainly by long-range contacts, and that there is preference of Trp over other aromatic residues in these interactions. Furthermore, 68% of total predicted interactions in the dataset are multiple anion-π interactions. Anion-π interactions are distance and orientation dependent. We analyzed the energy contribution resulting from anion-π interactions using ab initio calculations...
August 12, 2017: International Journal of Biological Macromolecules
https://www.readbyqxmd.com/read/28811153/the-design-of-target-specific-antibodies-scfv-by-applying-de-novo-workflow-case-study-on-bmr1-antigen-from-brugia-malayi
#20
Bee Yin Khor, Theam Soon Lim, Rahmah Noordin, Yee Siew Choong
De novo approach was applied to design single chain fragment variable (scFv) for BmR1, a recombinant antigen from Bm17DIII gene which is the primary antigen used for the detection of anti-BmR1 IgG4 antibodies in the diagnostic of lymphatic filariasis. Three epitopes of the BmR1 was previously predicted form an ab initio derived three-dimensional structure. A collection of energetically favourable conformations was generated via hot-spot-centric approach. This resulted in a set of three different scFv scaffolds used to compute the high shape complementary conformations via dock-and-design approach with the predicted epitopes of BmR1...
July 19, 2017: Journal of Molecular Graphics & Modelling
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