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https://www.readbyqxmd.com/read/28226656/scoring-sequences-of-hippocampal-activity-using-hidden-markov-models
#1
Etienne Ackermann, Caleb Kemere, Etienne Ackermann, Caleb Kemere, Etienne Ackermann, Caleb Kemere
We propose a novel sequence score to determine to what extent neural activity is consistent with trajectories through latent ensemble states - virtual place fields - in an associated environment. In particular, we show how hidden Markov models (HMMs) can be used to model and analyze sequences of neural activity, and how the resulting joint probability of an observation sequence and an underlying sequence of states naturally lead to the development of a two component sequence score in which the sequential and contextual information are decoupled...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28225266/enhanced-phosphorus-locking-by-novel-lanthanum-aluminum-hydroxide-composite-implication-for-eutrophication-control
#2
Rui Xu, Meiyi Zhang, Robert J G Mortimer, Gang Pan
Lanthanum (La) bearing materials have been widely used to remove phosphorus (P) in water treatment. However, it remains a challenge to enhance phosphate (PO4) adsorption capacity and La usage efficiency. In this study, La was co-precipitated with aluminum (Al) to obtain a La/Al-hydroxide composite (LAH) for P adsorption. The maximum PO4 adsorption capacities of LAH (5.3% La) were 76.3 and 45.3 mg P g-1 at pH 4.0 and 8.5, which were 8.5 and 5.3 times higher than those of commercially available La-modified bentonite (Phoslock®, 5...
February 22, 2017: Environmental Science & Technology
https://www.readbyqxmd.com/read/28223978/function-and-regulation-of-the-c4-dicarboxylate-transporters-in-campylobacter-jejuni
#3
Marc M S M Wösten, Chris H A van de Lest, Linda van Dijk, Jos P M van Putten
C4-dicarboxylates are important molecules for the human pathogen C.jejuni, as they are used as carbon and electron acceptor molecules, as sugars cannot be utilized by this microaerophilic organism. Based on the genome analysis, C. jejuni may possess five different C4-dicarboxylate transporters: DctA, DcuA, DcuB, and two homologs of DcuC. Here, we investigated the regulation and function of various C4-dicarboxylate transporters in C. jejuni. Transcription of the dctA and dcuC homologs is constitutive, while dcuA and dcuB are both directly regulated by the two-component RacR/RacS system in response to limited oxygen availability and the presence of nitrate...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28223383/requirement-of-the-crors-two-component-system-for-resistance-to-cell-wall-targeting-antimicrobials-in-enterococcus-faecium
#4
Stephanie L Kellogg, Jaime L Little, Jessica S Hoff, Christopher J Kristich
Enterococci are serious opportunistic pathogens that are resistant to many cell-wall-targeting antibiotics. The CroRS two-component signaling system responds to antibiotic-mediated cell-wall stress and is critical for resistance to cell-wall-targeting antibiotics in Enterococcus faecalis Here, we identify and characterize an orthologous two-component system found in Enterococcus faecium that is functionally equivalent to the CroRS system of E. faecalis Deletion of croRS in E. faecium resulted in marked susceptibility to cell-wall-targeting agents including cephalosporins and bacitracin, as well as moderate susceptibility to ampicillin and vancomycin...
February 21, 2017: Antimicrobial Agents and Chemotherapy
https://www.readbyqxmd.com/read/28221135/impaired-respiration-elicits-srrab-dependent-programmed-cell-lysis-and-biofilm-formation-in-staphylococcus-aureus
#5
Ameya A Mashruwala, Adriana Van De Guchte, Jeffrey M Boyd
Biofilms are communities of microorganisms attached to a surface or each other. Biofilm associated cells are the etiologic agents of recurrent Staphylococcus aureus infections. Infected human tissues are hypoxic or anoxic. S. aureus increases biofilm formation in response to hypoxia, but how this occurs is unknown. In the current study we report that oxygen influences biofilm formation in its capacity as a terminal electron acceptor for cellular respiration. Genetic, physiological, or chemical inhibition of respiratory processes elicited increased biofilm formation...
February 21, 2017: ELife
https://www.readbyqxmd.com/read/28221045/hierarchical-colloidal-polymeric-structure-from-surfactant-like-amphiphiles-in-selective-solvents
#6
Chenglin Wang, Shiying Ma, Yi Hu, Rong Wang
We investigated the self-assembly of surfactant-like amphiphile consisting of a hydrophilic head and a hydrophobic tail using dissipative particle dynamics method. By controlling the interaction parameter between the hydrophilic head and the solvent, the length of hydrophobic tail, the size of hydrophilic head, and the polymer concentration, we found seven self-assembled morphologies, including sphere-like micelle, pomegranate-like micelle, hierarchical colloidal polymeric structure, pomegranate-like columnar structure, branched hybrid structure, disk-like micelle, and vesicle...
February 21, 2017: Langmuir: the ACS Journal of Surfaces and Colloids
https://www.readbyqxmd.com/read/28220830/the-genetic-and-environmental-aetiology-of-spatial-mathematics-and-general-anxiety
#7
Margherita Malanchini, Kaili Rimfeld, Nicholas G Shakeshaft, Maja Rodic, Kerry Schofield, Saskia Selzam, Philip S Dale, Stephen A Petrill, Yulia Kovas
Individuals differ in their level of general anxiety as well as in their level of anxiety towards specific activities, such as mathematics and spatial tasks. Both specific anxieties correlate moderately with general anxiety, but the aetiology of their association remains unexplored. Moreover, the factor structure of spatial anxiety is to date unknown. The present study investigated the factor structure of spatial anxiety, its aetiology, and the origins of its association with general and mathematics anxiety in a sample of 1,464 19-21-year-old twin pairs from the UK representative Twins Early Development Study...
February 21, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28218803/error-monitoring-and-empathy-explorations-within-a-neurophysiological-context
#8
Azhani Amiruddin, Simone N Fueggle, An T Nguyen, Gilles E Gignac, Karen L Clunies-Ross, Allison M Fox
Past literature has proposed that empathy consists of two components: cognitive and affective empathy. Error monitoring mechanisms indexed by the error-related negativity (ERN) have been associated with empathy. Studies have found that a larger ERN is associated with higher levels of empathy. We aimed to expand upon previous work by investigating how error monitoring relates to the independent theoretical domains of cognitive and affective empathy. Study 1 (N = 24) explored the relationship between error monitoring mechanisms and subcomponents of empathy using the Questionnaire of Cognitive and Affective Empathy and found no relationship...
February 20, 2017: Psychophysiology
https://www.readbyqxmd.com/read/28217108/chemotaxis-without-conventional-two-component-system-based-on-cell-polarity-and-aerobic-conditions-in-helicity-switching-swimming-of-spiroplasma-eriocheiris
#9
Peng Liu, Huajun Zheng, Qingguo Meng, Natsuho Terahara, Wei Gu, Shengyue Wang, Guoping Zhao, Daisuke Nakane, Wen Wang, Makoto Miyata
Spiroplasma eriocheiris is a pathogen that causes mass mortality in Chinese mitten crab, Eriocheir sinensis. S. eriocheiris causes tremor disease and infects almost all of the artificial breeding crustaceans, resulting in disastrous effects on the aquaculture economy in China. S. eriocheiris is a wall-less helical bacterium, measuring 2.0 to 10.0 μm long, and can swim up to 5 μm per second in a viscous medium without flagella by switching the cell helicity at a kink traveling from the front to the tail. In this study, we showed that S...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28215549/caregiver-communication-to-the-child-as-moderator-and-mediator-of-genes-for-language
#10
Luca Onnis
Human language appears to be unique among natural communication systems, and such uniqueness impinges on both nature and nurture. Human babies are endowed with cognitive abilities that predispose them to learn language, and this process cannot operate in an impoverished environment. To be effectively complete the acquisition of human language in human children requires highly socialised forms of learning, scaffolded over years of prolonged and intense caretaker-child interactions. How genes and environment operate in shaping language is unknown...
February 16, 2017: Behavioural Brain Research
https://www.readbyqxmd.com/read/28215352/photoreceptors-in-the-dark-a-functional-white-collar-like-complex-and-other-putative-light-sensing-components-encoded-by-the-genome-of-the-subterranean-fungus-tuber-melanosporum
#11
Raffaele Gerace, Barbara Montanini, Marco Proietto, Elisabetta Levati, Cristina De Luca, Andrea Brenna, Patrizia Filetici, Annegret Kohler, Simone Ottonello, Paola Ballario
Light is perceived and transduced by fungi, where it modulates processes as diverse as growth and morphogenesis, sexual development and secondary metabolism. A special case in point is that of fungi with a subterranean, light-shielded habitat such as Tuber spp. Using as reference the genome sequence of the black truffle Tuber melanosporum, we used bioinformatic prediction tools and expression data to gain insight on the photoreceptor systems of this hypogeous ectomycorrhizal fungus. These include a chromophore-less opsin, a putative red-light-sensing phytochrome not expressed at detectable levels in any of the examined lifecycle stages, and a nearly canonical two-component (WC-1/WC-2) photoreceptor system similar to the Neurospora white collar complex (WCC)...
March 2017: Fungal Biology
https://www.readbyqxmd.com/read/28208461/effects-of-geometrical-and-energetic-nonadditivity-on-the-phase-behavior-of-two-component-symmetric-mixtures
#12
A Patrykiejew
Using Monte Carlo simulation methods in the grand-canonical ensemble, we have studied the phase behavior of three-dimensional symmetric binary mixtures of Lennard-Jones particles. We have also elucidated the effects of geometric and energetic nonadditivity on the phase behavior. Phase diagrams for several systems have been evaluated. We have demonstrated that in completely miscible mixtures the geometrical nonadditivity (negative as well as positive) stabilizes a liquid phase leading to a gradual increase of the critical temperature...
January 2017: Physical Review. E
https://www.readbyqxmd.com/read/28207822/identification-classification-and-transcription-profiles-of-the-b-type-response-regulator-family-in-pear
#13
Junbei Ni, Songling Bai, Ling Gao, Minjie Qian, Linbing Zhong, Yuanwen Teng
Type-B response regulators (B-RRs) are transcription factors that function in the final step of two-component signaling systems. In model plants, B-RRs have been shown to play important roles in cytokinin signal transduction. However, the functions of B-RRs in pear have not been well studied. In this report, we conducted a genome-wide analysis and identified 11 putative genes encoding B-PpRR proteins based on the published genome sequence of Pyrus bretschneideri. A phylogenetic tree of the B-PpRR family was constructed, and the motif distribution, chromosome localization, and gene structure of B-PpRR family genes were determined...
2017: PloS One
https://www.readbyqxmd.com/read/28207269/a-biocompatible-injectable-hydrogel-with-potent-wound-healing-and-antibacterial-properties
#14
Jiaul Hoque, Relekar G Prakash, Krishnamoorthy Paramanandham, Bibek R Shome, Jayanta Haldar
Two component injectable hydrogels that cross-link in-situ have been used as non-invasive wound-filling devices, i.e., sealants. These materials carry a variety of functions at the wound sites such as seal leaks, cease unwanted bleeding, bind tissues together, and assist in wound healing process. However, commonly used sealants typically lack antibacterial properties. Since bacterial infection at the wound site is very common, bioadhesive materials with intrinsic antibacterial properties are urgently required...
February 16, 2017: Molecular Pharmaceutics
https://www.readbyqxmd.com/read/28205647/microcin-pdi-regulation-and-proteolytic-cleavage-are-unique-among-known-microcins
#15
Zhe Zhao, Lisa H Orfe, Jinxin Liu, Shao-Yeh Lu, Thomas E Besser, Douglas R Call
Microcin PDI inhibits a diversity of pathogenic Escherichia coli through the action of an effector protein, McpM. In this study we demonstrated that expression of the inhibitory phenotype is induced under low osmolarity conditions and expression is primarily controlled by the EnvZ/OmpR two-component regulatory system. Functional, mutagenesis and complementation experiments were used to empirically demonstrate that EnvZ is required for the inhibitory phenotype and that regulation of mcpM is dependent on binding of the phosphorylated OmpR to the mcpM promoter region...
February 16, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28203276/a-biorefinery-scheme-to-fractionate-bamboo-into-high-grade-dissolving-pulp-and-ethanol
#16
Zhaoyang Yuan, Yangbing Wen, Nuwan Sella Kapu, Rodger Beatson, D Mark Martinez
BACKGROUND: Bamboo is a highly abundant source of biomass which is underutilized despite having a chemical composition and fiber structure similar as wood. The main challenge for the industrial processing of bamboo is the high level of silica, which forms water-insoluble precipitates negetively affecting the process systems. A cost-competitive and eco-friendly scheme for the production of high-purity dissolving grade pulp from bamboo not only requires a process for silica removal, but also needs to fully utilize all of the materials dissolved in the process which includes lignin, and cellulosic and hemicellulosic sugars as well as the silica...
2017: Biotechnology for Biofuels
https://www.readbyqxmd.com/read/28199340/crystal-structure-and-structure-based-mutagenesis-of-actin-specific-adp-ribosylating-toxin-cpile-a-as-novel-enterotoxin
#17
Waraphan Toniti, Toru Yoshida, Toshiharu Tsurumura, Daisuke Irikura, Chie Monma, Yoichi Kamata, Hideaki Tsuge
Unusual outbreaks of food poisoning in Japan were reported in which Clostridium perfringens was strongly suspected to be the cause based on epidemiological information and fingerprinting of isolates. The isolated strains lack the typical C. perfringens enterotoxin (CPE) but secrete a new enterotoxin consisting of two components: C. perfringens iota-like enterotoxin-a (CPILE-a), which acts as an enzymatic ADP-ribosyltransferase, and CPILE-b, a membrane binding component. Here we present the crystal structures of apo-CPILE-a, NAD+-CPILE-a and NADH-CPILE-a...
2017: PloS One
https://www.readbyqxmd.com/read/28197891/simple-generalisation-of-a-mesophyll-resistance-model-for-various-intracellular-arrangements-of-chloroplasts-and-mitochondria-in-c3-leaves
#18
Xinyou Yin, Paul C Struik
The classical definition of mesophyll conductance (g m) represents an apparent parameter (g m,app) as it places (photo)respired CO2 at the same compartment where the carboxylation by Rubisco takes place. Recently, Tholen and co-workers developed a framework, in which g m better describes a physical diffusional parameter (g m,dif). They partitioned mesophyll resistance (r m,dif = 1/g m,dif) into two components, cell wall and plasmalemma resistance (r wp) and chloroplast resistance (r ch), and showed that g m,app is sensitive to the ratio of photorespiratory (F) and respiratory (R d) CO2 release to net CO2 uptake (A): g m,app = g m,dif/[1 + ω(F + R d)/A], where ω is the fraction of r ch in r m,dif...
February 14, 2017: Photosynthesis Research
https://www.readbyqxmd.com/read/28193669/overexpression-of-smedef-efflux-pump-decreases-aminoglycoside-resistance-in-stenotrophomonas-maltophilia
#19
Yi-Wei Huang, Cheng-Wen Lin, Hsiao-Chen Ning, Yi-Tsung Lin, Yi-Chih Chang, Tsuey-Ching Yang
The SmeDEF pump of Stenotrophomonas maltophilia is negatively regulated by SmeT. Strains KJΔT (smeT deletion mutant) and KJT-D(m) (mutant with defective SmeT-binding site) showed increased resistance to chloramphenicol/nalidixic acid/macrolides and susceptibility to aminoglycoside. Overexpression of the SmeDEF pump, in either KJΔT or KJT-D(m), downregulated smeYZ expression, which is responsible for the reduced aminoglycoside resistance. Furthermore, the SmeRySy two-component regulatory system was downregulated in response to SmeDFE overexpression, supporting its involvement in the regulatory circuit...
February 13, 2017: Antimicrobial Agents and Chemotherapy
https://www.readbyqxmd.com/read/28193201/an-artificial-neural-networks-approach-for-assessment-treatment-response-in-oncological-patients-using-pet-ct-images
#20
Mariana A Nogueira, Pedro H Abreu, Pedro Martins, Penousal Machado, Hugo Duarte, João Santos
BACKGROUND: Positron Emission Tomography - Computed Tomography (PET/CT) imaging is the basis for the evaluation of response-to-treatment of several oncological diseases. In practice, such evaluation is manually performed by specialists, which is rather complex and time-consuming. Evaluation measures have been proposed, but with questionable reliability. The usage of before and after-treatment image descriptors of the lesions for treatment response evaluation is still a territory to be explored...
February 13, 2017: BMC Medical Imaging
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