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https://www.readbyqxmd.com/read/28449226/an-integrated-network-analysis-identifies-how-arcab-enables-metabolic-oscillations-in-the-nitric-oxide-detoxification-network-of-escherichia-coli
#1
Sarah A Sacco, Kristin J Adolfsen, Mark P Brynildsen
The virulences of many pathogens depend on their abilities to detoxify the immune antimicrobial nitric oxide (NO•). The functions of bacterial NO• detoxification machinery depend on oxygen (O2 ), with O2 inhibiting some enzymes, whereas others use it as a substrate. Previously, Escherichia coli NO• detoxification was found to be highly attenuated under microaerobic conditions and metabolic oscillations were observed. The oscillations in [NO•] and [O2 ] were found to result from the inhibitory action of NO• on aerobic respiration, the catalytic inactivation of NO• by Hmp (an NO• dioxygenase), and an imbalanced competition for O2 between Hmp and cytochrome terminal oxidase activity...
April 27, 2017: Biotechnology Journal
https://www.readbyqxmd.com/read/28447594/diffuse-single-crystal-scattering-corrected-for-molecular-form-factor-effects
#2
Ella Schmidt, Reinhard B Neder
This paper shows that chemical short-range order in two-component molecular crystals can be solved directly by separating the influence of the molecular form factor from the diffraction pattern. This novel technique is demonstrated by analysing the diffuse scattering of tris-tert-butyl-1,3,5-benzene tricarboxamide.
May 1, 2017: Acta Crystallographica. Section A, Foundations and Advances
https://www.readbyqxmd.com/read/28447592/the-phantom-derivative-method-when-a-structure-model-is-available-about-its-theoretical-basis
#3
Maria Cristina Burla, Giovanni Luca Cascarano, Carmelo Giacovazzo, Giampiero Polidori
This study clarifies why, in the phantom derivative (PhD) approach, randomly created structures can help in refining phases obtained by other methods. For this purpose the joint probability distribution of target, model, ancil and phantom derivative structure factors and its conditional distributions have been studied. Since PhD may use n phantom derivatives, with n ≥ 1, a more general distribution taking into account all the ancil and derivative structure factors has been considered, from which the conditional distribution of the target phase has been derived...
May 1, 2017: Acta Crystallographica. Section A, Foundations and Advances
https://www.readbyqxmd.com/read/28446995/marginalized-mixture-models-for-count-data-from-multiple-source-populations
#4
Habtamu K Benecha, Brian Neelon, Kimon Divaris, John S Preisser
Mixture distributions provide flexibility in modeling data collected from populations having unexplained heterogeneity. While interpretations of regression parameters from traditional finite mixture models are specific to unobserved subpopulations or latent classes, investigators are often interested in making inferences about the marginal mean of a count variable in the overall population. Recently, marginal mean regression modeling procedures for zero-inflated count outcomes have been introduced within the framework of maximum likelihood estimation of zero-inflated Poisson and negative binomial regression models...
2017: Journal of Statistical Distributions and Applications
https://www.readbyqxmd.com/read/28446907/regulation-and-molecular-basis-of-environmental-muropeptide-uptake-and-utilization-in-fastidious-oral-anaerobe-tannerella-forsythia
#5
Angela Ruscitto, Kiyonobu Honma, Vamsee M Veeramachineni, Kiyoshi Nishikawa, Graham P Stafford, Ashu Sharma
Tannerella forsythia is a Gram-negative oral anaerobe associated with periodontitis. This bacterium is auxotrophic for the peptidoglycan amino sugar N-acetylmuramic (MurNAc) and likely relies on scavenging peptidoglycan fragments (muropeptides) released by cohabiting bacteria during their cell wall recycling. Many Gram-negative bacteria utilize an inner membrane permease, AmpG, to transport peptidoglycan fragments into their cytoplasm. In the T. forsythia genome, the Tanf_08365 ORF has been identified as a homolog of AmpG permease...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28445030/synthesis-of-aminofuran-linked-benzimidazoles-and-cyanopyrrole-fused-benzimidazoles-by-condition-based-skeletal-divergence
#6
Wei-Shun Hsu, Min-Huan Tsai, Indrajeet J Barve, Gorakh S Yellol, Chung-Ming Sun
A condition-based skeletal divergent synthesis was explored to achieve skeletal diversity in two component condensation reaction. Cyanomethyl benzimidazole was reacted with α-bromoketone under thermal conditions to furnish 2-aminofuranyl-benzimidazoles while the same reaction afforded 3-cyano-benzopyrrolo-imidazoles under microwave irradiation. Two non-equivalent nucleophilic centers on benzimidazole moiety were manipulated elegantly by different reaction conditions to achieve the skeletal diversity.
April 26, 2017: ACS Combinatorial Science
https://www.readbyqxmd.com/read/28444786/targeted-photodynamic-therapy-with-a-folate-sensitizer-assembly-produced-from-mesoporous-silica
#7
Salvatore Sortino, Chunfang Zhou, Damien Afonso, Sabrina Valetti, Adam Feiler, Venera Cardile, Adriana Graziano, Sabrina Conoci
A mesoporous silica material prepared by using folic acid (FA) as a template enables the effective encapsulation of meso-tetrakis(4-carboxyphenyl)porphyrin (TCPP) in its interior. Combination of steady-state and time-resolved absorption and emission spectroscopy demonstrate that FA and TCPP are released from the silica material to aqueous phase in the form of a non-covalent assembly. This assembly does not form by simple mixing of the two components in the absence of silica, suggesting the key role of the material in the assembling process...
April 26, 2017: Chemistry: a European Journal
https://www.readbyqxmd.com/read/28443664/theory-and-electrochemistry-of-cytochrome-c
#8
Salman S Seyedi, Morteza M M Waskasi, Dmitry V Matyushov
Extensive simulations of cytochrome c in solution are performed to address the apparent contradiction between large reorganization energies of protein electron transfer typically reported by atomistic simulations and much smaller values produced by protein electrochemistry. The two sets of data are reconciled by deriving the activation barrier for electrochemical reaction in terms of an effective reorganization energy composed of half the Stokes shift (characterizing the medium polarization in response to electron transfer) and the variance reorganization energy (characterizing the breadth of electrostatic fluctuations)...
April 26, 2017: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/28443076/rstb-regulates-expression-of-the-photobacterium-damselae-subsp-damselae-major-virulence-factors-damselysin-phobalysin-p-and-phobalysin-c
#9
Mateus S Terceti, Amable J Rivas, Laura Alvarez, Manuel Noia, Felipe Cava, Carlos R Osorio
The marine pathogenic bacterium Photobacterium damselae subsp. damselae causes septicemia in marine animals and in humans. The pPHDD1 plasmid-encoded hemolysins damselysin (Dly) and phobalysin P (PhlyP), and the chromosome-encoded hemolysin phobalysin C (PhlyC) constitute its main virulence factors. However, the mechanisms by which expression of these three hemolysins is regulated remain unknown. Here we report the isolation of a mini-Tn10 transposon mutant which showed a strong impairment in its hemolytic activity...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28441962/acceptability-of-a-mobile-health-intervention-to-enhance-hiv-care-coordination-for-patients-with-substance-use-disorders
#10
Ryan P Westergaard, Andrew Genz, Kristen Panico, Pamela J Surkan, Jeanne Keruly, Heidi E Hutton, Larry W Chang, Gregory D Kirk
BACKGROUND: Persons living with HIV and substance use disorders face barriers to sustained engagement in medical care, leading to suboptimal antiretroviral treatment outcomes. Innovative mobile technology tools such as customizable smartphone applications have the potential to enhance existing care coordination programs, but have not been rigorously studied. METHODS: We developed and implemented a two-component intervention consisting of peer health navigation supported by a smartphone application conducting ecologic momentary assessment (EMA) of barriers to care and medication adherence...
April 26, 2017: Addiction Science & Clinical Practice
https://www.readbyqxmd.com/read/28441472/repurposing-a-two-component-system-based-biosensor-for-the-killing-of-vibrio-cholerae
#11
Premkumar Jayaraman, Maciej Bartosz Holowko, Jing Wui Yeoh, Sierin Lim, Chueh Loo Poh
New strategies to control cholera are urgently needed. This study develops an in vitro proof-of-concept sense-and-eradicate system in a wild-type Escherichia coli strain to target the causative pathogen Vibrio cholerae using a synthetic biology approach. Our engineered E. coli specifically detects V. cholerae via its quorum-sensing molecule CAI-1 and responds by expressing the lysis protein (YebF-Art-085), thereby self-lysing to release the killing protein (Art-085) to eradicate V. cholerae. For this report, we individually characterized the YebF-Art-085 and Art-085 expression and their activities when coupled to our previously developed V...
April 25, 2017: ACS Synthetic Biology
https://www.readbyqxmd.com/read/28441105/transcriptomic-dissection-of-the-horizontally-acquired-response-regulator-esrb-reveals-its-global-regulatory-roles-in-the-physiological-adaptation-and-activation-of-t3ss-and-the-cognate-effector-repertoire-in-edwardsiella-piscicida-during-infection-towards
#12
Yang Liu, Luyao Zhao, Minjun Yang, Kaiyu Yin, Xiaohui Zhou, Ka Yin Leung, Qin Liu, Yuanxing Zhang, Qiyao Wang
Edwardsiella piscicida is the leading pathogen threatening worldwide aquaculture industries. The two-component system (TCS) EsrA-EsrB is essential for the pathogenesis of this bacterium. However, little is known about the regulon and regulatory mechanism of EsrA-EsrB or about the factors that mediate the interaction of TCS with bacterial hosts. Here, our RNA-seq analysis indicated that EsrB strongly induces type III and type VI secretion systems (T3/T6SS) expression and that it modulates the expression of both physiology- and virulence-associated genes in E...
April 25, 2017: Virulence
https://www.readbyqxmd.com/read/28439145/revisiting-the-choice-of-the-driving-temperature-for-eddy-covariance-co2-flux-partitioning
#13
Georg Wohlfahrt, Marta Galvagno
So-called CO2 flux partitioning algorithms are widely used to partition the net ecosystem CO2 exchange into the two component fluxes, gross primary productivity and ecosystem respiration. Common CO2 flux partitioning algorithms conceptualize ecosystem respiration to originate from a single source, requiring the choice of a corresponding driving temperature. Using a conceptual dual-source respiration model, consisting of an above- and a below-ground respiration source each driven by a corresponding temperature, we demonstrate that the typical phase shift between air and soil temperature gives rise to a hysteresis relationship between ecosystem respiration and temperature...
May 1, 2017: Agricultural and Forest Meteorology
https://www.readbyqxmd.com/read/28439037/regulation-of-a-glycerol-induced-quinoprotein-alcohol-dehydrogenase-by-%C3%AF-54-and-a-luxr-type-regulator-in-azospirillum-brasilense-sp7
#14
Vijay Shankar Singh, Ashutosh Prakash Dubey, Ankush Gupta, Sudhir Singh, Bhupendra Narain Singh, Anil Kumar Tripathi
Azospirillum brasilense Sp7 uses glycerol as carbon source for growth and nitrogen fixation. When grown in medium containing glycerol as carbon source it upregulates the expression of a protein which was identified as quinoprotein alcohol dehydrogenase (ExaA). Inactivation of exaA adversely affects the growth of A. brasilense on glycerol. Determination of the transcription start site of exaA revealed an RpoN dependent -12/-24 promoter consensus. The expression of an exaA:lacZ fusion was induced maximally by glycerol, and was dependent on σ(54) Bioinformatic analysis of the sequence flanking the -12/-24 promoter revealed a 17 bp sequence motif with a dyad symmetry of 6 nucleotides upstream of the promoter, disruption of which caused a drastic reduction in promoter activity...
April 24, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28438832/a-photoconversion-model-for-full-spectral-programming-and-multiplexing-of-optogenetic%C3%A2-systems
#15
Evan J Olson, Constantine N Tzouanas, Jeffrey J Tabor
Optogenetics combines externally applied light signals and genetically engineered photoreceptors to control cellular processes with unmatched precision. Here, we develop a mathematical model of wavelength- and intensity-dependent photoconversion, signaling, and output gene expression for our two previously engineered light-sensing Escherichia coli two-component systems. To parameterize the model, we develop a simple set of spectral and dynamical calibration experiments using our recent open-source "Light Plate Apparatus" device...
April 24, 2017: Molecular Systems Biology
https://www.readbyqxmd.com/read/28438266/physiological-role-of-two-component-signal-transduction-systems-in-food-associated-lactic-acid-bacteria
#16
Vicente Monedero, Ainhoa Revilla-Guarinos, Manuel Zúñiga
Two-component systems (TCSs) are widespread signal transduction pathways mainly found in bacteria where they play a major role in adaptation to changing environmental conditions. TCSs generally consist of sensor histidine kinases that autophosphorylate in response to a specific stimulus and subsequently transfer the phosphate group to their cognate response regulators thus modulating their activity, usually as transcriptional regulators. In this review we present the current knowledge on the physiological role of TCSs in species of the families Lactobacillaceae and Leuconostocaceae of the group of lactic acid bacteria (LAB)...
2017: Advances in Applied Microbiology
https://www.readbyqxmd.com/read/28438169/ivermectin-and-malaria-control
#17
Satoshi Ōmura, Andy Crump
As the world begins to realize the very real prospect of eliminating malaria as a public health problem globally, the scientific community is acutely aware that novel and innovative new tools will be required if that lofty goal is to be accomplished. Moreover, the need for comprehensive, integrated products and interventions is being recognized in order for the critical 'final steps' toward elimination to be taken successfully. Failure to take these crucial last steps have dogged all past global disease elimination programmes, except for smallpox...
April 24, 2017: Malaria Journal
https://www.readbyqxmd.com/read/28437463/relationship-of-the-crebc-two-component-regulatory-system-and-inner-membrane-protein-cred-with-swimming-motility-in-stenotrophomonas-maltophilia
#18
Hsin-Hui Huang, Wei-Ching Chen, Cheng-Wen Lin, Yi-Tsung Lin, Hsiao-Chen Ning, Yi-Chih Chang, Tsuey-Ching Yang
The CreBC two-component system (TCS) is a conserved regulatory system found in Escherichia coli, Aeromonas spp., Pseudomonas aeruginosa, and Stenotrophomonas maltophilia. In this study, we determined how CreBC TCS regulates secreted protease activities and swimming motility using creB, creC, and creBC in-frame deletion mutants (KJΔCreB, KJΔCreC, and KJΔBC) of S. maltophilia KJ. Compared to wild-type KJ, KJΔCreB had a comparable secreted protease activity; however, the secreted protease activities were obviously reduced in KJΔCreC and KJΔBC, suggesting that CreC works together with another unidentified response regulator (not CreB) to regulate secreted protease activity...
2017: PloS One
https://www.readbyqxmd.com/read/28435701/crystal-structure-of-2e-3-4-di-methyl-amino-phen-yl-1-thio-phen-2-yl-prop-2-en-1-one
#19
Gabriela Porto de Oliveira, Leandro Bresolin, Darlene Correia Flores, Renan Lira de Farias, Adriano Bof de Oliveira
The equimolar reaction between 4-(di-methyl-amino)-benzaldehyde and 2-acetyl-thio-phene in basic ethano-lic solution yields the title compound, C15H15NOS, whose mol-ecular structure matches the asymmetric unit. The mol-ecule is not planar, the dihedral angle between the aromatic and the thio-phene rings being 11.4 (2)°. In the crystal, mol-ecules are linked by C-H⋯O and weak C-H⋯S inter-actions along [100], forming R2(2) (8) rings, and by weak C-H⋯O inter-actions along [010], forming chains with a C(6) graph-set motif...
April 1, 2017: Acta Crystallographica. Section E, Crystallographic Communications
https://www.readbyqxmd.com/read/28432876/effect-of-pistachio-consumption-on-the-modulation-of-urinary-gut-microbiota-related-metabolites-in-prediabetic-subjects
#20
Pablo Hernández-Alonso, Daniel Cañueto, Simona Giardina, Jordi Salas-Salvadó, Nicolau Cañellas, Xavier Correig, Mònica Bulló
The specific nutritional composition of nuts could affect different metabolic pathways involved in a broad range of metabolic diseases. We therefore investigated whether chronic consumption of pistachio nuts modifies the urine metabolome in prediabetic subjects. We designed a randomized crossover clinical trial in 39 prediabetic subjects. They consumed a pistachio-supplemented diet (PD, 50% carbohydrates, 33% fat, including 57 g/d of pistachios daily) and a control diet (CD, 55% carbohydrates, 30% fat) for 4 months each, separated by a 2-week wash-out...
April 12, 2017: Journal of Nutritional Biochemistry
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