Analysis of Dictyostelium discoideum Inositol Pyrophosphate Metabolism by Gel Electrophoresis.

The social amoeba Dictyostelium discoideum was instrumental in the discovery and early characterization of inositol pyrophosphates, a class of molecules possessing highly-energetic pyrophosphate bonds. Inositol pyrophosphates regulate diverse biological processes and are attracting attention due to their ability to control energy metabolism and insulin signalling. However, inositol pyrophosphate research has been hampered by the lack of simple experimental procedures to study them. The recent development of polyacrylamide gel electrophoresis (PAGE) and simple staining to resolve and detect inositol pyrophosphate species has opened new investigative possibilities. This technology is now commonly applied to study in vitro enzymatic reactions. Here we employ PAGE technology to characterize the D. discoideum inositol pyrophosphate metabolism. Surprisingly, only three major bands are detectable after resolving acidic extract on PAGE. We have demonstrated that these three bands correspond to inositol hexakisphosphate (IP6 or Phytic acid) and its derivative inositol pyrophosphates, IP7 and IP8. Biochemical analyses and genetic evidence were used to establish the genuine inositol phosphate nature of these bands. We also identified IP9 in D. discoideum cells, a molecule so far detected only from in vitro biochemical reactions. Furthermore, we discovered that this amoeba possesses three different inositol pentakisphosphates (IP5) isomers, which are largely metabolised to inositol pyrophosphates. Comparison of PAGE with traditional Sax-HPLC revealed an underestimation of the cellular abundance of inositol pyrophosphates by traditional methods. In fact our study revealed much higher levels of inositol pyrophosphates in D. discoideum in the vegetative state than previously detected. A three-fold increase in IP8 was observed during development of D. discoideum a value lower that previously reported. Analysis of inositol pyrophosphate metabolism using ip6k null amoeba revealed the absence of developmentally-induced synthesis of inositol pyrophosphates, suggesting that the alternative class of enzyme responsible for pyrophosphate synthesis, PP-IP5K, doesn't' play a major role in the IP8 developmental increase

Kinematic dynamo action in a sphere: Effects of periodic time-dependent flows on solutions with axial dipole symmetry

Choosing a simple class of flows, with characteristics that may be present in the Earth's core, we study the ability to generate a magnetic field when the flow is permitted to oscillate periodically in time. The flow characteristics are parameterised by D, representing a differential rotation, M, a meridional circulation, and C, a component characterising convective rolls. Dynamo action is sensitive to these flow parameters and fails spectacularly for much of the parameter space where magnetic flux is concentrated into small regions. Oscillations of the flow are introduced by varying the flow parameters in time, defining a closed orbit in the space (D,M). Time-dependence appears to smooth out flux concentrations, often enhancing dynamo action. Dynamo action can be impaired, however, when flux concentrations of opposite signs occur close together as smoothing destroys the flux by cancellation. It is possible to produce geomagnetic-type reversals by making the orbit stray into a region where the steady flows generate oscillatory fields. In this case, however, dynamo action was not found to be enhanced by the time-dependence. A novel approach is taken to solving the time-dependent eigenvalue problem, where by combining Floquet theory with a matrix-free Krylov-subspace method we avoid large memory requirements for storing the matrix required by the standard approach.Comment: 22 pages, 12 figures. Geophys. Astrophys. Fluid Dynam., as accepted (2004

Comparative antimicrobial susceptibility of aerobic and facultative bacteria from community-acquired bacteremia to ertapenem in Taiwan

<p>Abstract</p> <p>Background</p> <p>Ertapenem is a once-a-day carbapenem and has excellent activity against many gram-positive and gram-negative aerobic, facultative, and anaerobic bacteria. The susceptibility of isolates of community-acquired bacteremia to ertapenem has not been reported yet. The present study assesses the in vitro activity of ertapenem against aerobic and facultative bacterial pathogens isolated from patients with community-acquired bacteremia by determining and comparing the MICs of cefepime, cefoxitin, ceftazidime, ceftriaxone, ertapenem, piperacillin, piperacillin-tazobactam, ciprofloxacin, amikacin and gentamicin. The prevalence of extended broad spectrum β-lactamases (ESBL) producing strains of community-acquired bacteremia and their susceptibility to these antibiotics are investigated.</p> <p>Methods</p> <p>Aerobic and facultative bacteria isolated from blood obtained from hospitalized patients with community-acquired bacteremia within 48 hours of admission between August 1, 2004 and September 30, 2004 in Chang Gung Memorial Hospital at Keelung, Taiwan, were identified using standard procedures. Antimicrobial susceptibility was evaluated by Etest according to the standard guidelines provided by the manufacturer and document M100-S16 Performance Standards of the Clinical Laboratory of Standard Institute. Antimicrobial agents including cefepime, cefoxitin, ceftazidime, ceftriaxone, ertapenem, piperacillin, piperacillin-tazobactam, ciprofloxacin, amikacin and gentamicin were used against the bacterial isolates to test their MICs as determined by Etest. For <it>Staphylococcus aureus </it>isolates, MICs of oxacillin were also tested by Etest to differentiate oxacillin-sensitive and oxacillin-resistant <it>S. aureus</it>.</p> <p>Results</p> <p>Ertapenem was highly active in vitro against many aerobic and facultative bacterial pathogens commonly recovered from patients with community-acquired bacteremia (128/159, 80.5 %). Ertapenem had more potent activity than ceftriaxone, piperacillin-tazobactam, or ciprofloxacin against oxacillin-susceptible <it>S</it>. <it>aureus </it>(17/17, 100%)and was more active than any of these agents against <it>enterobacteriaceae </it>(82/82, 100%).</p> <p>Conclusion</p> <p>Based on the microbiology pattern of community-acquired bacteremia, initial empiric treatment that requires coverage of a broad spectrum of both gram-negative and gram-positive aerobic bacteria, such as ertapenem, may be justified in moderately severe cases of community-acquired bacteremia in non-immunocompromised hosts.</p

Phenotypic microarrays suggest Escherichia coli ST131 is not a metabolically distinct lineage of extra-intestinal pathogenic E. coli

Extraintestinal pathogenic E. coli (ExPEC) are the major aetiological agent of urinary tract infections (UTIs) in humans. The emergence of the CTX-M producing clone E. coli ST131 represents a major challenge to public health worldwide. A recent study on the metabolic potential of E. coli isolates demonstrated an association between the E. coli ST131 clone and enhanced utilisation of a panel of metabolic substrates. The studies presented here investigated the metabolic potential of ST131 and other major ExPEC ST isolates using 120 API test reagents and found that ST131 isolates demonstrated a lower metabolic activity for 5 of 120 biochemical tests in comparison to non-ST131 ExPEC isolates. Furthermore, comparative phenotypic microarray analysis showed a lack of specific metabolic profile for ST131 isolates countering the suggestion that these bacteria are metabolically fitter and therefore more successful human pathogens

An overview of harms associated with β-lactam antimicrobials: where do the carbapenems fit in?

The US Institute of Medicine's focus on patient safety has motivated hospital administrators to facilitate a culture of safety. As a result, subcommittees of the pharmacy and therapeutics committee have emerged in many hospitals to focus on adverse events and patient safety. Antimicrobial harms have gained the attention of practicing clinicians and hospital formulary committees, because they top the list of drugs that are associated with adverse events and because of certain serious harms that have ultimately led to the withdrawal of some antimicrobial agents. In the near future, several antimicrobials in the late phase of development will become available for clinical use (ceftobiprole, ceftaroline, and telavancin), and others (doripenem and dalbavancin) have recently joined the armamentarium. Because new antimicrobials will become part of the treatment armamentarium, it is important to discuss our current understanding of antimicrobial harms in general. Although not thought of as traditional adverse events, Clostridium difficile infection and development of resistance during therapy are adverse events that occur as a result of antimicrobial exposure and therefore are discussed. In addition, a distillation of our current understanding of β-lactam specific adverse events will be provided. Finally, new methods of administration are being evaluated that may influence peak concentration-related antimicrobial adverse events

Summary report : direct approaches for recycling carbon dioxide into synthetic fuel.

The consumption of petroleum by the transportation sector in the United States is roughly equivalent to petroleum imports into the country, which have totaled over 12 million barrels a day every year since 2004. This reliance on foreign oil is a strategic vulnerability for the economy and national security. Further, the effect of unmitigated CO{sub 2} releases on the global climate is a growing concern both here and abroad. Independence from problematic oil producers can be achieved to a great degree through the utilization of non-conventional hydrocarbon resources such as coal, oil-shale and tarsands. However, tapping into and converting these resources into liquid fuels exacerbates green house gas (GHG) emissions as they are carbon rich, but hydrogen deficient. Revolutionary thinking about energy and fuels must be adopted. We must recognize that hydrocarbon fuels are ideal energy carriers, but not primary energy sources. The energy stored in a chemical fuel is released for utilization by oxidation. In the case of hydrogen fuel the chemical product is water; in the case of a hydrocarbon fuel, water and carbon dioxide are produced. The hydrogen economy envisions a cycle in which H{sub 2}O is re-energized by splitting water into H{sub 2} and O{sub 2}, by electrolysis for example. We envision a hydrocarbon analogy in which both carbon dioxide and water are re-energized through the application of a persistent energy source (e.g. solar or nuclear). This is of course essentially what the process of photosynthesis accomplishes, albeit with a relatively low sunlight-to-hydrocarbon efficiency. The goal of this project then was the creation of a direct and efficient process for the solar or nuclear driven thermochemical conversion of CO{sub 2} to CO (and O{sub 2}), one of the basic building blocks of synthetic fuels. This process would potentially provide the basis for an alternate hydrocarbon economy that is carbon neutral, provides a pathway to energy independence, and is compatible with much of the existing fuel infrastructure

Conditions for Reionizing the Universe with A Low Galaxy Ionizing Photon Escape Fraction

We explore scenarios for reionizing the intergalactic medium with low galaxy ionizing photon escape fractions. We combine simulation-based halo-mass dependent escape fractions with an extrapolation of the observed galaxy rest-ultraviolet luminosity functions to solve for the reionization history from z=20 to z=4. We explore the posterior distributions for key unknown quantities, including the limiting halo mass for star-formation, the ionizing photon production efficiency, and a potential contribution from active galactic nuclei (AGN). We marginalize over the allowable parameter space using a Markov Chain Monte Carlo method, finding a solution which satisfies the most model-independent constraints on reionization. Our fiducial model can match observational constraints with an average escape fraction of <5% throughout the bulk of the epoch of reionization if: i) galaxies form stars down to the atomic cooling limit before reionization and a photosuppression mass of log(M_h/Msol)~9 during/after reionization (-13<M_UV,lim<-11); ii) galaxies become more efficient producers of ionizing photons at higher redshifts and fainter magnitudes, and iii) there is a significant, but sub-dominant, contribution by AGN at z -15) dominate the ionizing emissivity, leading to an earlier start to reionization and a smoother evolution of the ionized volume filling fraction than models which assume a single escape fraction at all redshifts and luminosities. The ionizing emissivity from this model is consistent with observations at z=4-5 (and below, when extrapolated), in contrast to some models which assume a single escape fraction. Our predicted ionized volume filling fraction at z=7 of Q_HII=78% (+\- 8%) is in ~1-2 sigma tension with observations of Lya emitters at z~7 and the damping wing analyses of the two known z>7 quasars, which prefer Q_HII,z=7~40-50%.Comment: 45 pages, 21 figures, accepted for publication in the Astrophysical Journa