Vibrational relaxation measurements in CO2 USING an induced fluorescence technique

Vibrational relaxation measurements in carbon dioxide using induced infrared fluorescence techniqu

Metal ion-N7 coordination in a ribozyme branch domain by NMR

The N7 of purine nucleotides presents one of the most dominant metal ion binding sites in nucleic acids. However, the interactions between kinetically labile metal ions like Mg2+ and these nitrogen atoms are inherently difficult to observe in large RNAs. Rather than using the insensitive direct N-15 detection, here we have used (2)J-H-1,N-15]-HSQC (Heteronuclear Single Quantum Coherence) NMR experiments as a fast and efficient method to specifically observe and characterize such interactions within larger RNA constructs. Using the 27 nucleotides long branch domain of the yeast-mitochondrial group II intron ribozyme Sc.ai5 gamma as an example, we show that direct N7 coordination of a Mg2+ ion takes place in a tetraloop nucleotide. A second Mg2+ ion, located in the major groove at the catalytic branch site, coordinates mainly in an outer-sphere fashion to the highly conserved flanking GU wobble pairs but not to N7 of the sandwiched branch adenosine. (C) 2010 Elsevier Inc. All rights reserved

A Nucleotide-dependent and HRDC Domain-dependent Structural Transition in DNA-bound RecQ Helicase

The allosteric communication between the ATP- and DNA-binding sites of RecQ helicases enables efficient coupling of ATP hydrolysis to translocation along single-stranded (ss) DNA and, in turn, the restructuring of multi-stranded DNA substrates during genome maintenance processes. In this study we used the tryptophan fluorescence signal of E. coli RecQ helicase to decipher the kinetic mechanism of the interaction of the enzyme with ssDNA. Rapid kinetic experiments revealed that ssDNA binding occurs in a two-step mechanism in which the initial binding step is followed by a structural transition of the DNA-bound helicase. We found that the nucleotide state of RecQ greatly influences the kinetics of the detected structural transition, which leads to a high-affinity DNA-clamped state in the presence of the nucleotide analog ADP.AlF4. The DNA binding mechanism is largely independent of ssDNA length, indicating the independent binding of RecQ molecules to ssDNA and the lack of significant DNA end effects. The structural transition of DNA-bound RecQ was not detected when the ssDNA binding capability of the HRDC domain was abolished or the domain was deleted. The results shed light on the nature of conformational changes leading to processive ssDNA translocation and multi-stranded DNA processing by RecQ helicases

Singular gauge potentials and the gluon condensate at zero temperature

We consider a new cooling procedure which separates gluon degrees of freedom from singular center vortices in SU(2) LGT in a gauge invariant way. Restricted by a cooling scale $\kappa^4/\sigma^2$ fixing the residual SO(3) gluonic action relative to the string tension, the procedure is RG invariant. In the limit $\kappa \to 0$ a pure Z(2) vortex texture is left. This {\it minimal} vortex content does not contribute to the string tension. It reproduces, however, the lowest glueball states. With an action density scaling like $a^4$ with $\beta$, it defines a finite contribution to the action density at T=0 in the continuum limit. We propose to interpret this a mass dimension 4 condensate related to the gluon condensate. Similarly, this vortex texture is revealed in the Landau gauge.Comment: 3 pages, 4 figures, Contribution to ''Lattice 2001'' (confinement) to appear in the Proceedings (Nucl. Phys. B Proc. Suppl.

The MACHO Project LMC Variable Star Inventory. IX. Frequency Analysis of the First Overtone RR Lyrae Stars and the Indication for Nonradial Pulsations

More than 1300 variables classified provisionally as first overtone RR Lyrae pulsators in the MACHO variable star database of the Large Magellanic Cloud (LMC) have been subjected to standard frequency analysis. Based on the remnant power in the prewhitened spectra, we found 70% of the total population to be monoperiodic. The remaining 30% (411 stars) are classified as one of 9 types according to their frequency spectra. Several types of RR Lyrae pulsational behavior are clearly identified here for the first time. Together with the earlier discovered double-mode (fundamental & first overtone) variables this study increased the number of the known double-mode stars in the LMC to 181. During the total 6.5yr time span of the data, 10% of the stars show strong period changes. We also discovered two additional types of multifrequency pulsators with low occurrence rates of 2% for each. In the first type there remains one closely spaced component after prewhitening by the main pulsation frequency. In the second type the number of remnant components is two, they are also closely spaced, and, in addition, they are symmetric in their frequency spacing relative to the central component. This latter type of variables is associated with their relatives among the fundamental pulsators, known as Blazhko variables. Their high frequency (~20%) among the fundamental mode variables versus the low occurrence rate of their first overtone counterparts makes it more difficult to explain Blazhko phenomenon by any theory depending mainly on the role of aspect angle or magnetic field. Current theoretical models invoke nonradial pulsation components in these stars.Comment: 20 pages, 21 figures (bitmapped), 7 tables, to appear in Ap.

Clinical impact of double protease inhibitor boosting with Lopinavir/Ritonavir and Amprenavir as part of salvage antiretroviral therapy

Purpose: Double protease inhibitor (PI) boosting is being explored as a new strategy in salvage antiretroviral (ARV) therapy. However, if a negative drug interaction leads to decreased drug levels of either or both PIs, double PI boosting could lead to decreased virologic response. A negative drug interaction has been described between amprenavir (APV) and lopinavir/ritonavir (LPV/r). This observational cohort study assessed the virologic impact of the addition of APV to a salvage ARV regimen, which also contains LPV/r, compared to a regimen containing LPV/r alone. Method: Patients initiated on a salvage ARV regimen that included LPV/r obtained from the expanded access program in Toronto, Canada, were evaluated. APV (600-1,200 mg bid) was added at the discretion of the treating physician. Results: Using multivariate Cox proportional hazards models, we found that the addition of APV to a LPV/r-containing salvage regimen was not significantly associated with time to virologic suppression (< 50 copies/mL; adjusted hazard ratio [HR] = 0.75, p = .12) or with time to virologic rebound (adjusted HR = 1.46, p = .34). Those patients who received higher doses of APV had an increased chance of virologic suppression (p = .03). In a subset of 27 patients, the median LPV Ctrough was significantly lower in patients receiving APV (p = .04), and the median APV Ctrough was reduced compared to reported controls. Conclusion: Our data do not support an additional benefit in virologic reduction of double boosting with APV and LPV/r relative to LPV/r alone in salvage ARV therapy. Our study's limitations include its retrospective nature and the imbalance between the two groups potentially confounding the results. Although these factors were adjusted for in the multivariate analysis, a prospective randomized controlled trial is warranted to confirm our findings

Male Antarctic fur seals: neglected food competitors of bioindicator species in the context of an increasing Antarctic krill fishery.

The fishery for Antarctic krill is currently managed using a precautionary, ecosystem-based approach to limiting catch, with performance indices from a long-term monitoring program focused on several krill-dependent predators that are used to track ecosystem health. Concerns over increased fishing in concentrated areas and ongoing efforts to establish a Marine Protected Area along the Peninsula, a key fishing region, is driving the development of an adaptive management system for the fishery. The cumulative effects of fishing effort and interactions among krill-dependent predators and their performance is at present neglected in the CCAMLR Ecosystem Monitoring Program. However, we show considerable overlap between male Antarctic fur seals and the krill fishery in a complex mosaic, suggesting potential for cumulative impacts on other krill dependent predators. A holistic view is required as part of future efforts to manage the krill fishery that incorporates various sources of potential impacts on the performance of bioindicator species, including the fishery and its interactions with various krill dependent predators. © 2020, The Author(s)