732 research outputs found
P09-15. Selection of higher avidity HLA-restricted T cell responses as a viral adaptation strategy
Loss of immune reactivity due to HIV mutational escape is well described. Data generated from a large population-based study (n>800) suggested that certain CD8 T cell epitopes are created as a result of HIV adaptation and are associated with enhanced viral replication. Here we sought to investigate the HLA-restricted T-cell responses associated with seven such adaptations
Retraction Notice of the Article: The DYRK-family kinase Pom1 phosphorylates the F-BAR protein Cdc15 to prevent division at cell poles
Division site positioning is critical for both symmetric and asymmetric cell divisions. In many organisms, positive and negative signals cooperate to position the contractile actin ring for cytokinesis. In rod-shaped fission yeast Schizosaccharomyces pombe cells, division at midcell is achieved through positive Mid1/anillin-dependent signaling emanating from the central nucleus and negative signals from the dual-specificity tyrosine phosphorylation-regulated kinase family kinase Pom1 at the cell poles. In this study, we show that Pom1 directly phosphorylates the F-BAR protein Cdc15, a central component of the cytokinetic ring. Pom1-dependent phosphorylation blocks Cdc15 binding to paxillin Pxl1 and C2 domain protein Fic1 and enhances Cdc15 dynamics. This promotes ring sliding from cell poles, which prevents septum assembly at the ends of cells with a displaced nucleus or lacking Mid1. Pom1 also slows down ring constriction. These results indicate that a strong negative signal from the Pom1 kinase at cell poles converts Cdc15 to its closed state, destabilizes the actomyosin ring, and thus promotes medial septation
Characterization and identification of dityrosine cross-linked peptides using tandem mass spectrometry
The use of mass spectrometry coupled with chemical cross-linking of proteins has become a powerful tool for proteins structure and interactions studies. Unlike structural analysis of proteins using chemical reagents specific for lysine or cysteine residues, identification of gas-phase fragmentation patterns of endogenous dityrosine cross-linked peptides have not been investigated. Dityrosine cross-linking in proteins and peptides are clinical markers of oxidative stress, aging, and neurodegenerative diseases including Alzheimerâs disease and Parkinsonâs disease. In this study, we investigated and characterized the fragmentation pattern of a synthetically prepared dityrosine cross-linked dimer of AÎČ(1â16) using ESI tandem mass spectrometry. We then detailed the fragmentation pattern of dityrosine cross-linked AÎČ(1â16), using collision induced dissociation (CID), higher-energy collision induced dissociation (HCD), electron transfer dissociation (ETD), and electron capture dissociation (ECD). Application of these generic fragmentation rules of dityrosine cross-linked peptides allowed for the identification of dityrosine cross-links in peptides of AÎČ and α-synuclein generated in vitro by enzymatic peroxidation. We report, for the first time, the dityrosine cross-linked residues in human hemoglobin and α-synuclein under oxidative conditions. Together these tools open up the potential for automated analysis of this naturally occurring post-translation modification in neurodegenerative diseases as well as other pathological conditions
Comparing the efficiency of six common methods for DNA extraction from root-lesion nematodes (Pratylenchus spp.)
Robust and accurate identification of root-lesion nematodes (Pratylenchus spp.) is an essential step for determining their potential threat to crop yields and, consequently, development of an efficient agronomic management strategy. It is recognised that DNA-based techniques provide rapid identification of a range of plant-parasitic nematodes including Pratylenchus spp. Efficient and repeatable DNA extraction is central to molecular methodologies. Here, six common DNA extraction protocols were compared to evaluate their efficiency to obtain quality DNA samples for Pratylenchus penetrans. Samples with five and ten individuals of P. penetrans were successfully extracted and amplified by all extraction methods tested, whereas samples with a single nematode presented challenges for DNA amplification. Among all methods tested, the DNA extraction protocol with glass beads proved to be efficient for P. penetrans and all other species tested (P. crenatus, P. neglectus and P. thornei), generating high quality DNA at comparatively low cost and with a rapid sample throughput
Generation of Large-Scale Vorticity in a Homogeneous Turbulence with a Mean Velocity Shear
An effect of a mean velocity shear on a turbulence and on the effective force
which is determined by the gradient of Reynolds stresses is studied. Generation
of a mean vorticity in a homogeneous incompressible turbulent flow with an
imposed mean velocity shear due to an excitation of a large-scale instability
is found. The instability is caused by a combined effect of the large-scale
shear motions (''skew-induced" deflection of equilibrium mean vorticity) and
''Reynolds stress-induced" generation of perturbations of mean vorticity.
Spatial characteristics, such as the minimum size of the growing perturbations
and the size of perturbations with the maximum growth rate, are determined.
This instability and the dynamics of the mean vorticity are associated with the
Prandtl's turbulent secondary flows. This instability is similar to the
mean-field magnetic dynamo instability. Astrophysical applications of the
obtained results are discussed.Comment: 8 pages, 3 figures, REVTEX4, submitted to Phys. Rev.
Study of the radiative decay with CMD-2 detector
Using the of data collected with the CMD-2 detector at VEPP-2M
the decay mode , has been
studied. The obtained branching ratio is B(.Comment: 13 pages, 5 figures, LaTex2e, to be published in Phys. Lett.
Timing and pace of ice-sheet withdrawal across the marine-terrestrial transition west of Ireland during the last glaciation
Understanding the pace and drivers of marine-based ice-sheet retreat relies upon the integration of numerical ice-sheet models with observations from contemporary polar ice sheets and well-constrained palaeo-glaciological reconstructions. This paper provides a reconstruction of the retreat of the last BritishâIrish Ice Sheet (BIIS) from the Atlantic shelf west of Ireland during and following the Last Glacial Maximum (LGM). It uses marine-geophysical data and sediment cores dated by radiocarbon, combined with terrestrial cosmogenic nuclide and optically stimulated luminescence dating of onshore ice-marginal landforms, to reconstruct the timing and rate of ice-sheet retreat from the continental shelf and across the adjoining coastline of Ireland, thus including the switch from a marine- to a terrestrially-based ice-sheet margin. Seafloor bathymetric data in the form of moraines and grounding-zone wedges on the continental shelf record an extensive ice sheet west of Ireland during the LGM which advanced to the outer shelf. This interpretation is supported by the presence of dated subglacial tills and overridden glacimarine sediments from across the Porcupine Bank, a westwards extension of the Irish continental shelf. The ice sheet was grounded on the outer shelf at ~26.8âka cal bp with initial retreat underway by 25.9âka cal bp. Retreat was not a continuous process but was punctuated by marginal oscillations until ~24.3âka cal bp. The ice sheet thereafter retreated to the mid-shelf where it formed a large grounding-zone complex at ~23.7âka cal bp. This retreat occurred in a glacimarine environment. The Aran Islands on the inner continental shelf were ice-free by ~19.5âka bp and the ice sheet had become largely terrestrially based by 17.3âka bp. This suggests that the Aran Islands acted to stabilize and slow overall ice-sheet retreat once the BIIS margin had reached the inner shelf. Our results constrain the timing of initial retreat of the BIIS from the outer shelf west of Ireland to the period of minimum global eustatic sea level. Initial retreat was driven, at least in part, by glacio-isostatically induced, high relative sea level. Net rates of ice-sheet retreat across the shelf were slow (62â19âm aâ1) and reduced (8âm aâ1) as the ice sheet vacated the inner shelf and moved onshore. A picture therefore emerges of an extensive BIIS on the Atlantic shelf west of Ireland, in which early, oscillatory retreat was followed by slow episodic retreat which decelerated further as the ice margin became terrestrially based. More broadly, this demonstrates the importance of localized controls, in particular bed topography, on modulating the retreat of marine-based sectors of ice sheets
Study of the Process in the C.M.Energy Range 1.05-1.38 GeV with CMD-2
The process has been studied with the CMD-2 detector
using about 950 events detected in the center-of-mass energy range from 1.05 to
1.38 GeV. The cross section exceeds the expectation based on the contributions
of the rho(770), omega(782) and phi(1020) mesons only.Comment: 12 pages, 3 figures, uses elsart.cls, submitted to Physics Letters
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