487 research outputs found
Structural probing of the HIV-1 polypurine tract RNA:DNA hybrid using classic nucleic acid ligands
The interactions of archetypical nucleic acid ligands with the HIV-1 polypurine tract (PPT) RNA:DNA hybrid, as well as analogous DNA:DNA, RNA:RNA and swapped hybrid substrates, were used to probe structural features of the PPT that contribute to its specific recognition and processing by reverse transcriptase (RT). Results from intercalative and groove-binding ligands indicate that the wild-type PPT hybrid does not contain any strikingly unique groove geometries and/or stacking arrangements that might contribute to the specificity of its interaction with RT. In contrast, neomycin bound preferentially and selectively to the PPT near the 5âČ(rA)4:(dT)4 tract and the 3âČ PPT-U3 junction. Nuclear magnetic resonance data from a complex between HIV-1 RT and the PPT indicate RT contacts within the same regions highlighted on the PPT by neomycin. These observations, together with the fact that the sites are correctly spaced to allow interaction with residues in the ribonuclease H (RNase H) active site and thumb subdomain of the p66 RT subunit, suggest that despite the long cleft employed by RT to make contact with nucleic acids substrates, these sites provide discrete binding units working in concert to determine not only specific PPT recognition, but also its orientation on the hybrid structure
Marsh macrophyte responses to inundation anticipate impacts of sea-level rise and indicate ongoing drowning of North Carolina marshes
In situ persistence of coastal marsh habitat as sea level rises depends on whether macrophytes induce compensatory accretion of the marsh surface. Experimental planters in two North Carolina marshes served to expose two dominant macrophyte species to six different elevations spanning 0.75 m (inundation durations 0.4ĂąâŹâ99 %). Spartina alterniflora and Juncus roemerianus exhibited similar responsesĂąâŹâwith production in planters suggesting initial increases and then demonstrating subsequent steep declines with increasing inundation, conforming to a segment of the ecophysiological parabola. Projecting inundation levels experienced by macrophytes in the planters onto adjacent marsh platforms revealed that neither species occupied elevations associated with increasing production. Declining macrophyte production with rising seas reduces both bioaccumulation of roots below-ground and baffle-induced sedimentation above-ground. By occupying only descending portions of the parabola, macrophytes in central North Carolina marshes are responding to rising water levels by progressive declines in production, ultimately leading to marsh drowning
Response and resilience of Spartina alterniflora to sudden dieback
We measured an array of biophysical and spectral variables to evaluate the response and recovery of Spartina alterniflora to a sudden dieback event in spring and summer 2004 within a low marsh in coastal Virginia, USA. S. alterniflora is a foundation species, whose loss decreases ecosystem services and potentiates ecosystem state change. Long-term records of the potential environmental drivers of dieback such as precipitation and tidal inundation did not evidence any particular anomalies, although Hurricane Isabel in fall 2003 may have been related to dieback. Transects were established across the interface between the dieback area and apparently healthy areas of marsh. Plant condition was classified based on ground cover within transects as dieback, intermediate and healthy. Numerous characteristics of S. alterniflora culms within each condition class were assessed including biomass, morphology and spectral attributes associated with photosynthetic pigments. Plants demonstrated evidence of stress in 2004 and 2005 beyond areas of obvious dieback and resilience at a multi-year scale. Resilience of the plants was evident in recovery of ground cover and biomass largely within 3 y, although a small remnant of dieback persisted for 8 y. Culms surviving within the dieback and areas of intermediate impact had modified morphological traits and spectral response that reflected stress. These morphometric and spectral differences among plant cover condition classes serve as guidelines for monitoring of dieback initiation, effects and subsequent recovery. Although a number of environmental and biotic parameters were assessed relative to causation, the reason for this particular dieback remains largely unknown, however
Conserving Coastal Wetlands Despite Sea Level Rise
Coastal wetlands provide valuable services such as flood protection and fisheries production to a global population that is increasingly concentrated near the coast and dependent on its resources. Many of the world\u27s coastal wetlands suffered significant losses during this century, and the creation of new wetland areas is not keeping pace with recent losses. Some destruction of wetland areas can be expected as a consequence of the continual reworking of the coastal zone by dynamic geologic processes. Yet human activities also play a role, both directly by encroaching on coastal wetlands and indirectly by influencing the hydrologic and geologic processes in the coastal zone
Searches for Neutrinos from LHAASO ultra-high-energy {\gamma}-ray sources using the IceCube Neutrino Observatory
Galactic PeVatrons are Galactic sources theorized to accelerate cosmic rays
up to PeV in energy. The accelerated cosmic rays are expected to interact
hadronically with nearby ambient gas or the interstellar medium, resulting in
{\gamma}-rays and neutrinos. Recently, the Large High Altitude Air Shower
Observatory (LHAASO) identified 12 {\gamma}-ray sources with emissions above
100 TeV, making them candidates for PeV cosmic-ray accelerators (PeVatrons).
While at these high energies the Klein-Nishina effect suppresses exponentially
leptonic emission from Galactic sources, evidence for neutrino emission would
unequivocally confirm hadronic acceleration. Here, we present the results of a
search for neutrinos from these {\gamma}-ray sources and stacking searches
testing for excess neutrino emission from all 12 sources as well as their
subcatalogs of supernova remnants and pulsar wind nebulae with 11 years of
track events from the IceCube Neutrino Observatory. No significant emissions
were found. Based on the resulting limits, we place constraints on the fraction
of {\gamma}-ray flux originating from the hadronic processes in the Crab Nebula
and LHAASOJ2226+6057
Searching for High-energy Neutrino Emission from Galaxy Clusters with IceCube
Galaxy clusters have the potential to accelerate cosmic rays (CRs) to ultrahigh energies via accretion shocks or embedded CR acceleration sites. The CRs with energies below the Hillas condition will be confined within the cluster and eventually interact with the intracluster medium gas to produce secondary neutrinos and gamma rays. Using 9.5 yr of muon neutrino track events from the IceCube Neutrino Observatory, we report the results of a stacking analysis of 1094 galaxy clusters with masses âł10 Mâ and redshifts between 0.01 and âŒ1 detected by the Planck mission via the SunyaevâZelâdovich effect. We find no evidence for significant neutrino emission and report upper limits on the cumulative unresolved neutrino flux from massive galaxy clusters after accounting for the completeness of the catalog up to a redshift of 2, assuming three different weighting scenarios for the stacking and three different power-law spectra. Weighting the sources according to mass and distance, we set upper limits at a 90% confidence level that constrain the flux of neutrinos from massive galaxy clusters (âł10 Mâ) to be no more than 4.6% of the diffuse IceCube observations at 100 TeV, assuming an unbroken Eâ power-law spectrum
Search for Quantum Gravity Using Astrophysical Neutrino Flavour with IceCube
Along their long propagation from production to detection, neutrino states
undergo quantum interference which converts their types, or flavours.
High-energy astrophysical neutrinos, first observed by the IceCube Neutrino
Observatory, are known to propagate unperturbed over a billion light years in
vacuum. These neutrinos act as the largest quantum interferometer and are
sensitive to the smallest effects in vacuum due to new physics. Quantum gravity
(QG) aims to describe gravity in a quantum mechanical framework, unifying
matter, forces and space-time. QG effects are expected to appear at the
ultra-high-energy scale known as the Planck energy, ~giga-electronvolts (GeV). Such a high-energy universe would have
existed only right after the Big Bang and it is inaccessible by human
technologies. On the other hand, it is speculated that the effects of QG may
exist in our low-energy vacuum, but are suppressed by the Planck energy as
(~GeV), (~GeV), or its higher powers. The coupling of particles to these
effects is too small to measure in kinematic observables, but the phase shift
of neutrino waves could cause observable flavour conversions. Here, we report
the first result of neutrino interferometry~\cite{Aartsen:2017ibm} using
astrophysical neutrino flavours to search for new space-time structure. We did
not find any evidence of anomalous flavour conversion in IceCube astrophysical
neutrino flavour data. We place the most stringent limits of any known
technologies, down to ~GeV, on the dimension-six operators
that parameterize the space-time defects for preferred astrophysical production
scenarios. For the first time, we unambiguously reach the signal region of
quantum-gravity-motivated physics.Comment: The main text is 7 pages with 3 figures and 1 table. The Appendix
includes 5 pages with 3 figure
Searches for Neutrinos from Gamma-Ray Bursts using the IceCube Neutrino Observatory
Gamma-ray bursts (GRBs) are considered as promising sources of
ultra-high-energy cosmic rays (UHECRs) due to their large power output.
Observing a neutrino flux from GRBs would offer evidence that GRBs are hadronic
accelerators of UHECRs. Previous IceCube analyses, which primarily focused on
neutrinos arriving in temporal coincidence with the prompt gamma rays, found no
significant neutrino excess. The four analyses presented in this paper extend
the region of interest to 14 days before and after the prompt phase, including
generic extended time windows and targeted precursor searches. GRBs were
selected between May 2011 and October 2018 to align with the data set of
candidate muon-neutrino events observed by IceCube. No evidence of correlation
between neutrino events and GRBs was found in these analyses. Limits are set to
constrain the contribution of the cosmic GRB population to the diffuse
astrophysical neutrino flux observed by IceCube. Prompt neutrino emission from
GRBs is limited to 1% of the observed diffuse neutrino flux, and
emission on timescales up to s is constrained to 24% of the total
diffuse flux
Strong Constraints on Neutrino Nonstandard Interactions from TeV-Scale Μ Disappearance at IceCube
We report a search for nonstandard neutrino interactions (NSI) using eight years of TeV-scale atmospheric muon neutrino data from the IceCube Neutrino Observatory. By reconstructing incident energies and zenith angles for atmospheric neutrino events, this analysis presents unified confidence intervals for the NSI parameter ΔΌÏ. The best-fit value is consistent with no NSI at a p value of 25.2%. With a 90% confidence interval of â0.0041â€Î”ÎŒÏâ€0.0031 along the real axis and similar strength in the complex plane, this result is the strongest constraint on any NSI parameter from any oscillation channel to date
Non-standard neutrino interactions in IceCube
Non-standard neutrino interactions (NSI) may arise in various types of new physics. Their existence would change the potential that atmospheric neutrinos encounter when traversing Earth matter and hence alter their oscillation behavior. This imprint on coherent neutrino forward scattering can be probed using high-statistics neutrino experiments such as IceCube and its low-energy extension, DeepCore. Both provide extensive data samples that include all neutrino flavors, with oscillation baselines between tens of kilometers and the diameter of the Earth.
DeepCore event energies reach from a few GeV up to the order of 100 GeV - which marks the lower threshold for higher energy IceCube atmospheric samples, ranging up to 10 TeV.
In DeepCore data, the large sample size and energy range allow us to consider not only flavor-violating and flavor-nonuniversal NSI in the ÎŒâÏ sector, but also those involving electron flavor.
The effective parameterization used in our analyses is independent of the underlying model and the new physics mass scale. In this way, competitive limits on several NSI parameters have been set in the past. The 8 years of data available now result in significantly improved sensitivities. This improvement stems not only from the increase in statistics but also from substantial improvement in the treatment of systematic uncertainties, background rejection and event reconstruction
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