Van Allen Probes, THEMIS, GOES, and Cluster Observations of EMIC waves, ULF pulsations, and an electron flux dropout

We examined an electron flux dropout during the 12-14 November 2012 geomagnetic storm using observations from seven spacecraft: the two Van Allen Probes, Time History of Events and Macroscale Interactions during Substorms (THEMIS)-A (P5), Cluster 2, and Geostationary Operational Environmental Satellites (GOES) 13, 14, and 15. The electron fluxes for energies greater than 2.0 MeV observed by GOES 13, 14, and 15 at geosynchronous orbit and by the Van Allen Probes remained at or near instrumental background levels for more than 24 h from 12 to 14 November. For energies of 0.8 MeV, the GOES satellites observed two shorter intervals of reduced electron fluxes. The first interval of reduced 0.8 MeV electron fluxes on 12-13 November was associated with an interplanetary shock and a sudden impulse. Cluster, THEMIS, and GOES observed intense He+ electromagnetic ion cyclotron (EMIC) waves from just inside geosynchronous orbit out to the magnetopause across the dayside to the dusk flank. The second interval of reduced 0.8 MeV electron fluxes on 13-14 November was associated with a solar sector boundary crossing and development of a geomagnetic storm with Dst<100 nT. At the start of the recovery phase, both the 0.8 and 2.0 MeV electron fluxes finally returned to near prestorm values, possibly in response to strong ultralow frequency (ULF) waves observed by the Van Allen Probes near dawn. A combination of adiabatic effects, losses to the magnetopause, scattering by EMIC waves, and acceleration by ULF waves can explain the observed electron behavior

Megadepth: efficient coverage quantification for BigWigs and BAMs

Motivation A common way to summarize sequencing datasets is to quantify data lying within genes or other genomic intervals. This can be slow and can require different tools for different input file types. Results Megadepth is a fast tool for quantifying alignments and coverage for BigWig and BAM/CRAM input files, using substantially less memory than the next-fastest competitor. Megadepth can summarize coverage within all disjoint intervals of the Gencode V35 gene annotation for more than 19 000 GTExV8 BigWig files in approximately 1 h using 32 threads. Megadepth is available both as a command-line tool and as an R/Bioconductor package providing much faster quantification compared to the rtracklayer package. Availability and implementation https://github.com/ChristopherWilks/megadepth, https://bioconductor.org/packages/megadepth. Supplementary information Supplementary data are available at Bioinformatics online

Magnetospheric Response Times Following Southward IMF Turnings

We analyze the response times of various regions of the magnetosphere-ionosphere system to sudden southward turnings of the IMF. Our data set consists of 26 events during which the IMP BZ component was observed by WIND to change from a stea northward field to a southward field, which subsequently led to a substorm. The magnetospheric response to such IMF southward turnings is examined using data from the POLAR EFI experiment, the GOES 9 magnetometer, and ground magnetometers. The POLAR/EFI was used to investigate changes in the polar cap electric field which occurred in response to the changing interplanetary electric field, and these results are compared with response timings derived from high-latitude ground magnetometers. POLAR/EFI data show responses in the polar cap about 15 minutes after the arrival of the IMF change at the magnetopause. Auroral zone magnetograms and geosynchronous spacecraft measurements are utilized to evaluate the response timing within the closed field line region. In one event examined in detail, the start of a substorm growth phase was observed by GOES 9 in the midnight sector of geosynchronous orbit about two minutes before POLAR observed a response in the polar cap. Using superposed epoch analysis, we calculate typical response times in the polar cap, in the nightside plasma sheet, and in the ionosphere in order to discuss the various suggested mechanisms for information propagation from the subsolar magnetopause into the magnetosphere. We find that for the set of ten events for which the GOES 9 and the CANOPUS array are in the midnight sector, the field at geosynchronous as measured by GOES responds at or before the time of response in the polar cap as measured by POLAR, suggesting different methods of information propagation

Measurement of Permanent Electric Dipole Moments of Charged Hadrons in Storage Rings

Permanent Electric Dipole Moments (EDMs) of elementary particles violate two fundamental symmetries: time reversal invariance (T) and parity (P). Assuming the CPT theorem this implies CP-violation. The CP-violation of the Standard Model is orders of magnitude too small to be observed experimentally in EDMs in the foreseeable future. It is also way too small to explain the asymmetry in abundance of matter and anti-matter in our universe. Hence, other mechanisms of CP violation outside the realm of the Standard Model are searched for and could result in measurable EDMs. Up to now most of the EDM measurements were done with neutral particles. With new techniques it is now possible to perform dedicated EDM experiments with charged hadrons at storage rings where polarized particles are exposed to an electric field. If an EDM exists the spin vector will experience a torque resulting in change of the original spin direction which can be determined with the help of a polarimeter. Although the principle of the measurement is simple, the smallness of the expected effect makes this a challenging experiment requiring new developments in various experimental areas. Complementary efforts to measure EDMs of proton, deuteron and light nuclei are pursued at Brookhaven National Laboratory and at Forschungszentrum Juelich with an ultimate goal to reach a sensitivity of 10^{-29} e cm.Comment: 8 pages, 2 figure

Thin current sheets in the deep geomagnetic tail

The ISEE‐3 magnetic field and plasma electron data from Jan ‐ March 1983 have been searched to study thin current sheets in the deep tail region. 33 events were selected where the spacecraft crossed through the current sheet from lobe to lobe within 15 minutes. The average thickness of the observed current sheets was 2.45R_{E}, and in 24 cases the current sheet was thinner than 3.0R_{E}; 6 very thin current sheets (thickness λ < 0.5R_{E}) were found. The electron data show that the very thin current sheets are associated with considerable temperature anisotropy. On average, the electron gradient current was ∼ 17% of the total current, whereas the current arising from the electron temperature anisotropy varied between 8 – 45% of the total current determined from the lobe field magnitude

The Response of Electron Pitch Angle Distributions to the Upper Limit on Stably Trapped Particles

We use Van Allen Probes electron data during 70 geomagnetic storms to examine the response of equatorial pitch angle distributions (PADs) at L* = 4.0–4.5 to a theoretical upper limit on stably trapped particle fluxes. Of the energies examined, 54 and 108 keV electron PADs isotropize to a previously assumed level within 6 hr of reaching the limit, near-identically across all 70 storms, consistent with rapid pitch angle scattering due to chorus wave interactions. In around 30% of events, 54 keV electrons completely exceed the KP limit, before being quickly subdued. 470 and 749 keV PADs show clear indications of an upper limit, though less aligned with the calculated limit used here. The consistency of an absolute upper limit shown across all events demonstrates the importance of this phenomena in both the limiting effect on electron flux and consistently influencing electron PAD evolution during geomagnetic storms. These results also highlight the need for further investigation, particularly related to the limiting of higher energy electrons

Gomesin peptides prevent proliferation and lead to the cell death of devil facial tumour disease cells.

The Tasmanian devil faces extinction due to devil facial tumour disease (DFTD), a highly transmittable clonal form of cancer without available treatment. In this study, we report the cell-autonomous antiproliferative and cytotoxic activities exhibited by the spider peptide gomesin (AgGom) and gomesin-like homologue (HiGom) in DFTD cells. Mechanistically, both peptides caused a significant reduction at G0/G1 phase, in correlation with an augmented expression of the cell cycle inhibitory proteins p53, p27, p21, necrosis, exacerbated generation of reactive oxygen species and diminished mitochondrial membrane potential, all hallmarks of cellular stress. The screening of a novel panel of AgGom-analogues revealed that, unlike changes in the hydrophobicity and electrostatic surface, the cytotoxic potential of the gomesin analogues in DFTD cells lies on specific arginine substitutions in the eight and nine positions and alanine replacement in three, five and 12 positions. In conclusion, the evidence supports gomesin as a potential antiproliferative compound against DFTD disease

Installing hydrolytic activity into a completely <i>de novo </i>protein framework

The design of enzyme-like catalysts tests our understanding of sequence-to-structure/function relationships in proteins. Here we install hydrolytic activity predictably into a completely de novo and thermostable α-helical barrel, which comprises seven helices arranged around an accessible channel. We show that the lumen of the barrel accepts 21 mutations to functional polar residues. The resulting variant, which has cysteine–histidine–glutamic acid triads on each helix, hydrolyses p-nitrophenyl acetate with catalytic efficiencies that match the most-efficient redesigned hydrolases based on natural protein scaffolds. This is the first report of a functional catalytic triad engineered into a de novo protein framework. The flexibility of our system also allows the facile incorporation of unnatural side chains to improve activity and probe the catalytic mechanism. Such a predictable and robust construction of truly de novo biocatalysts holds promise for applications in chemical and biochemical synthesis