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At least 523 records · Page 29

Disentangling Sources of Gene Tree Discordance in Phylogenomic Data Sets: Testing Ancient Hybridizations in Amaranthaceae s.l

Gene tree discordance in large genomic data sets can be caused by evolutionary processes such as incomplete lineage sorting and hybridization, as well as model violation, and errors in data processing, orthology inference, and gene tree estimation. Species tree methods that identify and accommodate all sources of conflict are not available, but a combination of multiple approaches can help tease apart alternative sources of conflict. Here, using a phylotranscriptomic analysis in combination with reference genomes, we test a hypothesis of ancient hybridization events within the plant family Amaranthaceae s.l. that was previously supported by morphological, ecological, and Sanger-based molecular data. The data set included seven genomes and 88 transcriptomes, 17 generated for this study. We examined gene-tree discordance using coalescent-based species trees and network inference, gene tree discordance analyses, site pattern tests of introgression, topology tests, synteny analyses, and simulations. We found that a combination of processes might have generated the high levels of gene tree discordance in the backbone of Amaranthaceae s.l. Furthermore, we found evidence that three consecutive short internal branches produce anomalous trees contributing to the discordance. Overall, our results suggest that Amaranthaceae s.l. might be a product of an ancient and rapid lineage diversification, and remains, and probably will remain, unresolved. This work highlights the potential problems of identifiability associated with the sources of gene tree discordance including, in particular, phylogenetic network methods. Our results also demonstrate the importance of thoroughly testing for multiple sources of conflict in phylogenomic analyses, especially in the context of ancient, rapid radiations. We provide several recommendations for exploring conflicting signals in such situations.

59 BASIC BIOLOGICAL SCIENCES↗

Track-Based Triggers for Exotic Signatures

Standard triggers at the Large Hadron Collider are designed to select events with high momentum Standard Model particles which originate from the proton-proton collision of interest. However, several Beyond the Standard Model scenarios predict signatures with displaced or extremely low momentum charged particles, and pose significant challenges for LHC triggers. This article presents a study of track-based triggers for long-lived particles and other unconventional exotic signatures at the upcoming High Luminosity LHC. Representative scenarios studied include soft-unclustered-energy-patterns resulting in large multiplicities of low momentum tracks, a GMSB Supersymmetry scenario with long-lived staus resulting in displaced leptons or anomalous prompt tracks, and a higgs portal scenario with long-lived scalars resulting in displaced hadronic tracks. Trigger efficiency is measured as a function of the baseline parameters of a track trigger, including transverse momentum and impact parameters. Recommendations for future hardware-based track triggers are presented.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Sawtooth suppression by flux pumping on HBT-EP

Abstract This study examines the mechanisms underlying sawtooth suppression in the High Beta Tokamak-Extended Pulse (HBT-EP) device. It is observed that strong-intensity sawtooth activities correlate with reduced-amplitude magnetohydrodynamics (MHD) edge modes which are identified as m / n = 3 / 1 external kink modes, while sawtooth suppression correlates with larger and saturated edge mode amplitudes. To further investigate these correlations, the plasma–wall coupling was manipulated by adjusting the positions of the conducting walls in HBT-EP. It was found that strong sawtooth events occur when the normalized wall radius b / a is within a critical value. This implies that the plasma–wall distance must be sufficiently small to ensure effective stabilization of the edge mode. Even slight differences in major radius result in significantly different discharge styles, categorized as ‘sawtoothing discharges’ and ‘sawtooth-suppressed discharges’ respectively. Through a series of mode structure analyses, we confirm the coexistence and coupling of the m / n = 1 / 1 helical core, m / n = 2 / 1 tearing mode, and m / n = 3 / 1 external kink mode during sawtooth-suppression, and that this coupling induces anomalous current broadening. Based on these findings, we conclude that sawtooth suppression in the HBT-EP tokamak is consistent with the process of magnetic flux pumping.

Physics↗

Shock compaction heating and collisional processes in the production of type 3 ordinary chondrites: Lessons from the (nearly) unique L3 chondrite melt breccia Northwest Africa 8709

Abstract Northwest Africa (NWA) 8709 is a rare example of a type 3 ordinary chondrite melt breccia and provides critical information for the shock compaction histories of chondrites. An L3 protolith for NWA 8709 is inferred on the basis of oxygen isotope composition, elemental composition, diverse mineral chemistry, and overall texture. NWA 8709 is among the most strongly shocked type 3 chondrites known, and experienced complete melting of the matrix and partial melting of chondrules. Unmelted phases underwent FeO reduction and partial homogenization, with reduction possibly occurring by reaction of olivine and low‐Ca pyroxene with an S‐bearing gas that was produced by vaporization. Chondrules and metal grains became foliated by uniaxial compaction, and during compression, chondrules and fragments became attached to form larger clumps. This process, and possibly also melt incorporation into chondrules to cause “inflation,” may have contributed to anomalously large chondrule sizes in NWA 8709. The melt breccia character is attributed to strong shock affecting a porous precursor. Data‐model comparisons suggest that a precursor with 23% porosity that was impacted by a 3 km/s projectile could have produced the meteorite. The rarity of other type 3 ordinary chondrite melt breccias implies that the immediate precursors to such chondrites were lower in porosity than the NWA 8709 precursor, or experienced weaker shocks. Altogether, the data imply a predominantly “quiet” dynamical environment to form most type 3 ordinary chondrites, with compaction occurring in a series of relatively weak shock events.

Ruzicka, Alex M.↗

Madden-Julian oscillation influences United States springtime tornado and hail frequency

The Madden–Julian Oscillation (MJO) is the dominant mode of intraseasonal variability in the tropics and has a documented influence on extratropical extreme weather through modulation of synoptic atmospheric conditions. MJO phase has been correlated with anomalous tornado and severe hail frequency in the United States (US). However, the robustness of this relationship is unsettled, and the variability of physical pathways to modulation is poorly understood, despite the socioeconomic impacts that tornadoes and hail evoke. We approached this problem using pentad MJO indices and practically perfect severe weather hindcasts. MJO lifecycles were cataloged and clustered to document variability and potential pathways to enhanced subseasonal tornado and hail predictability. Statistically significant increases in US tornado and hail probabilities were documented 3–4 weeks following the period of the strongest upper-level divergence for the 53 active MJO events that propagated past the Maritime continent, contrasting with the 47 MJO events that experienced the barrier effect, during boreal spring 1979–2019. The 53 MJO events that propagated past the Maritime continent revealed three prevailing MJO evolutions—each containing unique pathways and modulation of US tornado and hail frequency—advancing our knowledge and capability to anticipate these hazards at extended lead times.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Validating of Atmospheric Signals Associated with some of the Major Earthquakes in Asia (2003-2009)

The recent catastrophic earthquake in Haiti (January 2010) has provided and renewed interest in the important question of the existence of precursory signals related to strong earthquakes. Latest studies (VESTO workshop in Japan 2009) have shown that there were precursory atmospheric signals observed on the ground and in space associated with several recent earthquakes. The major question, still widely debated in the scientific community is whether such signals systematically precede major earthquakes. To address this problem we have started to validate the anomalous atmospheric signals during the occurrence of large earthquakes. Our approach is based on integration analysis of several physical and environmental parameters (thermal infrared radiation, electron concentration in the ionosphere, Radon/ion activities, air temperature and seismicity) that were found to be associated with earthquakes. We performed hind-cast detection over three different regions with high seismicity Taiwan, Japan and Kamchatka for the period of 2003-2009. We are using existing thermal satellite data (Aqua and POES); in situ atmospheric data (NOAA/NCEP); and ionospheric variability data (GPS/TEC and DEMETER). The first part of this validation included 42 major earthquakes (M greater than 5.9): 10 events in Taiwan, 15 events in Japan, 15 events in Kamchatka and four most recent events for M8.0 Wenchuan earthquake (May 2008) in China and M7.9 Samoa earthquakes (Sep 2009). Our initial results suggest a systematic appearance of atmospheric anomalies near the epicentral area, 1 to 5 days prior to the largest earthquakes, that could be explained by a coupling process between the observed physical parameters, and the earthquake preparation processes.

Ouzounov, D. P.↗

Plasma Heating and Flow in an Auroral Arc

We report direct observations of the three-dimensional velocity distribution of selected topside ionospheric ion species in an auroral context between 500 and 550 km altitude. We find heating transverse to the local magnetic field in the core plasma, with significant heating of 0(+), He(+), and H(+), as well as tail heating events that occur independently of the core heating. The 0(+) velocity distribution departs from bi-Maxwellian, at one point exhibiting an apparent ring-like shape. However, these observations are shown to be aliased within the auroral arc by temporal variations that arc not well-resolved by the core plasma instrument. The dc electric field measurements reveal superthermal plasma drifts that are consistent with passage of the payload through a series of vortex structures or a larger scale circularly polarized hydromagnetic wave structure within the auroral arc. The dc electric field also shows that impulsive solitary structures, with a frequency spectrum in the ion cyclotron frequency range, occur in close correlation with the tail heating events. The drift and core heating observations lend support to the idea that core ion heating is driven at low altitudes by rapid convective motions imposed by the magnetosphere. Plasma wave emissions at ion frequencies and parallel heating of the low-energy electron plasma are observed in conjunction with this auroral form; however, the conditions are much more complex than those typically invoked in previous theoretical treatments of superthermal frictional heating. The observed ion heating within the arc clearly exceeds that expected from frictional heating for the light ion species H(+) and He(+), and the core distributions also contain hot transverse tails, indicating an anomalous transverse heat source.

Moore, T. E.↗

RXTE Observations of Anomalous X-ray Pulsar 1E 1547.0-5408 During and After its 2008 and 2009 Outbursts

We present the results of Rossi X-ray Timing Explorer (RXTE) and Swift monitoring observations of the magnetar 1E 1547.0-5408 following the pulsar's radiative outbursts in 2008 October and 2009 January. We report on a study of the evolution of the timing properties and the pulsed flux from 2008 October 4 through 2009 December 26. In our timing study, a phase-coherent analysis shows that for the first 29 days following the 2008 outburst, there was a very fast increase in the magnitude of the rotational frequency derivative upsilon-dot, such that upsilon-dot-dot was a factor of 60 larger than that reported in data from 2007. This upsilon-dot magnitude increase occurred in concert with the decay of the pulsed flux following the start of the 2008 event. Following the 2009 outburst, for the first 23 days, upsilon-dot-dot was consistent with zero, and upsilon-dot had returned to close to its 2007 value. In contrast to the 2008 event, the 2009 outburst showed a major increase in persistent flux, relatively little change in the pulsed flux, and sudden significant spectral hardening approx 15 days after the outburst. We show that, excluding the month following each of the outbursts, and because of the noise and the sparsity in the data, multiple plausible timing solutions fit the pulsar's frequency behavior. We note similarities in the behavior of 1E 1547.0-5408 following the 2008 outburst to that seen in the AXP 1E 1048.1-5937 following its 2001-2002 outburst and discuss this in terms of the magnetar model.

Dib, Rim↗

A Rb-Sr and Sm-Nd Isotope Geochronology and Trace Element Study of Lunar Meteorite LaPaz Icefield 02205

Rubidium-strontium and samarium-neodymium isotopes of lunar meteorite LaPaz Icefield (LAP) 02205 are consistent with derivation of the parent magma from a source region similar to that which produced the Apollo 12 low-Ti olivine basalts followed by mixing of the magma with small amounts (1 to 2 wt%) of trace element-enriched material similar to lunar KREEP-rich sample SaU 169. The crystallization age of LAP 02205 is most precisely dated by an internal Rb-Sr isochron of 2991+/-14 Ma, with an initial Sr-87/Sr-88 at the time of crystallization of 0.699836+/-0.000010. Leachable REE-rich phosphate phases of LAP 02205 do not plot on a Sm-Nd mineral isochron, indicating contamination or open system behavior of the phosphates. Excluding anomalous phases from the calculation of a Sm-Nd isochron yields a crystallization age of 2992+/-85 (initial Epsilon Nd-143 = +2.9+/-0.8) that is within error of the Rb-Sr age, and in agreement with other independent age determinations for LAP 02205 from Ar-Ar and U-Pb methods. The calculated Sm-147/Nd-144 source ratios for LAP 02205, various Apollo 12 and 15 basalts, and samples with strong affinities to KREEP (SaU 169, NWA 773, 15386) are uncorrelated with their crystallization ages. This finding does not support the involvement of a common KREEP component as a heat source for lunar melting events that occurred after crystallization of the lunar magma ocean.

Rankenburg, K.↗

Particle motion in the tail current sheet

Theory of particle motion in current sheets is reviewed. For small, approximately constant normal magnetic field, Bz, particles oscillate about the current sheet and 'live' within the sheet for one-half gyroperiod based on Bz. This lifetime replaces the mean collision time in the Lorentzian conductivity and thus gives rise to the concept of an inertial (or gyro-) conductivity. A substorm model by Coroniti utilizes this conductivity to allow reconnection to proceed without anomalous processes, due to wave-particle interactions. Chaotic particle orbits may at times be important to the dynamics, depending on parameters such as particle energy, current sheet thickness, and field line curvature. A current sheet model with neutral line predicts a ridge structure and asymmetries in the distribution function. Ion distributions near the plasma sheet boundary layer, during the CDAW 6 interval, are consistent with the model predictions. In recent studies by Mitchell et al. and Williams et al., the major current carriers during the growth phase of a substorm were found to be adiabatic electrons not more than 1 keV, but just before a current disruption event, the tail current was mainly carried by energetic ions undergoing current sheet oscillation.

Speiser, T. W.↗

First Light Measurements with the XMM-Newton Reflection Grating Spectrometers: Evidence for an Inverse First Ionization Potential Effect and Anomalous Ne Abundance in the Coronae of HR 1099

The RS CVn binary system HR 1099 was extensively observed by the XMM-Newton observatory in February 2000 as its first-light target. A total of 570 ks of exposure time was accumulated with the Reflection Grating Spectrometers (RGS). The integrated X-ray spectrum between 5-38A is of unprecedented quality and shows numerous features attributed to transitions of the elements C, N, O, Ne, Mg, Si, S, Fe. Ni, and probably others. We perform an in-depth study of the elemental composition of the average corona of this system, and find that the elemental abundances strongly depend on the first ionisation potential (FIP) of the elements. But different from the solar coronal case, we find an inverse FIP effect, i.e., the abundances (relative to oxygen) increase with increasing FIP. Possible scenarios, e.g., selective enrichment due to Ne-rich flare-like events, are discussed.

Brinkman, A. C.↗

Exploiting ν-dependence of projected energy correlators in HICs

We extend the recently derived factorization formula for energy-energy correlators to study the analytic structure of general ν-point projected energy correlators in heavy ion collisions. The ν-point projected energy correlators (or, ν-correlators) are an analytically continued family of the integer N-point projected energy correlators, which probe correlations between N final-state particles. By tracking the largest separation (χ) between the N particles, in vacuum, their structure is closely related to the DGLAP splitting functions and exhibits a classical scaling behavior ∼ 1/χ which is modified by resummation through the anomalous dimensions. We show that, in a thermal medium, the ν-correlators display non-trivial angular scaling already at the leading order in perturbation theory. We find that for non-integer values, particularly ν < 1, medium-induced jet function is enhanced compared to ν > 1. This is particularly manifested in the ratios of ν-correlators with respect to the two-point energy correlator, which encodes intrinsic angular information for ν < 1 when compared to large ν values. Moreover, for small-ν values, the ν-correlators appear to saturate at ν = 0.01 . We further confirm our leading-order numerical computations against simulated events from JEWEL for the parton-level production cross-section. Finally, we qualitatively discuss the effect of BFKL resummation for various values of ν.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Measurements of W + W - + ≥ 1 jet production cross-sections in pp collisions at $ \sqrt{s} $ = 13 TeV with the ATLAS detector

Fiducial and differential cross-section measurements of W + W - production in association with at least one hadronic jet are presented. These measurements are sensitive to the properties of electroweak-boson self-interactions and provide a test of perturbative quantum chromodynamics and the electroweak theory. The analysis is performed using proton-proton collision data collected at $ \sqrt{s} $ = 13 TeV with the ATLAS experiment, corresponding to an integrated luminosity of 139 fb -1 . Events are selected with exactly one oppositely charged electron-muon pair and at least one hadronic jet with a transverse momentum of p T > 30 GeV and a pseudorapidity of |η| < 4.5. After subtracting the background contributions and correcting for detector effects, the jet-inclusive W + W - + ≥ 1 jet fiducial cross-section and W + W - + jets differential cross-sections with respect to several kinematic variables are measured. These measurements include leptonic quantities, such as the lepton transverse momenta and the transverse mass of the W + W - system, as well as jet-related observables such as the leading jet transverse momentum and the jet multiplicity. Limits on anomalous triple-gauge-boson couplings are obtained in a phase space where interference between the Standard Model amplitude and the anomalous amplitude is enhanced.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

The Climate Signal in Regional Moisture Fluxes: A Comparison of Three Global Data Assimilation Products

This study assesses the quality of estimates of climate variability in moisture flux and convergence from three assimilated data sets: two are reanalysis products generated at the Goddard Data Assimilation Office (DAO) and the National Centers for Environmental Prediction/National Centers for Atmospheric Research (NCEPJNCAR), and the third consists of the operational analyses generated at the European Center for Medium Range Forecasts (ECMWF). The regions under study (the United States Great Plains, the Indian monsoon region, and Argentina east of the Andes) are characterized by frequent low level jets (LLJs) and other interannual low level wind variations tied to the large-scale flow. While the emphasis is on the reanalysis products, the comparison with the operational product is provided to help assess the improvements gained from a fixed analysis system. All three analyses capture the main moisture flux anomalies associated with selected extreme climate (drought and flood) events during the period 1985-93. The correspondence is strongest over the Great Plains and weakest over the Indian monsoon region reflecting differences in the observational coverage. For the reanalysis products, the uncertainties in the lower tropospheric winds is by far the dominant source of the discrepancies in the moisture flux anomalies in the middle latitude regions. Only in the Indian Monsoon region, where interannual variability in the low level winds is comparatively small, does the moisture bias play a substantial role. In contrast, the comparisons with the operational product show differences in moisture which are comparable torhe differences in the wind in all three regions. Compared with the fluxes, the anomalous moisture convergences show substantially larger differences among the three products. The best agreement occurs over the Great Plains region where all three products show vertically-integrated moisture convergence during the floods and divergence during the drought with differences in magnitude of about 25%. The reanalysis products, in particular, show good agreement in depicting the different roles of the mean flow and transients during the flood and drought periods. Differences between the three products in the other two regions exceed 100% reflecting differences in the low level jets and the large scale circulation patterns. The operational product tends to have locally larger amplitude convergence fields which average out in area-mean budgets: this appears to be at least in part due to errors in the surface pressure fields and aliasing from the higher resolution of the original ECMWF fields. On average, the reanalysis products show higher coherence with each other than with the operational product in the estimates of interannual variability. This result is less clear in the Indian monsoon region where differences in the input observations appears to be an important factor. The agreement in the anomalous convergence patterns is, however, still rather poor even over relatively data dense regions such as the United States Great Plains. These differences are attributed to deficiencies in the assimilating GCM's representations of the planetary boundary layer and orography, and a global observing system incapable of resolving the highly confined low level winds associated with the climate anomalies.

Min, Wei↗

The role of interannual ENSO events in decadal timescale transitions of the Interdecadal Pacific Oscillation

The build-up of decadal timescale upper ocean heat content in the off-equatorial western tropical Pacific can provide necessary conditions for interannual El Niño/Southern Oscillation (ENSO) events to contribute to decadal timescale transitions of tropical Pacific SSTs to the opposite phase of the Interdecadal Pacific Oscillation (IPO). This can be viewed as a corollary to subseasonal westerly wind burst events contributing to El Niño interannual timescale transitions. In this work, a long pre-industrial control run with CESM1 is analyzed to show that there is a greater chance of ENSO activity to contribute to an IPO transition when off-equatorial western Pacific Ocean heat content reaches either a maximum (for El Niño to contribute to a transition to positive IPO) or minimum (for La Niña to contribute to a transition to negative IPO) as seen in observations. If above a necessary ocean heat content threshold, the convergence associated with westerly anomaly near-equatorial surface winds associated with El Niño activity can draw that heat content equatorward to sustain anomalously warm western and central Pacific SSTs. These are associated with positive precipitation and convective heating anomalies, a Gill-type response and wind stress curl anomalies that continue to feed warm water into the near-equatorial western Pacific. These conditions then sustain the decadal-timescale transition to positive IPO (with the opposite sign for transition to negative IPO). Associated central equatorial Pacific convective heating anomalies produce SLP and wind stress anomalies in the North and South Pacific that can excite westward-propagating off-equatorial oceanic Rossby waves to contribute to the western Pacific thermocline depth and consequent heat content anomalies.

54 ENVIRONMENTAL SCIENCES↗

Fluctuations of inverted V electron fluxes

Fluctuations of low-energy electron fluxes during an inverted V event on Nov. 5, 1975 were detected by fixed-energy electrostatic analyzers used in the LEE (low-energy electron) experiment onboard the AE-D satellite. The flux fluctuations were observed at energies of 0.78, 1.38, and 2.62 keV, when these energies were below that of the monoenergetic beam. This suggests that the fluctuations might occur over a wide range of energies. The fluctuations were confined within a pitch angle of 15 degrees, the amplitude increasing with decreasing pitch angle. The oscillation frequencies centered around 1.75 Hz. Fluctuations at two energies were generally correlated. The heating of secondary electrons, deduced from an analysis of the distribution function, is attributed to anomalous heating by electron plasma wave turbulence, whose intensity was modulated by a low-frequency wave. The results are consistent with a model, according to which auroral precipitating electron beams enhance the anomalous resistivity at the topside ionosphere through parametric instabilities.

Lin, C. S.↗

ENSO Variations in Tropical Precipitation

TRMM was launched during the height of the 1997-98 El Nino and offered new insights into the evolution of precipitation during this event. The rapid decline of the El Nino in May 1998 was followed by a long lasting La Nina. Extreme wet and dry regions in the tropics during this El Nino/Southern Oscillation (ENSO) cycle will be compared with the previous 23 years using the Global Precipitation Climatology Project (GPCP) products. In particular, patterns of precipitation anomalies preceding El Nino will be examined. It has been shown that 30-60 day oscillations in convection appear in the western Pacific before the onset of El Nino. Also, a fast traveling equatorial wave of rainfall circled the globe during the demise of 1997-98 El Nino. Recent work has revealed an interesting relationship between a gradient of anomalous precipitation in the eastern Indian Ocean and the initiation of El Nino. This link will be explored as well as other anomaly patterns in 2002, which may signal an upcoming El Nino.

Curtis, Scott↗

Late Reduction Textures in Almahata Sitta Ureilite

The Almahata Sitta ureilite, derived from asteroid 2008 TC3, consists of many individual fragments recovered from the Nubian dessert strewn field [1]. Like most ureilites, it contains abundant carbon and exhibits examples of disequilibrium textures that record a late reduction event accompanied by rapid cooling (tens of degC/h) from high temperatures (1150-1300 C). Variations in Fe/Mg of silicate minerals are accompanied by variations in Fe/Mn, indicating loss of Fe into metal [2]. In coarser-grained fragments of Almahata Sitta, olivine exhibits irregular high mg# rims in contact with networks of interstitial metal 5- 20 microns in typical thickness. This is a common ureilite texture thought to be driven by the reaction of graphite to a CO gas phase and the concurrent reduction of FeO in olivine to Fe metal, with excess silica going primarily into pyroxene (2MgFeSiO4 + C approaches MgSiO4 + MgSiO3 + 2Fe + CO) [3, see also 4,5,6]. Other fragments of Almahata Sitta exhibit anomalous textures such as fine grain size, high porosity, and abundant graphite. Within these fragments pyroxene locally exhibits high-mg# rims in contact with metal and a discreet silica phase, suggesting that the reduction mechanism MgFeSi2O6 + C approaches MgSiO3 + Fe + SiO2 + CO. Metals in Almahata Sitta are particularly unaltered in comparison to ureilite finds. Variations in minor and trace element composition of this metal might partly result from localized dilution as iron is supplied by reduction of silicates.

Herrin, J. S.↗