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At least 685 records · Page 38

A new Software Training Model at Belle II

The physics output of modern experimental HEP collaborations hinges not only on the quality of its software but also on the ability of the collaborators to make the best possible use of it. With the COVID-19 pandemic making in-person training impossible, the training paradigm at Belle II was shifted from periodic workshops towards guided self-study. To that end, the study material was rebuilt from scratch as a series of modular and hands-on lessons tightly integrated with the software documentation using Sphinx. Each lesson contains multiple exercises that are supplemented with hints and complete solutions. Rather than duplicating information, students are systematically taught to work with the technical reference documentation to find the important sections for themselves. Unit tests ensure that all examples work with different software versions, and feedback buttons make it easy to submit comments for improvements.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Measurement of proton quenching in a plastic scintillator detector

The non-linear energy response of the plastic scintillator EJ-260 is measured with the MicroCHANDLER detector, using neutron beams of energy 5 to 27 MeV at the Triangle Universities Nuclear Laboratory. The first and second order Birks' constants are extracted from the data, and found to be $k_B = (8.70 \pm 0.93)\times 10^{-3}\ {\rm g/cm^2/MeV}$ and $k_C = (1.42 \pm 1.00) \times 10^{-5}\ {\rm (g/cm^2/MeV)^2}$. This result covers a unique energy range that is of direct relevance for fast neutron backgrounds in reactor inverse beta decay detectors. Furthermore, these measurements will improve the energy non-linearity modeling of plastic scintillator detectors. In particular, the updated energy response model will lead to an improvement of fast neutron modeling for detectors based on the CHANDLER reactor neutrino detector technology.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Beam delivery and beamstrahlung considerations for ultra-high energy linear colliders

As part of the Snowmass'21 community planning excercise, the Advanced Accelerator Concepts (AAC) community proposed future linear colliders with center-of-mass energies up to 15 TeV and luminosities up to 50 × 1034 cm -2 s -1 in a compact footprint. In addition to being compact, these machines must also be energy efficient. We identify two challenges that must be addressed in the design of these machines. First, the Beam Delivery System (BDS) must not add significant length to the accelerator complex. Second, beam parameters must be chosen to mitigate beamstrahlung effects and maximize the luminosity-per-power of the machine. In this paper, we review advances in plasma lens technology that will help to reduce the length of the BDS system, and we detail new Particle-in-Cell simulation studies that will provide insight into beamstrahlung mitigation techniques. We apply our analysis to both $e$ + $e$ - and $γγ$ colliders. The challenges and solutions described in this paper are considered independently. In conclusion, a unified, self-consistent concept for a BDS system for a 15 TeV linear collider will be the subject of future work.

47 OTHER INSTRUMENTATION↗

Geometric conditions for saturating the data processing inequality

Abstract The data processing inequality (DPI) is a scalar inequality satisfied by distinguishability measures on density matrices. For some distinguishability measures, saturation of the scalar DPI implies an operator equation relating the arguments of the measure. These results are typically derived using functional analytic techniques. In a complementary approach, we use geometric techniques to derive a formula that gives an operator equation from DPI saturation for any distinguishability measure; moreover, for a broad class of distinguishability measures, the derived operator equation is sufficient to imply saturation as well. Our operator equation coincides with known results for the sandwiched Rényi relative entropies, and gives new results for α - z Rényi relative entropies and a family of of quantum f -divergences, which we compute explicitly.

Physics↗

A large interlaboratory electron diffraction study of monolayer graphene

Standardisation of data collection and analysis is essential to enable commercialisation of 2D materials in a wide range of technologies. Selected area electron diffraction (SAED) in the transmission electron microscope (TEM) is one of the key methods for distinguishing monolayer from bilayer and few-layer graphene by comparing the 1st and 2nd order diffraction spot intensities. Yet there are many factors that can affect the reliability of data collection and interpretation, causing the measurement of monolayer samples to deviate from the literature boundary condition of $I_{\{\bar{2}110\}}$$/$$I_{\{1\bar{1}00\}}$ < 1 for monolayer graphene (1LG). Here we present the results of a large interlaboratory SAED comparison study, where 15 international laboratories measured and analysed nominally identical samples of chemical vapour deposited graphene. Large variations were observed in the measured ratios of diffraction spot intensities, with the largest variance associated with poor quality SAED data resulting from inadequate specimen handling and storage. To inform the reliable determination of monolayer thickness from SAED patterns we provide a description of best practice for specimen handling, TEM operation, data collection and analysis. This work was undertaken within VAMAS Technical Working Area 41: Graphene and related 2D materials—Project 9, the results of which have been directly incorporated into ISO/TS 21356–2 for the characterisation of graphene sheets. We find that when this methodology is followed, 1LG can be distinguished from bilayer or thicker material with high confidence where analysis of a single SAED pattern gives $I_{\{\bar{2}110\}}$$/$$I_{\{1\bar{1}00\}}$ < 1.2, even in the absence of precise specimen tilting.

2D materials↗

Matter-wave Atomic Gradiometer Interferometric Sensor (MAGIS-100)

MAGIS-100 is a next-generation quantum sensor under construction at Fermilab that aims to explore fundamental physics with atom interferometry over a 100 m baseline. This novel detector will search for ultralight dark matter, test quantum mechanics in new regimes, and serve as a technology pathfinder for future gravitational wave detectors in a previously unexplored frequency band. It combines techniques demonstrated in state-of-the-art 10-meter-scale atom interferometers with the latest technological advances of the world’s best atomic clocks. MAGIS-100 will provide a development platform for a future kilometer-scale detector that would be sufficiently sensitive to detect gravitational waves from known sources. Here we present the science case for the MAGIS concept, review the operating principles of the detector, describe the instrument design, and study the detector systematics.

47 OTHER INSTRUMENTATION↗

Combining compositional data sets introduces error in covariance network reconstruction

Microbial communities are diverse biological systems that include taxa from across multiple kingdoms of life. Notably, interactions between bacteria and fungi play a significant role in determining community structure. However, these statistical associations across kingdoms are more difficult to infer than intra-kingdom associations due to the nature of the data involved using standard network inference techniques. We quantify the challenges of cross-kingdom network inference from both theoretical and practical points of view using synthetic and real-world microbiome data. We detail the theoretical issue presented by combining compositional data sets drawn from the same environment, e.g. 16S and ITS sequencing of a single set of samples, and we survey common network inference techniques for their ability to handle this error. We then test these techniques for the accuracy and usefulness of their intra- and inter-kingdom associations by inferring networks from a set of simulated samples for which a ground-truth set of associations is known. We show that while the two methods mitigate the error of cross-kingdom inference, there is little difference between techniques for key practical applications including identification of strong correlations and identification of possible keystone taxa (i.e. hub nodes in the network). Furthermore, we identify a signature of the error caused by transkingdom network inference and demonstrate that it appears in networks constructed using real-world environmental microbiome data.

59 BASIC BIOLOGICAL SCIENCES↗

Increasing aggregate size reduces single-cell organic carbon incorporation by hydrogel-embedded wetland microbes

Abstract Microbial degradation of organic carbon in sediments is impacted by the availability of oxygen and substrates for growth. To better understand how particle size and redox zonation impact microbial organic carbon incorporation, techniques that maintain spatial information are necessary to quantify elemental cycling at the microscale. In this study, we produced hydrogel microspheres of various diameters (100, 250, and 500 μm) and inoculated them with an aerobic heterotrophic bacterium isolated from a freshwater wetland (Flavobacterium sp.), and in a second experiment with a microbial community from an urban lacustrine wetland. The hydrogel-embedded microbial populations were incubated with 13C-labeled substrates to quantify organic carbon incorporation into biomass via nanoSIMS. Additionally, luminescent nanosensors enabled spatially explicit measurements of oxygen concentrations inside the microspheres. The experimental data were then incorporated into a reactive-transport model to project long-term steady-state conditions. Smaller (100 μm) particles exhibited the highest microbial cell-specific growth per volume, but also showed higher absolute activity near the surface compared to the larger particles (250 and 500 μm). The experimental results and computational models demonstrate that organic carbon availability was not high enough to allow steep oxygen gradients and as a result, all particle sizes remained well-oxygenated. Our study provides a foundational framework for future studies investigating spatially dependent microbial activity in aggregates using isotopically labeled substrates to quantify growth.

59 BASIC BIOLOGICAL SCIENCES↗

Radioactive nuclei in the early Solar system: analysis of the 15 isotopes produced by core-collapse supernovae

Short-lived radioactive isotopes (SLRs) with half-lives between 0.1 and 100 Myr can be used to probe the origin of the Solar system. In this work, we examine the core-collapse supernovae production of the 15 SLRs produced: 26 Al, 36 Cl, 41 Ca, 53 Mn, 60 Fe, 92 Nb, 97 Tc, 98 Tc, 107 Pd, 126 Sn, 129 I, 135 Cs, 146 Sm, 182 Hf, and 205 Pb. Here, we probe the impact of the uncertainties of the core-collapse explosion mechanism by examining a collection of 62 core-collapse models with initial masses of 15, 20, and 25 M ⊙ , explosion energies between 3.4 × 10 50 and 1.8 × 10 52 erg and compact remnant masses between 1.5 and 4.89 M ⊙ . We identify the impact of both explosion energy and remnant mass on the final yields of the SLRs. Isotopes produced within the innermost regions of the star, such as 92 Nb and 97 Tc, are the most affected by the remnant mass, 92 Nb varying by five orders of magnitude. Isotopes synthesized primarily in explosive C-burning and explosive He-burning, such as 60 Fe, are most affected by explosion energies. 60 Fe increases by two orders of magnitude from the lowest to the highest explosion energy in the 15 M ⊙ model. The final yield of each examined SLR is used to compare to literature models.

79 ASTRONOMY AND ASTROPHYSICS↗

The DEHVILS survey overview and initial data release: high-quality near-infrared Type Ia supernova light curves at low redshift

ABSTRACT While the sample of optical Type Ia supernova (SN Ia) light curves (LCs) usable for cosmological parameter measurements surpasses 2000, the sample of published, cosmologically viable near-infrared (NIR) SN Ia LCs, which have been shown to be good ‘standard candles,’ is still ≲ 200. Here, we present high-quality NIR LCs for 83 SNe Ia ranging from 0.002 < z < 0.09 as a part of the Dark Energy, H0, and peculiar Velocities using Infrared Light from Supernovae (DEHVILS) survey. Observations are taken using UKIRT’s WFCAM, where the median depth of the images is 20.7, 20.1, and 19.3 mag (Vega) for Y, J, and H-bands, respectively. The median number of epochs per SN Ia is 18 for all three bands (Y,J, and H) combined and 6 for each band individually. We fit 47 SN Ia LCs that pass strict quality cuts using three LC models, SALT3, snoopy, and B ayeSN and find scatter on the Hubble diagram to be comparable to or better than scatter from optical-only fits in the literature. Fitting NIR-only LCs, we obtain standard deviations ranging from 0.128 to 0.135 mag. Additionally, we present a refined calibration method for transforming 2MASS magnitudes to WFCAM magnitudes using HST CALSPEC stars that results in a 0.03 mag shift in the WFCAM Y-band magnitudes.

Astronomy & Astrophysics↗

Asteroseismological analysis of the polluted ZZ Ceti star G 29 – 38 with TESS

G29 – 38 (TIC 422526868) is one of the brightest (V = 13.1) and closest (d = 17.51 pc) pulsating white dwarfs with a hydrogen-rich atmosphere (DAV/ZZ Ceti class). It was observed by the TESS spacecraft in sectors 42 and 56. The atmosphere of G 29 – 38 is polluted by heavy elements that are expected to sink out of visible layers on short time-scales. Here, the photometric TESS data set spans ~51 d in total, and from this, we identified 56 significant pulsation frequencies, that include rotational frequency multiplets. In addition, we identified 30 combination frequencies in each sector. The oscillation frequencies that we found are associated with g-mode pulsations, with periods spanning from ~ 260 to ~ 1400 s. We identified rotational frequency triplets with a mean separation δν ℓ = 1 of 4.67 μHz and a quintuplet with a mean separation δν ℓ = 2 of 6.67 μHz, from which we estimated a rotation period of about 1.35 ± 0.1 d. We determined a constant period spacing of 41.20 s for ℓ = 1 modes and 22.58 s for ℓ = 2 modes. We performed period-to-period fit analyses and found an asteroseismological model with M * /M ⊙ = 0.632 ± 0.03, K, and log g = 8.048 ± 0.005 (with a hydrogen envelope mass of M H ~ 5.6 × 10 –5 M * ), in good agreement with the values derived from spectroscopy. We obtained an asteroseismic distance of 17.54 pc, which is in excellent agreement with that provided by Gaia (17.51 pc).

79 ASTRONOMY AND ASTROPHYSICS↗

The hyperplane of early-type galaxies: using stellar population properties to increase the precision and accuracy of the fundamental plane as a distance indicator

ABSTRACT We use deep spectroscopy from the SAMI (Sydney-AAO Multi-object Integral) Galaxy Survey to explore the precision of the fundamental plane (FP) of early-type galaxies as a distance indicator for future single-fibre spectroscopy surveys. We study the optimal trade-off between sample size and signal-to-noise ratio (SNR), and investigate which additional observables can be used to construct hyperplanes with smaller intrinsic scatter than the FP. We add increasing levels of random noise (parametrized as effective exposure time) to the SAMI spectra to study the effect of increasing measurement uncertainties on the FP- and hyperplane-inferred distances. We find that, using direct-fit methods, the values of the FP and hyperplane best-fitting coefficients depend on the spectral SNR, and reach asymptotic values for a mean $\langle \mathrm{ SNR} \rangle =40\, \mathrm{\mathring{\rm A}}^{-1}$. As additional variables for the FP we consider three stellar-population observables: light-weighted age, stellar mass-to-light ratio, and a novel combination of Lick indices ($I_\mathrm{age}$). For an $\langle \mathrm{ SNR} \rangle =45~\mathrm{\mathring{\rm A}}^{-1}$ (equivalent to 1-h exposure on a 4-m telescope), all three hyperplanes outperform the FP as distance indicators. Being an empirical spectral index, $I_\mathrm{age}$ avoids the model-dependent uncertainties and bias underlying age and mass-to-light ratio measurements, yet yields a 10 per cent reduction of the median distance uncertainty compared to the FP. We also find that, as a by-product, the $I_\mathrm{age}$ hyperplane removes most of the reported environment bias of the FP. After accounting for the different SNR, these conclusions also apply to a 50 times larger sample from SDSS-III (Sloan Digital Sky Survey). However, in this case, only $\mathrm{ age}$ removes the environment bias.

D’Eugenio, Francesco (ORCID:0000000323888172)↗

Impact of survey spatial variability on galaxy redshift distributions and the cosmological 3 × 2-point statistics for the Rubin Legacy Survey of Space and Time (LSST)

We investigate the impact of spatial survey non-uniformity on the galaxy redshift distributions for forthcoming data releases of the Rubin Observatory Legacy Survey of Space and Time (LSST). Specifically, we construct a mock photometry data set degraded by the Rubin OpSim observing conditions, and estimate photometric redshifts of the sample using a template-fitting photo-z estimator, BPZ, and a machine learning method, FlexZBoost. We select the Gold sample, defined as $i\lt 25.3$ for 10 yr LSST data, with an adjusted magnitude cut for each year and divide it into five tomographic redshift bins for the weak lensing lens and source samples. We quantify the change in the number of objects, mean redshift, and width of each tomographic bin as a function of the coadd i-band depth for 1-yr (Y1), 3-yr (Y3), and 5-yr (Y5) data. In particular, Y3 and Y5 have large non-uniformity due to the rolling cadence of LSST, hence provide a worst-case scenario of the impact from non-uniformity. We find that these quantities typically increase with depth, and the variation can be $10\!-\!40~{{\rm per\ cent}}$ at extreme depth values. Using Y3 as an example, we propagate the variable depth effect to the weak lensing $3\times 2$ pt analysis, and assess the impact on cosmological parameters via a Fisher forecast. We find that galaxy clustering is most susceptible to variable depth, and non-uniformity needs to be mitigated below 3 per cent to recover unbiased cosmological constraints. There is little impact on galaxy–shear and shear–shear power spectra, given the expected LSST Y3 noise.

cosmology↗

Extending the chemical reach of the H3 survey: detailed abundances of the dwarf-galaxy stellar stream Wukong/LMS-1

ABSTRACT We present the first detailed chemical-abundance analysis of stars from the dwarf-galaxy stellar stream Wukong/LMS-1 covering a wide metallicity range ($-3.5 \lt \rm [Fe/H] \lesssim -1.3$). We find abundance patterns that are effectively indistinguishable from the bulk of Indus and Jhelum, a pair of smaller stellar streams proposed to be dynamically associated with Wukong/LMS-1. We confirmed a carbon-enhanced metal-poor star ($\rm [C/Fe] \gt +0.7$ and $\rm [Fe/H] \sim -2.9$) in Wukong/LMS-1 with strong enhancements in Sr, Y, and Zr, which is peculiar given its solar-level [Ba/Fe]. Wukong/LMS-1 stars have high abundances of α elements up to $\rm [Fe/H] \gtrsim -2$, which is expected for relatively massive dwarfs. Towards the high-metallicity end, Wukong/LMS-1 becomes α-poor, revealing that it probably experienced fairly standard chemical evolution. We identified a pair of N- and Na-rich stars in Wukong/LMS-1, reminiscent of multiple stellar populations in globular clusters. This indicates that this dwarf galaxy contained at least one globular cluster that was completely disrupted in addition to two intact ones previously known to be associated with Wukong/LMS-1, which is possibly connected to similar evidence found in Indus. From these ≥3 globular clusters, we estimate the total mass of Wukong/LMS-1 to be ${\approx }10^{10} \, \mathrm{M}_\odot$, representing ∼1 per cent of the present-day Milky Way. Finally, the [Eu/Mg] ratio in Wukong/LMS-1 continuously increases with metallicity, making this the first example of a dwarf galaxy where the production of r-process elements is clearly dominated by delayed sources, presumably neutron-star mergers.

Limberg, Guilherme (ORCID:0000000292698287)↗

RNAcentral 2021: secondary structure integration, improved sequence search and new member databases

RNAcentral is a comprehensive database of non-coding RNA (ncRNA) sequences that provides a single access point to 44 RNA resources and >18 million ncRNA sequences from a wide range of organisms and RNA types. RNAcentral now also includes secondary (2D) structure information for >13 million sequences, making RNAcentral the world’s largest RNA 2D structure database. The 2D diagrams are displayed using R2DT, a new 2D structure visualization method that uses consistent, reproducible and recognizable layouts for related RNAs. The sequence similarity search has been updated with a faster interface featuring facets for filtering search results by RNA type, organism, source database or any keyword. This sequence search tool is available as a reusable web component, and has been integrated into several RNAcentral member databases, including Rfam, miRBase and snoDB. To allow for a more fine-grained assignment of RNA types and subtypes, all RNAcentral sequences have been annotated with Sequence Ontology terms. The RNAcentral database continues to grow and provide a central data resource for the RNA community. RNAcentral is freely available at https://rnacentral.org.

59 BASIC BIOLOGICAL SCIENCES↗

MIBiG 3.0: a community-driven effort to annotate experimentally validated biosynthetic gene clusters

Abstract With an ever-increasing amount of (meta)genomic data being deposited in sequence databases, (meta)genome mining for natural product biosynthetic pathways occupies a critical role in the discovery of novel pharmaceutical drugs, crop protection agents and biomaterials. The genes that encode these pathways are often organised into biosynthetic gene clusters (BGCs). In 2015, we defined the Minimum Information about a Biosynthetic Gene cluster (MIBiG): a standardised data format that describes the minimally required information to uniquely characterise a BGC. We simultaneously constructed an accompanying online database of BGCs, which has since been widely used by the community as a reference dataset for BGCs and was expanded to 2021 entries in 2019 (MIBiG 2.0). Here, we describe MIBiG 3.0, a database update comprising large-scale validation and re-annotation of existing entries and 661 new entries. Particular attention was paid to the annotation of compound structures and biological activities, as well as protein domain selectivities. Together, these new features keep the database up-to-date, and will provide new opportunities for the scientific community to use its freely available data, e.g. for the training of new machine learning models to predict sequence-structure-function relationships for diverse natural products. MIBiG 3.0 is accessible online at https://mibig.secondarymetabolites.org/.

59 BASIC BIOLOGICAL SCIENCES↗