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KBase Narrative - Porphyromonadaceae sp. W3.11 genome

Narratives for The phenotype and genotype of fermentative prokaryotes This is the Narrative for Porphyromonadaceae sp. W3.11. A complementary Narrative for Lachnospiraceae sp. C1.1 is available here. This is the Narrative for Lachnospiraceae sp. C1.1. A complementary Narrative for Porphyromonadaceae sp. W3.11 is available here. Background and Isolation This Narrative and its complementary Narrative contain assembly and annotation of two bacterial isolates that were isolated by our laboratory from the rumen of a Holstein heifer. All procedures with animals have been approved by University of California Davis’s Institutional Animal Care and Use Committee. Rumen contents were collected through a rumen fistula and strained through two layers of cheesecloth into a bottle. The bottle was sealed to exclude air and maintained at 39°C. Contents were brought to the laboratory and bubbled under O2-free CO2 within 15 min. At the laboratory, serial dilutions were made with anaerobic dilution solution for Lachnospiraceae sp. C1.1 and propionibacterium diluent for Porphyromonadaceae sp. W3.11 (table S2). Aliquots (0.1 ml) of each dilution were injected into anaerobic bottle plates (1) containing 9 ml of LH medium (table S2). After incubation at 37°C for 7 days, isolated colonies were picked. Lachnospiraceae sp. C1.1 was picked from a bottle inoculated with a 104 dilution of rumen contents, and Porphyromonadaceae sp. W3.11 was picked from a bottle inoculated with a 103 dilution. After initial isolation, these organisms were purified by growing on anaerobic roll tubes (2) and picking isolated colonies. We performed de novo sequencing of Lachnospiraceae sp. C1.1 and Porphyromonadaceae sp. W3.11. Aliquots of liquid culture (9 and 1.5 ml, respectively) were collected by syringe and centrifuged (21,000g for 10 min at 4°C). Cell pellets were submitted to Molecular Research LP for DNA extraction, library preparation, and sequencing. After resuspending pellets in 180 µl of ATL buffer (Qiagen), DNA was extracted using the MagAttract HMW DNA Kit (Qiagen). DNA was eluted in 100 µl of AE buffer (Qiagen) and then cleaned using the DNEasy PowerClean Pro Cleanup Kit (Qiagen). DNA was then sheared using the Covaris g-TUBE (Covaris). Sequencing libraries were prepared using the SMRTbell Express Template Prep Kit 2.0 (Pacific Biosciences) and 1500 ng of the sheared and purified DNA. The SMRTbell libraries were size-selected (>6 Kb) using a BluePippin instrument (Sage Science) and 0.75% agarose gel. Libraries were then sequenced using the PacBio Sequel II (Pacific Biosciences) platform and a 30-hour movie time. Narrative Summary In these Narratives, we filtered low-quality reads using Trimmomatic (v0.36), assembled filtered reads with SPAdes (v3.15.3), and then checked completeness and contamination of the assembled genomes with CheckM (v1.0.18). Statistics for sequencing and assembly are in table S3. Using the assembled contigs (genomes), we called genes and annotated them. Protein-coding genes were called using Prodigal (v2.6.3) (3) locally or using KBase via RASTtk (v1.073), with identical results. Genes were annotated with KO IDs using KAAS (4). They were further annotated with pfam and TIGRFAM IDs using KBase and the Annotate Domains in a Genome app. We classified putative genes for hydrogenases using HydDB. Genes for 16S ribosomal RNA (rRNA) were called using RASTtk (v1.073) in KBase. The contigs (genomes) were analyzed to determine whether they belonged to new species. Taxonomy was assigned using GTDB-Tk (v1.7.0) in KBase. The identity of 16S rRNA genes to other organisms was found using EzBioCloud (5). Values of digital DNA-DNA hybridization (dDDH) were found with Type (Strain) Genome Server (6). These analyses suggest that Lachnospiraceae sp. C1.1 and Porphyromonadaceae sp. W3.11 represent novel species or genera. GTDB-Tk assigned Lachnospiracae sp. C1.1 to family Lachnospiraceae and genus NK4A144, which contains no type strains. It assigned Porphyromonadaceae sp. W3.11 to Porphyromonadaceae and genus Porphyromonas_A. Values of 16S rRNA identity and dDDH with respect to type strains were low (table S4). Although more phenotypic data are needed, available evidence supports assignment of genomes to new species or genera. Related publication Hackmann TJ, Zhang B. The phenotype and genotype of fermentative prokaryotes. Sci Adv. 2023 Sep 29;9(39):eadg8687. doi: 10.1126/sciadv.adg8687. Epub 2023 Sep 27. PMID: 37756392; PMCID: PMC10530074.

Hackmann, Timothy↗

KBase Narrative - Lachnospiraceae sp. C1.1 genome

Narratives for The phenotype and genotype of fermentative prokaryotes This is the Narrative for Porphyromonadaceae sp. W3.11. A complementary Narrative for Lachnospiraceae sp. C1.1 is available here. This is the Narrative for Lachnospiraceae sp. C1.1. A complementary Narrative for Porphyromonadaceae sp. W3.11 is available here. Background and Isolation This Narrative and its complementary Narrative contain assembly and annotation of two bacterial isolates that were isolated by our laboratory from the rumen of a Holstein heifer. All procedures with animals have been approved by University of California Davis’s Institutional Animal Care and Use Committee. Rumen contents were collected through a rumen fistula and strained through two layers of cheesecloth into a bottle. The bottle was sealed to exclude air and maintained at 39°C. Contents were brought to the laboratory and bubbled under O2-free CO2 within 15 min. At the laboratory, serial dilutions were made with anaerobic dilution solution for Lachnospiraceae sp. C1.1 and propionibacterium diluent for Porphyromonadaceae sp. W3.11 (table S2). Aliquots (0.1 ml) of each dilution were injected into anaerobic bottle plates (1) containing 9 ml of LH medium (table S2). After incubation at 37°C for 7 days, isolated colonies were picked. Lachnospiraceae sp. C1.1 was picked from a bottle inoculated with a 104 dilution of rumen contents, and Porphyromonadaceae sp. W3.11 was picked from a bottle inoculated with a 103 dilution. After initial isolation, these organisms were purified by growing on anaerobic roll tubes (2) and picking isolated colonies. We performed de novo sequencing of Lachnospiraceae sp. C1.1 and Porphyromonadaceae sp. W3.11. Aliquots of liquid culture (9 and 1.5 ml, respectively) were collected by syringe and centrifuged (21,000g for 10 min at 4°C). Cell pellets were submitted to Molecular Research LP for DNA extraction, library preparation, and sequencing. After resuspending pellets in 180 µl of ATL buffer (Qiagen), DNA was extracted using the MagAttract HMW DNA Kit (Qiagen). DNA was eluted in 100 µl of AE buffer (Qiagen) and then cleaned using the DNEasy PowerClean Pro Cleanup Kit (Qiagen). DNA was then sheared using the Covaris g-TUBE (Covaris). Sequencing libraries were prepared using the SMRTbell Express Template Prep Kit 2.0 (Pacific Biosciences) and 1500 ng of the sheared and purified DNA. The SMRTbell libraries were size-selected (>6 Kb) using a BluePippin instrument (Sage Science) and 0.75% agarose gel. Libraries were then sequenced using the PacBio Sequel II (Pacific Biosciences) platform and a 30-hour movie time. Narrative Summary In these Narratives, we filtered low-quality reads using Trimmomatic (v0.36), assembled filtered reads with SPAdes (v3.15.3), and then checked completeness and contamination of the assembled genomes with CheckM (v1.0.18). Statistics for sequencing and assembly are in table S3. Using the assembled contigs (genomes), we called genes and annotated them. Protein-coding genes were called using Prodigal (v2.6.3) (3) locally or using KBase via RASTtk (v1.073), with identical results. Genes were annotated with KO IDs using KAAS (4). They were further annotated with pfam and TIGRFAM IDs using KBase and the Annotate Domains in a Genome app. We classified putative genes for hydrogenases using HydDB. Genes for 16S ribosomal RNA (rRNA) were called using RASTtk (v1.073) in KBase. The contigs (genomes) were analyzed to determine whether they belonged to new species. Taxonomy was assigned using GTDB-Tk (v1.7.0) in KBase. The identity of 16S rRNA genes to other organisms was found using EzBioCloud (5). Values of digital DNA-DNA hybridization (dDDH) were found with Type (Strain) Genome Server (6). These analyses suggest that Lachnospiraceae sp. C1.1 and Porphyromonadaceae sp. W3.11 represent novel species or genera. GTDB-Tk assigned Lachnospiracae sp. C1.1 to family Lachnospiraceae and genus NK4A144, which contains no type strains. It assigned Porphyromonadaceae sp. W3.11 to Porphyromonadaceae and genus Porphyromonas_A. Values of 16S rRNA identity and dDDH with respect to type strains were low (table S4). Although more phenotypic data are needed, available evidence supports assignment of genomes to new species or genera. Related publication Hackmann TJ, Zhang B. The phenotype and genotype of fermentative prokaryotes. Sci Adv. 2023 Sep 29;9(39):eadg8687. doi: 10.1126/sciadv.adg8687. Epub 2023 Sep 27. PMID: 37756392; PMCID: PMC10530074.

Hackmann, Timothy↗

Assembly of Colloidal Materials Using Bioadhesive Interactions

We have pursued the use of biological crosslinking molecules of several types to make colloidal materials at relatively low volume fraction of colloidal particles. The objective is to make binary alloys of colloidal particles, made of two different colloidal particles coated with complementary biological lock-and-key binding molecules, which assemble due to the biological specificity. The long-term goal is to use low affinity lock-and-key biological interactions, so that the can anneal to form crystalline states. We have used a variety of different surface chemistries in order to make colloidal materials. Our first system involved using selectin-carbohydrate (sialyl-Lewis) interactions; this chemistry is derived from immune system. This chemical interaction is of relatively low affinity, with timescales for dissociation of several seconds. Furthermore, the adhesion mediated by these molecules can be reversed by the chelation of calcium atoms; thus assembled structures can be disassembled reversibly. Our second system employed avidin-biotin chemistry. This well-studied system is of high affinity, and is generally irreversible on a laboratory time-scale. Thus, we would expect selectin-carbohydrate interactions at high molecular density and avidin-biotin interactions to give kinetically-trapped structures; however, at low densities, we would expect significant differences in the structure and dynamics of the two materials, owing to their very different release rates. We have also begun to use a third chemistry - DNA hybridization. By attaching single stranded DNA oligonucleotide chains to beads, we can drive the assembly of colloidal materials by hybridization of complementary DNA chains. It is well known that DNA adenosine-thymine (A-T) and guanine-cytosine (G-C) bases hybridize pairwise with a Gibbs free energy change of 1.7 kcal/mol per base; thus, the energy of the assembly can be modulated by altering the number of complementary bases in the DNA chains. Using these different crosslinking molecules, we have assembled colloidal materials from different-sized colloidal particles, A and B. In the first sets of experiment, we used high densities of adhesion molecules, and 0.96 micron (A) and 5.5 micron (B) diameter particles. The high density of adhesion molecules means that the structures are kinetically trapped in nonequilibrium configurations. The structure of the suspension can be varied by changing the number ratio of the two types of colloidal particles, NA and NB, where A is the smaller particle. With carbohydrate-selectin or avidin-biotin interactions, large NA/NB leads to the formation of colloidal micelles, with the large center B particle surrounded by many smaller A particles. As the ratio NA/NB decreases, the structures become more extended, approaching the formation of macro-Rouse polymers - extended linear chains where A beads are connected with intervening small B linkers.

Hammer, Daniel A.↗

Fully Associative, Nonisothermal, Potential-Based Unified Viscoplastic Model for Titanium-Based Matrices

A number of titanium matrix composite (TMC) systems are currently being investigated for high-temperature air frame and propulsion system applications. As a result, numerous computational methodologies for predicting both deformation and life for this class of materials are under development. An integral part of these methodologies is an accurate and computationally efficient constitutive model for the metallic matrix constituent. Furthermore, because these systems are designed to operate at elevated temperatures, the required constitutive models must account for both time-dependent and time-independent deformations. To accomplish this, the NASA Lewis Research Center is employing a recently developed, complete, potential-based framework. This framework, which utilizes internal state variables, was put forth for the derivation of reversible and irreversible constitutive equations. The framework, and consequently the resulting constitutive model, is termed complete because the existence of the total (integrated) form of the Gibbs complementary free energy and complementary dissipation potentials are assumed a priori. The specific forms selected here for both the Gibbs and complementary dissipation potentials result in a fully associative, multiaxial, nonisothermal, unified viscoplastic model with nonlinear kinematic hardening. This model constitutes one of many models in the Generalized Viscoplasticity with Potential Structure (GVIPS) class of inelastic constitutive equations.

Source record↗

Closed-form integrator for the quaternion (euler angle) kinematics equations

The invention is embodied in a method of integrating kinematics equations for updating a set of vehicle attitude angles of a vehicle using 3-dimensional angular velocities of the vehicle, which includes computing an integrating factor matrix from quantities corresponding to the 3-dimensional angular velocities, computing a total integrated angular rate from the quantities corresponding to a 3-dimensional angular velocities, computing a state transition matrix as a sum of (a) a first complementary function of the total integrated angular rate and (b) the integrating factor matrix multiplied by a second complementary function of the total integrated angular rate, and updating the set of vehicle attitude angles using the state transition matrix. Preferably, the method further includes computing a quanternion vector from the quantities corresponding to the 3-dimensional angular velocities, in which case the updating of the set of vehicle attitude angles using the state transition matrix is carried out by (a) updating the quanternion vector by multiplying the quanternion vector by the state transition matrix to produce an updated quanternion vector and (b) computing an updated set of vehicle attitude angles from the updated quanternion vector. The first and second trigonometric functions are complementary, such as a sine and a cosine. The quantities corresponding to the 3-dimensional angular velocities include respective averages of the 3-dimensional angular velocities over plural time frames. The updating of the quanternion vector preserves the norm of the vector, whereby the updated set of vehicle attitude angles are virtually error-free.

Whitmore, Stephen A.↗

Broadband Microstrip-to-Coplanar Strip Double-Y Balun

A new version of the double-Y balun, transitioning from an unbalanced microstrip to a balanced coplanar strip (CPS) line, has been designed to feed a complementary spiral antenna with an input impedance of 100 Omega. The new double-Y balun transitions from a microstrip line with truncated ground plane to a CPS line. The balun does not employ CPW lines; hence, CPW bridges are not required at the junction. In addition, the balun does not exhibit CPW parasitic resonances, thereby improving passband performance. The new version of the double-Y balun is designed to feed a complementary spiral antenna. Panels on the right illustrate an expanded view of the balun junction. Preliminary voltage standing-wave ratio (VSWR) and insertion loss data are illustrated. Measured data were compared with numerical results computed using Momentum. It is seen that the balun exhibits a VSWR of less than 1.5 from 400 MHz to 8 GHz and a VSWR of less than 1.8 up to 13 GHz. The VSWR can be reduced further by reducing reflections from the balun junction and load resistor. Also, the balun is seen to exhibit an insertion loss of less than 1.5 dB up to 12 GHz. Further work involves characterizing the balun's performance when feeding a complementary spiral antenna.

Venkatesan, Jaikrishna↗

First Astronaut- Rover Interaction Field Test

The first Astronaut - Rover (ASRO) Interaction field test was conducted successfully on February 22-27, 1999, in Silver Lake, Mojave Desert, California in a representative planetary surface terrain. This test was a joint effort between the NASA Ames Research Center , Moffett Field, California and the NASA Johnson Space Center, Houston, Texas. As prototype advanced planetary surface space suit and rover technologies are being developed for human planetary surface exploration , it has been determined that it is important to better understand the potential interaction and benefits of an EVA astronaut interacting with a robotic rover . This interaction between an EVA astronaut and a robotic rover is seen as complementary and can greatly enhance the productivity and safety of surface excursions . This test also identified design requirements and options in an advanced space suit and robotic rover. The test objectives were: 1. To identify the operational domains where the EVA astronauts and rover are complementary and can interact and thus collaborate in a safe , productive and cost- effective way, 2. To identify preliminary requirements and recommendations for advanced space suits and rovers that facilitate their cooperative and complementary interaction, 3. To develop operational procedures for the astronaut-rover teams in the identified domains, 4. To test these procedures during representative mission scenarios during field tests by simulating the exploration of a planetary surface by an EVA crew interacting with a robotic rover, 5. To train a space suited test subject, simulated Earth-based and l or lander-based science teams, and robotic vehicle operators in mission configurations, and 6. To evaluate and understand socio-technical aspects of the astronaut - rover interaction experiment in order to guide future technologies and designs. Test results and areas for future research in the design of planetary space suits will be discussed .

Kosmo, Joseph J.↗

The THS Experiment: Simulating Titans Atmospheric Chemistry at Low Temperature (200K)

In Titan's atmosphere, composed mainly of N2 (95-98%) and CH4 (2-5%), a complex chemistry occurs at low temperature, and leads to the production of heavy organic molecules and subsequently solid aerosols. Here, we used the Titan Haze Simulation (THS) experiment, an experimental setup developed at the NASA Ames COSmIC simulation facility to study Titan's atmospheric chemistry at low temperature. In the THS, the chemistry is simulated by plasma in the stream of a supersonic expansion. With this unique design, the gas is cooled to Titan-like temperature ( approximately 150K) before inducing the chemistry by plasma, and remains at low temperature in the plasma discharge (approximately 200K). Different N2-CH4-based gas mixtures can be injected in the plasma, with or without the addition of heavier precursors present as trace elements on Titan, in order to monitor the evolution of the chemical growth. Both the gas- and solid phase products resulting from the plasma-induced chemistry can be monitored and analyzed using a combination of complementary in situ and ex situ diagnostics. A recent mass spectrometry[1] study of the gas phase has demonstrated that the THS is a unique tool to probe the first and intermediate steps of Titan's atmospheric chemistry at Titan-like temperature. In particular, the mass spectra obtained in a N2-CH4-C2H2-C6H6 mixture are relevant for comparison to Cassini's CAPS-IBS instrument. The results of a complementary study of the solid phase are consistent with the chemical growth evolution observed in the gas phase. Grains and aggregates form in the gas phase and can be jet deposited on various substrates for ex situ analysis. Scanning Electron Microscopy images show that more complex mixtures produce larger aggregates. A mass spectrometry analysis of the solid phase has detected the presence of aminoacetonitrile, a precursor of glycine, in the THS aerosols. X-ray Absorption Near Edge Structure (XANES) measurements also show the presence of imine and nitrile functional groups, showing evidence of nitrogen chemistry. These complementary studies show the high potential of THS to better understand Titan's chemistry and the origin of aerosol formation.

Laboratory↗

Performance Improvements for the Lunar Reconnaissance Orbiter Gyroless Extended Kalman Filter

In late 2017, the laser intensity monitor (LIM) current began to decline on the Lunar Reconnaissance Orbiter (LRO) miniature inertial measurement unit (MIMU). The MIMU was powered off in March 2018 and has only been used during extended eclipses, a pre-eclipse orbit phasing maneuver, and critical momentum unloads. Science slews were suspended, and the onboard extended Kalman filter (EKF) was disabled. A coarse rate was estimated through star tracker quaternion differentiation, and attitude was provided directly from a single star tracker. A complementary filter, combining the differentiated quaternions with the integrated acceleration derived from the attitude control torque, was developed, tested, and uploaded to the spacecraft in December 2018. The EKF has been enabled, using the complementary filter rate in place of the MIMU and science slews are now being performed. This paper presents an overview of the complementary filter rate estimation and EKF changes, fault detection updates without the MIMU, and inflight performance improvements.

Halverson, Julie↗

Radio frequency passband signal generation using photonics

Devices, methods and systems for generating wideband, high-fidelity arbitrary radio frequency (RF) passband signals are described. A voltage tunable optical filter for arbitrary RF passband signal generation includes a first input configured to receive a broadband optical pulse train, a second input configured to receive a first control voltage representative of an amplitude signal, an electrooptic modulator to receive the broadband optical pulse train and the first control voltage, to modulate the broadband optical pulse train in accordance with the amplitude signal, and to produce two complementary optical outputs that form two arms of an interferometer, an optical delay component to impart an optical path difference into one of the complementary outputs of the electrooptic modulator, and a combiner or a splitter to receive two complementary optical outputs of the electrooptic modulator after impartation of the optical path difference and to produce an output interference pattern of fringes.

Gowda, Apurva Shantharaj↗

Radio frequency passband signal generation using photonics

Devices, methods and systems for generating wideband, high-fidelity arbitrary radio frequency (RF) passband signals are described. A voltage tunable optical filter for arbitrary RF passband signal generation includes a first input configured to receive a broadband optical pulse train, a second input configured to receive a first control voltage representative of an amplitude signal, an electrooptic modulator to receive the broadband optical pulse train and the first control voltage, to modulate the broadband optical pulse train in accordance with the amplitude signal, and to produce two complementary optical outputs that form two arms of an interferometer, an optical delay component to impart an optical path difference into one of the complementary outputs of the electrooptic modulator, and a combiner or a splitter to receive two complementary optical outputs of the electrooptic modulator after impartation of the optical path difference and to produce an output interference pattern of fringes.

Gowda, Apurva Shantharaj↗

Zeolite‐Based Catalysts for Conversion of Oxygenated Polymer Waste by Positron Annihilation

Positron Annihilation Lifetime Spectroscopy (PALS) has been employed to investigate the catalysts HZSM-5 and MESO−Y, which play a pivotal role in catalyzing and upgrading plastics, with a primary focus on oxygenated polymers, thereby transforming existing plastic materials into simpler, higher-quality value-added products. Here, in this study, PALS was systematically compared with other complementary analytical techniques. The research outcomes have successfully demonstrated the efficacy of PALS in elucidating the morphology and topology of zeolites at micro/meso-meter scales. The first experiment focuses on H-ZSM-5 zeolite subjected to treatments involving polyurethane and polypropylene. The second experiment delves into H-ZSM-5 zeolites with varying Si/Al ratios, both before and after conversion. The third experiment investigates Y zeolites that are surfactant templated to induce meso-porosity, examining their fresh state as well as their post-conversion condition. The PALS analysis was supplemented by BET (Brunauer-Emmett-Teller) analysis and NMR (Nuclear Magnetic Resonance) spectroscopies. Notably, PALS exhibits superior sensitivity, at the sub-nanometer scale, suggesting its potential as a preferred complementary method for catalysis studies. In conclusion, the integration of PALS into the repertoire of analytical tools enhances our understanding of catalyst behavior and catalytic processes, offering valuable insights for the advancement of plastic recycling and catalysis research.

32 - ENERGY CONSERVATION, CONSUMPTION, AND UTILIZA↗

Gamma-Ray and Cosmic Ray Muon Modalities for Cargo Inspection

Screening and inspection of cargo containers are two essential methods to nondestructively examine the contents of shipment. These methods enable the detection of illicit transportation of unauthorized materials such as nuclear and radioactive materials, explosives, drugs, and so on, typically at borders or secure facilities. Although high-energy X-ray transmission is a standard system and is widely used for cargo inspection, the inherent challenges of high false-positive rates and high attenuation factors necessitate the development of complementary techniques that can increase the detection efficiency and accuracy in large and dense materials. Gamma-rays, which possess higher penetration characteristics because of their high energy, offer an alternative nonintrusive modality for cargo scanning. They represent a promising inspection method when compared to X-rays for three reasons: (1) improved ability to detect nuclear and radioactive materials, (2) higher inspection throughput rates, and (3) lower false-positive rates. Currently, there are two main gamma-ray inspection techniques, active and passive interrogation. Active interrogation can be further grouped into (1) gamma-ray transmission imaging and (2) neutron-induced gamma-ray emission detection. Gamma-ray transmission imaging utilizes differences in material densities for mapping the shipment contents and detecting anomalies. It is analogous to the X-ray transmission method; however, the high-energy photons make it more difficult to shield against, which enables more efficient performance in large and dense material inspection. Neutron-induced gamma-ray emission inspection is designed for the detection of nuclear and radioactive material because those materials emit characteristic gamma-rays when they are activated by neutron absorption. On the other hand, passive interrogation techniques rely on high-efficiency detectors to detect radiation emitted from hidden special nuclear or other radioactive materials. Similar to passive interrogation, cosmic ray muon monitoring and imaging are relatively new techniques that do not require external radioactive sources. These techniques have received attention as a potential next-generation radiographic probe to identify illicit transportation of nuclear and radioactive materials in cargo containers. Cosmic ray muons have unique features, (1) much higher energies than X-rays or gamma-rays (on the order of 10−1—104 GeV), (2) enhanced penetration capability, and (3) natural occurrence, thereby eliminating the need for induced radiation sources. These features enable cosmic ray muons to be utilized for detection of special nuclear materials in high-background-noise environments. By analyzing incoming and outgoing muon trajectories, scattering angles, and energies, it has been shown that it would be possible to locate hidden and well-shielded materials in cargo containers via three-dimensional muon tomography images or signal analysis. Gamma-rays, cosmic ray muons, and other nonintrusive cargo inspection modalities are complementary to each other, allowing them to address various cargo inspection conditions (i.e., scanning time, cost, radiation exposure level, and types of target materials). This chapter presents a detailed review of the theoretical fundamentals and technical principles behind the current gamma-ray and cosmic ray muon modalities for cargo inspection. Additionally, critical assessments and suggestions for the future directions to advance the use of gamma and muon modalities are discussed.

Bae, Junghyun↗

On ( g – 2) μ from gauged $\mathrm{U(1)_X}$

We investigate an economical explanation for the (g – 2) μ anomaly with a neutral vector boson from a spontaneously broken U(1) X gauge symmetry. The Standard Model fermion content is minimally extended by 3 right-handed neutrinos. Using a battery of complementary constraints, we perform a thorough investigation of the renormalizable, quark flavor-universal, vector-like U(1) X models, allowing for arbitrary kinetic mixing. Out of 419 models with integer charges not greater than ten, only 7 models are viable solutions, describing a narrow region in model space. These are either L μ – L τ or models with a ratio of electron to baryon number close to –2. The key complementary constraints are from the searches for nonstandard neutrino interactions. Furthermore, we comment on the severe challenges to chiral U(1) X solutions and show the severe constraints on a particularly promising such candidate.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Type-I 2HDM under the Higgs and electroweak precision measurements

We explore the extent to which future precision measurements of the Standard Model (SM) observables at the proposed Z -factories and Higgs factories may have impacts on new physics beyond the Standard Model, as illustrated by studying the Type-I Two-Higgs-doublet model (Type-I 2HDM). We include the contributions from the heavy Higgs bosons at the tree-level and at the one-loop level in a full model-parameter space. While only small tan β region is strongly constrained at tree level, the large tan β region gets constrained at loop level due to tan β enhanced tri-Higgs couplings. We perform a multiple variable χ 2 fit with non-alignment and non-degenerate masses. We find that the allowed parameter ranges could be tightly constrained by the future Higgs precision measurements, especially for small and large values of tan β . Indirect limits on the masses of heavy Higgs bosons can be obtained, which can be complementary to the direct searches of the heavy Higgs bosons at hadron colliders. We also find that the expected accuracies at the Z -pole and at a Higgs factory are quite complementary in constraining mass splittings of heavy Higgs bosons. The typical results are | cos( β - α ) | < 0 . 05 , | Δ m Φ | < 200 GeV, and tan β ≳ 0 . 3. The reaches from CEPC, Fcc-ee and ILC are also compared, for both Higgs and Z -pole precision measurements. Comparing to the Type-II 2HDM, the 95% C.L. allowed range of cos( β - α ) is larger, especially for large values of tan β .

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Expected sensitivity of the Light Dark Matter eXperiment to long-lived dark photons and axion-like particles

The Light Dark Matter eXperiment (LDMX) is an electron-beam fixed-target experiment primarily designed to achieve world-leading, model-independent sensitivity to sub-GeV dark matter particles. LDMX aims to identify dark sector particle production through the detection of events with substantial missing energy and momentum, a signature of invisible particles escaping detection. Beyond this primary objective, LDMX offers a complementary search strategy for long-lived, visibly decaying particles, such as dark photons and axion-like particles. We present the first detailed evaluation of the ability of LDMX to identify visibly decaying, long-lived particles that couple to electrons using a detailed simulation, based on the Geant 4-toolkit, that incorporates realistic detection efficiencies and background levels. We demonstrate that LDMX can achieve a sensitivity that is competitive with other experiments that are currently running. The models explored in this paper are distinct and complementary to those probed in the LDMX flagship missing-momentum analysis. Through searching for both invisible dark matter and visibly decaying long-lived signatures, LDMX will significantly advance the search for light dark matter and provide a broad exploration of the sub-GeV dark sector.[graphic not available: see fulltext]

Akesson, Torsten [Lund U.] (ORCID:0000000341415408↗

Holographic measurement and bulk teleportation

Holography has taught us that spacetime is emergent and its properties depend on the entanglement structure of the dual theory. In this paper, we describe how changes in the entanglement due to a local projective measurement (LPM) on a subregion A of the boundary theory modify the bulk dual spacetime. We find that LPMs destroy portions of the bulk geometry, yielding post-measurement bulk spacetimes dual to the complementary unmeasured region A c that are cut off by end-of-the-world branes. Using a bulk calculation in AdS 3 and tensor network models of holography (in particular, the HaPPY code and random tensor networks), we show that the portions of the bulk geometry that are preserved after the measurement depend on the size of A and the state we project onto. The post-measurement bulk dual to A c includes regions that were originally part of the entanglement wedge of A prior to measurement. This suggests that LPMs performed on a boundary subregion A teleport part of the bulk information originally encoded in A into the complementary region A c . In semiclassical holography an arbitrary amount of bulk information can be teleported in this way, while in tensor network models the teleported information is upper-bounded by the amount of entanglement shared between A and A c due to finite-N effects. When A is the union of two disjoint subregions, the measurement triggers an entangled/disentangled phase transition between the remaining two unmeasured subregions, corresponding to a connected/disconnected phase transition in the bulk description. Our results shed new light on the effects of measurement on the entanglement structure of holographic theories and give insight on how bulk information can be manipulated from the boundary theory. They could also represent a first step towards a holographic description of measurement-induced phase transitions.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Fluorinated ionic liquids as gas chromatographic stationary phases for the separation of volatile per- and polyfluoroalkyl substances

Background Here, the production of fluorinated organic compounds in the manufacturing, semiconductor, and pharmaceutical industries has increased exponentially over the past decade. This rapid growth has created an urgent need for efficient chromatographic platforms capable of selectively separating these compounds from complex mixtures, not only to support industrial quality control and waste management practices, but also to enable reliable environmental monitoring of volatile fluorinated contaminants. Conventional GC stationary phases lack the fluorophilic interactions needed for highly fluorinated analytes. Consequently, there is a clear demand for specialized stationary phases designed to improve chromatographic retention and selectivity for these compounds. Results Three stationary phases composed of fluorinated ionic liquids (ILs) with varied extent of fluorination were prepared to study fluorophilic interactions with fluorinated/non-fluorinated probe molecules by gas chromatography (GC). IL stationary phases featuring linear and branched perfluoroalkyl moieties, as well as a branched alkyl moiety, were systematically investigated. Chromatographic performance was examined using fluorinated compounds and their hydrocarbon analogs, including CF 3 -substituted aromatics, aliphatic alcohols, fluorotelomer alcohols (FTOHs), and perfluoroalkenes. Measurements on 5 m and 20 m columns revealed that the IL possessing branched alkyl provided stronger dispersive and hydrogen bonding interactions toward non-fluorinated aromatic and long-chain alcohols, whereas the fluorinated ILs enhanced retention of highly fluorinated FTOHs and perfluorodecene. Comprehensive two-dimensional GC (GC × GC), using a nonpolar primary column coupled with secondary columns featuring cross-bonded poly(trifluoropropylmethyl siloxane) (Rtx-200 ms), the branched fluorinated IL, or the branched non-fluorinated IL, highlighted complementary selectivity with the branched fluorinated IL providing the strongest interactions with fluorinated analytes. Significance These results demonstrate that fluorinated IL stationary phases are promising alternatives to conventional polysiloxane stationary phases for improving the separation of per- and polyfluoroalkyl substances and related fluorinated compounds. By correlating IL structure with fluorophilic interactions, this work establishes design principles for GC stationary phases that enable enhanced selectivity for highly fluorinated analytes while maintaining complementary interactions with non-fluorinated compounds.

Comprehensive two-dimensional GC↗