Combination of the Searches for Pair-Produced Vectorlike Partners of the Third-Generation Quarks at s = 13 TeV with the ATLAS Detector
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72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
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Phylogenetic structure of specialization: A new approach that integrates partner availability and phylogenetic diversity to quantify biotic specialization in ecological networks
Abstract Biotic specialization holds information about the assembly, evolution, and stability of biological communities. Partner availabilities can play an important role in enabling species interactions, where uneven partner availabilities can bias estimates of biotic specialization when using phylogenetic diversity indices. It is therefore important to account for partner availability when characterizing biotic specialization using phylogenies. We developed an index, phylogenetic structure of specialization (PSS), that avoids bias from uneven partner availabilities by uncoupling the null models for interaction frequency and phylogenetic distance. We incorporate the deviation between observed and random interaction frequencies as weights into the calculation of partner phylogenetic α‐diversity. To calculate the PSS index, we then compare observed partner phylogenetic α‐diversity to a null distribution generated by randomizing phylogenetic distances among the same number of partners. PSS quantifies the phylogenetic structure (i.e., clustered, overdispersed, or random) of the partners of a focal species. We show with simulations that the PSS index is not correlated with network properties, which allows comparisons across multiple systems. We also implemented PSS on empirical networks of host–parasite, avian seed‐dispersal, lichenized fungi–cyanobacteria, and hummingbird pollination interactions. Across these systems, a large proportion of taxa interact with phylogenetically random partners according to PSS, sometimes to a larger extent than detected with an existing method that does not account for partner availability. We also found that many taxa interact with phylogenetically clustered partners, while taxa with overdispersed partners were rare. We argue that species with phylogenetically overdispersed partners have often been misinterpreted as generalists when they should be considered specialists. Our results highlight the important role of randomness in shaping interaction networks, even in highly intimate symbioses, and provide a much‐needed quantitative framework to assess the role that evolutionary history and symbiotic specialization play in shaping patterns of biodiversity. PSS is available as an R package at https://github.com/cjpardodelahoz/pss .
59 BASIC BIOLOGICAL SCIENCES↗
Global Precipitation Measurement: Benefits of Partnering with GPM Mission - Report 2
An important goal of the Global Precipitation Measurement (GPM) mission is to maximize participation by non-NASA partners both domestic and international. A consequence of this objective is the provision for NASA to provide sufficient incentives to achieve partner buy-in and commitment to the program. NASA has identified seven specific areas in which substantive incentives will be offered: (1) partners will be offered participation in governance of GPM mission science affairs including definition of data products; (2) partners will be offered use of NASA's TDRSS capability for uplink and downlink of commands and data in regards to partner provided spacecraft; (3) partners will be offered launch support for placing partner provided spacecraft in orbit conditional upon mutually agreeable co-manifest arrangements; (4) partners will be offered direct data access at the NASA-GPM server level rather than through standard data distribution channels; (5) partners will be offered the opportunity to serve as regional data archive and distribution centers for standard GPM data products; and (6) partners will be offered the option to insert their own specialized filtering and extraction software into the GPM data processing stream or to obtain specialized subsets and products over specific areas of interest (7) partners will be offered GPM developed software tools that can be run on their platforms. Each of these incentives, either individually or in combination, represents a significant advantage to partners who may wish to participate in the GPM mission.
Stocker, Erich F.↗
Loop induced single top partner production and decay at the LHC
Most searches for top partners, T , are concerned with top partner pair production. However, as these bounds become increasingly stringent, the LHC energy will saturate and single top partner production will become more important. In this paper we study the novel signature of the top partner produced in association with the SM top, p p →<!-- → --> T t ¯<!-- ¯ --> + t T ¯<!-- ¯ --> , in a model where the Standard Model (SM) is extended by a vector-like SU(2) L singlet fermion top partner and a real, SM gauge singlet scalar, S. In this model, p p →<!-- → --> T t ¯<!-- ¯ --> + t T ¯<!-- ¯ --> production is possible through loops mediated by the scalar singlet. We find that, with reasonable coupling strengths, the production rate of this channel can dominate top partner pair production at top partner masses of m T ≳ 1.5 TeV. In addition, this model allows for the exotic decay modes T → tg, T → tγ, and T → tS. In much of the parameter space the loop induced decay T → tg dominates and the top partner is quite long lived. New search strategies are necessary to cover these decay modes. We project the the sensitivity of the high luminosity LHC to p p →<!-- → --> T t ¯<!-- ¯ --> + t T ¯<!-- ¯ --> via a realistic collider study. We find with 3 ab -1 , the LHC is sensitive to this process for masses m T ≲ 2 TeV. In addition, we provide appendices detailing the renormalization of this model.
72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
NASAs Solar System Exploration Research Virtual Institute- Expanded Goals and More Partners
The NASA Solar System Exploration Research Virtual Institute (SSERVI) has been pursuing international partnerships since its inception as the NASA Lunar Science Institute (NLSI), in order to both leverage the science being done by its domestic member institutions as well as to help lunar science and exploration become a greater global endeavor. The international partners of the Institute have pursued a broad program of lunar science stimulated by scientific partnerships enabled by the SSERVI community. Furthermore, regional partnerships have been formed such as the new pan-European lunar science consortium, which promises both new scientific approaches and mission concepts. International partner membership requires long-term commitment from both the partner and SSERVI, together with tangible and specific plans for scientific interaction that will produce results of mutual benefit to both the institute's U.S. Teams and the international partner. International partners are invited to participate in all aspects of the Institute's activities and programs, on a basis of no exchange of funds. Through these activities, SSERVI researchers and international partners participate in sharing ideas, information, and data arising from their respective research efforts, and contribute to the training of young scientists. This talk will present an overview of the Institute and the international nodes. We will also discuss the various processes to become a SSERVI partner as well as the opportunities available for collaborations with the SSERVI national teams.
SSERVI↗
Shedding light on top partner at the LHC
We investigate the sensitivity of the 14 TeV LHC to pair-produced top partners (T) decaying into the Standard Model top quark (t) plus either a gluon (g) or a photon (γ). The decays T → tg and T → tγ can be dominant when the mixing between the top partner and top quark are negligible. In this case, the conventional decays T → bW , T → tZ, and T → th are highly suppressed and can be neglected. We take a model-independent approach using effective operators for the T-t-g and T-t-γ interactions, considering both spin-$\frac{1}{2}$ and spin-$\frac{3}{2}$ top partners. We perform a semi-realistic simulation with boosted top quark tagging and an appropriate implementation of a jet-faking-photon rate. Despite a simple dimensional analysis indicating that the branching ratios BR(T → tγ) ≪ BR(T → tg) due to the electric-magnetic coupling being much smaller than the strong force coupling, our study shows that the LHC sensitivity to $T\bar{T} → t\bar{t}γg$ is more significant than the sensitivity to $T\bar{T}→ t\bar{t}gg$. This is due to much smaller backgrounds attributed to the isolated high-p T photon. We find that with these decay channels and 3 ab -1 of data, the LHC is sensitive to top partner masses m T ≲ 1.4-1.8 TeV for spin-$\frac{1}{2}$ and spin-$\frac{3}{2}$ top partners, respectively.
71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
Lattice-friendly gauge completion of a composite Higgs with top partners
We give an explicit example of a composite Higgs model with a pseudo-Nambu-Goldstone Higgs in which the top Yukawa coupling is generated via the partial compositeness mechanism. This mechanism requires composite top partners which are relatively light compared to the typical mass scale of the strongly coupled theory. While most studies of the phenomenology of such models have focused on a bottom-up approach with a minimal effective theory, a top-down approach suggests that that the theory should contain a limit in which an unbroken global chiral symmetry protects the mass of the top partners, and the spectrum of the partners satisfies `t Hooft matching conditions. We therefore consider a model for the UV gauge group which could provide a solution to the matching conditions, and note that the relatively light fermions and pseudo-Goldstone bosons fall into complete multiplets of a large approximate global symmetry. This implies that the spectrum of particles lighter than a few TeV is non-minimal. Our example illustrates likely features of a composite Higgs theory, and also serves as an example of a non-chiral theory with no sign problem and a possible solution to `t Hooft matching conditions. It would therefore be very interesting for a lattice exploration. We find in this example that for some low-energy parameters in the effective theory the top partners can decay into high multiplicity final states, which could be difficult for the Large Hadron Collider (LHC) to constrain. This may potentially allow for the top partners to be lighter than those in more minimal models.
Lattice Quantum Field Theory↗
The interacting domains in cereblon differentially modulate the immunomodulatory drug-mediated ubiquitination and degradation of its binding partners
Highlights: • c-Jun, CLC-1, IKZF1, and MEIS2 interact with CRBN at different domains. • IMiDs differentially regulates the level of CRBN-interacting proteins. • IMiDs modulates the ubiquitination of CRBN-interacting proteins in three manners. • Interacting domains affect the IMiD-mediated regulation on CRBN-binding partners. Cereblon (CRBN), a substrate receptor of the cullin-4 RING E3 ligase (CRL4), has been utilized for the targeted protein degradation via small molecular weight CRBN modulators. However, it is unclear whether and how proteins that interact with CRBN at different domains are affected by these modulators. Here, we use CRBN and its four binding partners, c-Jun, chloride channel protein CLC-1, transcription factor IKZF1, and MEIS2, as model proteins to investigate the effect of immunomodulatory drugs (IMiDs) including thalidomide, lenalidomide, and pomalidomide, on their stability, ubiquitination, and interaction with CRBN. Together with previous discoveries, domain mapping experiment shows that these four proteins interact with CRBN at three distinct regions. Immunoblotting analyses reveal that the protein level of CRBN-binding partners could be enhanced, attenuated, or not affected by IMiDs. Interaction analyses and ubiquitination assay demonstrate that IMiDs modulate the interaction between CRBN and its binding partners in three distinct ways and thus differentially regulate their ubiquitination. This work suggests that the binding domain in CRBN is a critical factor which influences the regulation of IMiDs on the ubiquitination and stability of these CRBN-interacting partners.
60 APPLIED LIFE SCIENCES↗
Machine learning techniques for intermediate mass gap lepton partner searches at the large hadron collider
We consider machine learning techniques associated with the application of a boosted decision tree (BDT) to searches at the Large Hadron Collider (LHC) for pair-produced lepton partners which decay to leptons and invisible particles. This scenario can arise in the minimal supersymmetric Standard Model (MSSM), but can be realized in many other extensions of the Standard Model (SM). We focus on the case of intermediate mass splitting ( ∼ 30 GeV ) between the dark matter (DM) and the scalar. For these mass splittings, the LHC has made little improvement over LEP due to large electroweak backgrounds. We find that the use of machine learning techniques can push the LHC well past discovery sensitivity for a benchmark model with a lepton partner mass of ∼ 110 GeV , for an integrated luminosity of 300 fb − 1 , with a signal-to-background ratio of ∼ 0.3 . The LHC could exclude models with a lepton partner mass as large as ∼ 160 GeV with the same luminosity. The use of machine learning techniques in searches for scalar lepton partners at the LHC could thus definitively probe the parameter space of the MSSM in which scalar muon mediated interactions between SM muons and Majorana singlet DM can both deplete the relic density through dark matter annihilation and satisfy the recently measured anomalous magnetic moment of the muon. We identify several machine learning techniques which can be useful in other LHC searches involving large and complex backgrounds. Published by the American Physical Society 2024
Astronomy & Astrophysics↗
Final burst of the moving mirror is unrelated to the partner mode of analog Hawking radiation
Flying mirrors with appropriate trajectories have been recognized as an analog system that mimics black hole Hawking evaporation and have been widely investigated. It has recently been suggested that the partner mode of the analog Hawking radiation emitted from a moving mirror would manifest itself through a final burst when the mirror executes a sudden stop. Here, in this study, we argue the opposite via the partner formula for the moving mirror model. By expanding the theoretical foundation of the partner formula and augmenting it with numerical analysis, we demonstrate that the supposed final burst is induced by a shock that requires the input of external energy, whereas the Hawking radiation partner mode, which is associated with the zero-point vacuum fluctuations, is not responsible for the burst.
72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
Physiological potential and evolutionary trajectories of syntrophic sulfate-reducing bacterial partners of anaerobic methanotrophic archaea
Sulfate-coupled anaerobic oxidation of methane (AOM) is performed by multicellular consortia of anaerobic methanotrophic archaea (ANME) in obligate syntrophic partnership with sulfate-reducing bacteria (SRB). Diverse ANME and SRB clades co-associate but the physiological basis for their adaptation and diversification is not well understood. In this work, we used comparative metagenomics and phylogenetics to investigate the metabolic adaptation among the 4 main syntrophic SRB clades (HotSeep-1, Seep-SRB2, Seep-SRB1a, and Seep-SRB1g) and identified features associated with their syntrophic lifestyle that distinguish them from their non-syntrophic evolutionary neighbors in the phylum Desulfobacterota. We show that the protein complexes involved in direct interspecies electron transfer (DIET) from ANME to the SRB outer membrane are conserved between the syntrophic lineages. In contrast, the proteins involved in electron transfer within the SRB inner membrane differ between clades, indicative of convergent evolution in the adaptation to a syntrophic lifestyle. Our analysis suggests that in most cases, this adaptation likely occurred after the acquisition of the DIET complexes in an ancestral clade and involve horizontal gene transfers within pathways for electron transfer (CbcBA) and biofilm formation (Pel). We also provide evidence for unique adaptations within syntrophic SRB clades, which vary depending on the archaeal partner. Among the most widespread syntrophic SRB, Seep-SRB1a, subclades that specifically partner ANME-2a are missing the cobalamin synthesis pathway, suggestive of nutritional dependency on its partner, while closely related Seep-SRB1a partners of ANME-2c lack nutritional auxotrophies. Our work provides insight into the features associated with DIET-based syntrophy and the adaptation of SRB towards it.
59 BASIC BIOLOGICAL SCIENCES↗
One Year Old and Growing: A Status Report on the International Space Station and Its Partners
The first elements of the International Space Station have been launched and docked together, and are performing well on-orbit. The Station is currently being operated jointly by NASA and Russian space organizations. In May 1999, the Space Shuttle was the first vehicle to dock to the International, Space Station. A crew of seven U.S. and Russian astronauts delivered 4000 pounds of supplies, made repairs to communications and battery systems, and installed external hardware during an EVA. The next module, the Russian Service Module, is due to join the orbital complex this year. This will initiate a period of rapid growth, with new modules and equipment continually added for the next five to six years, through assembly complete. The first crew is scheduled to begin permanent occupation of the International Space Station early next year. Hardware is being developed by Space Station partners and participants around the world and is largely on schedule for launch. Mission control centers are fully functioning in Houston and Moscow, with operations centers in St. Hubert, Darmstadt, Tsukuba, Turino, and Huntsville going on line as they are required. International crews are selected and in training. Coordination efforts continue with each of the five partners and two participants, involving 16 nations. All of them continue to face their own challenges and have achieved their own successes. This paper will discuss the status of the ISS partners and participants, their contributions and accomplished milestones, and upcoming events. It will also give a status report on the developments of the remainder of the ISS modules and components by each partner and participant. The ISS, the largest and most complicated peacetime project in history, is flying, and, with the help of all the ISS members, will continue to grow.
Bartoe, John-David F.↗
Partnering with NASA: An Overview
Partnerships is an important part of doing business at NASA. NASA partners with external organizations to access capabilities under collaborative agreements; enters into agreements for partner access to NASA capabilities; expand overall landscape of space activity; and spurring innovation. NASA partnerships consist of Reimbursable and Non-Reimbursable Space Act Agreements. Partnerships at Ames aligns with Ames' core competencies, and Partners often office in the NASA Research Park, which is an established regional innovation cluster that facilitates commercialization and services as a technology accelerator via onsite collaborations between NASA and its partners.
Ames↗
Public-Private Partnerships: NASA as Your Business Partner
Partnerships is an important part of doing business at NASA. NASA partners with external organizations to access capabilities under collaborative agreements; enters into agreements for partner access to NASA capabilities; expand overall landscape of space activity; and spurring innovation. The U.S. national policy on commercial space is to develop a robust and competitive U.S. commercial space sector and to energize competitive domestic industries to participate in global markets. Commercial space must be competitive, while the government has other priorities such as safety, jobs, etc. NASA partnerships consist of Reimbursable and Non-Reimbursable Space Act Agreements. Partnerships at Ames aligns with Ames' core competencies, and Partners often office in the NASA Research Park, which is an established regional innovation cluster that facilitates commercialization and services as a technology accelerator via onsite collaborations between NASA and its partners.
Ames↗
Synergistic effects of H3 and H4 nucleosome tails on structure and dynamics of a lesion-containing DNA: Binding of a displaced lesion partner base to the H3 tail for GG-NER recognition
How DNA lesions in nucleosomes are recognized for global genome nucleotide excision repair (GG-NER) remains poorly understood, and the roles that histone tails may play remains to be established. Histone H3 and H4 N-terminal tails are of particular interest as their acetylation states are important in regulating nucleosomal functions in transcription, replication and repair. In particular the H3 tail has been the focus of recent attention as a site for the interaction with XPC, the GG-NER lesion recognition factor. Here we have investigated how the structure and dynamics of the DNA lesion cis-B[a]P-dG, derived from the environmental carcinogen benzo[a]pyrene (B[a]P), is impacted by the presence of flanking H3 and H4 tails. This lesion is well-repaired by GG-NER, and adopts a base-displaced/intercalated conformation in which the lesion partner C is displaced into the major groove. We used molecular dynamics simulations to obtain structural and dynamic characterizations for this lesion positioned in nucleosomal DNA so that it is bracketed by the H3 and H4 tails. The H4 tail was studied in unacetylated and acetylated states, while the H3 tail was unacetylated, its state when it binds XPC (Kakumu, Nakanishi et al., 2017). Our results reveal that upon acetylation, the H4 tail is released from the DNA surface; the H3 tail then forms a pocket that induces flipping and capture of the displaced lesion partner base C. This reveals synergistic effects of the behavior of the two tails. We hypothesize that the dual capability of the H3 tail to sense the displaced lesion partner base and to bind XPC could foster recognition of this lesion by XPC for initiation of GG-NER in nucleosomes.
59 BASIC BIOLOGICAL SCIENCES↗
Heterodimerization of Retinoid X Receptor with Xenobiotic Receptor partners occurs in the cytoplasmic compartment: Mechanistic insights of events in living cells
Retinoid X Receptor (RXR) serves as the heterodimeric partner of two major xenobiotic nuclear receptors, Pregnane and Xenobiotic Receptor (PXR) and Constitutive Androstane Receptor (CAR). These receptors are primarily involved in the metabolism and clearance of endobiotics and xenobiotics (including clinical drugs) from the body. Here, we report for the first time that intermolecular interactions between RXR-PXR and RXR-CAR occurs in the cytoplasmic compartment of the cell in a ligand-independent manner. These interactions lead to nuclear import of the heterodimeric complex thereby making them competent for chromatin binding and transactivation of target genes. To explore the cellular site involved in the process of heterodimerization we created various RFP- and GFP-tagged receptor chimeras and also the mutants of their nuclear localization signal (NLS). From the study it is apparent that NLS of PXR/CAR/RXR play a major role in the import of the heterodimeric complex from the cytoplasm to the nucleus in a ligand-independent manner. We observed that along with the heterodimeric partner and/or respective ligand a functional NLS is necessary for activation of target gene. The data suggests that RXR is the major driving force to import the heterodimeric complex into the nucleus since the mutation in the NLS region of RXR weakens this import process dramatically, whereas mutations in the NLS regions of PXR and CAR have little or no significant effect. This RXR-dependent nuclear translocation of the heterodimeric complex also modulates the individual transcriptional activity of PXR and CAR by increasing the basal transcriptional activity. Finally, it is documented that the heterodimerization of RXR with both the partners (PXR, CAR) occurs in the cytoplasm and implies that these dynamic interactions have functional and regulatory attributes in gene expression. In addition, this RXR-dependent enhancement of the transcriptional activity of PXR and CAR may be utilized for evaluating the receptor-drug interactions. - Highlights: • RFP-tagged RXR, PXR and CAR are used to study receptor heterodimerization. • Tagged receptors shifted to cytoplasm and imported to nucleus after heterodimerization. • Wild-type nuclear receptor can translocate cytoplasmic NLS-mutant to the nucleus. • Receptor heterodimerization is a ligand-independent event and occurs in cytoplasm. • Transcriptional activity of nuclear receptor is enhanced by heterodimerization.
60 APPLIED LIFE SCIENCES↗
Applying Crystallography and 19 F NMR to investigate dynamics and partner protein interactions in a long chain Flavodoxin
Flavodoxin (Fld) is a small FMN containing protein that is involved in single electron transfer. The long‐chain flavodoxin in Rhodopseudomonas palustris bacteria replaces ferredoxin as a low‐potential electron carrier when iron is scarce. Thus it is proposed to interact with the bifurcating electron transfer flavoprotein (ETF) that yields low‐potential electrons. A surface loop on Fld interacts with another of Fld's partner proteins, so we hypothesize that it also mediates Fld's interaction with ETF. To monitor interactions with ETF directly and investigate dynamics in this loop, we are using 19 F NMR in solution. 19 F is hyperresponsive to changes in its chemical environment with a chemical shift range of >300 ppm. To provide a static reference point and assess structural heterogeneity, we are also exploiting X‐ray crystallography. In this study we selectively fluorinated the five tyrosine residues in Fld. We obtained resonance assignments from 19 F spectra of Fld variants in which individual tyrosine residues have been replaced. We obtain well resolved signals for each residue, but the resonances' linewidths indicate dynamics that affects some resonances more than others. Y90 residue displays two resonances demonstrating two different conformations that interconvert slowly on an NMR time scale. Meanwhile the crystal structure solved at 2.1Å resolution reveals two molecules per asymmetric unit providing two perspectives on the details of the structure. The crystal symmetry is monoclinic in contrast to most of the other Flds, which are orthorhombic. Interestingly, the long loop bearing Y121 and Y123 is not well resolved in chain B of the crystal structure, and the NMR line of Y123 is exceptionally broad, both indicating that the loop is dynamic and capable of altering its conformation to accomodate binding to a partner protein. Future directions include monitoring the changes in the 19 F NMR of the Fld when titrated with the partner protein, temperature dependence of the NMR spectrum and relaxation studies to evaluate time scales of motions.
Khan, Sharique↗
Subgroup Characteristics of Marine Methane-Oxidizing ANME-2 Archaea and Their Syntrophic Partners as Revealed by Integrated Multimodal Analytical Microscopy
Phylogenetically diverse environmental ANME archaea and sulfate-reducing bacteria cooperatively catalyze the anaerobic oxidation of methane oxidation (AOM) in multicelled consortia within methane seep environments. To better understand these cells and their symbiotic associations, we applied a suite of electron microscopy approaches, including correlative fluorescence in situ hybridization-electron microscopy (FISH-EM), transmission electron microscopy (TEM), and serial block face scanning electron microscopy (SBEM) three-dimensional (3D) reconstructions. FISH-EM of methane seep-derived consortia revealed phylogenetic variability in terms of cell morphology, ultrastructure, and storage granules. Representatives of the ANME-2b clade, but not other ANME-2 groups, contained polyphosphate-like granules, while some bacteria associated with ANME-2a/2c contained two distinct phases of iron mineral chains resembling magnetosomes. 3D segmentation of two ANME-2 consortium types revealed cellular volumes of ANME and their symbiotic partners that were larger than previous estimates based on light microscopy. Polyphosphate-like granule-containing ANME (tentatively termed ANME-2b) were larger than both ANME with no granules and partner bacteria. This cell type was observed with up to 4 granules per cell, and the volume of the cell was larger in proportion to the number of granules inside it, but the percentage of the cell occupied by these granules did not vary with granule number. Here, these results illuminate distinctions between ANME-2 archaeal lineages and partnering bacterial populations that are apparently unified in their ability to perform anaerobic methane oxidation.
59 BASIC BIOLOGICAL SCIENCES↗