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At least 1,729 records · Page 96

Integration of Complete Plasmids Containing Bont Genes into Chromosomes of Clostridium parabotulinum , Clostridium sporogenes , and Clostridium argentinense

At least 40 toxin subtypes of botulinum neurotoxins (BoNTs), a heterogenous group of bacterial proteins, are produced by seven different clostridial species. A key factor that drives the diversity of neurotoxigenic clostridia is the association of bont gene clusters with various genomic locations including plasmids, phages and the chromosome. Analysis of Clostridium sporogenes BoNT/B1 strain CDC 1632, C. argentinense BoNT/G strain CDC 2741, and Clostridium parabotulinum BoNT/B1 strain DFPST0006 genomes revealed bont gene clusters within plasmid-like sequences within the chromosome or nested in large contigs, with no evidence of extrachromosomal elements. A nucleotide sequence (255,474 bp) identified in CDC 1632 shared 99.5% identity (88% coverage) with bont/B1-containing plasmid pNPD7 of C. sporogenes CDC 67071; CDC 2741 contig AYSO01000020 (1.1 MB) contained a ~140 kb region which shared 99.99% identity (100% coverage) with plasmid pRSJ17_1 of C. argentinense BoNT/G strain 89G; and DFPST0006 contig JACBDK0100002 (573 kb) contained a region that shared 100% identity (99%) coverage with the bont/B1-containing plasmid pCLD of C. parabotulinum Okra. This is the first report of full-length plasmid DNA-carrying complete neurotoxin gene clusters integrated in three distinct neurotoxigenic species: C. parabotulinum, C. sporogenes and C. argentinense.

59 BASIC BIOLOGICAL SCIENCES↗

Observational Signatures of Cloud–Cloud Collision in the Extended Star-forming Region S235

We present a multi-wavelength data analysis of the extended star-forming region S235 (hereafter E-S235), where two molecular clouds are present. In E-S235, using the {sup 12}CO (1–0) and {sup 13}CO (1–0) line data, a molecular cloud linked with the site “S235main” is traced in a velocity range [−24, −18] km s{sup −1}, while the other one containing the sites S235A, S235B, and S235C (hereafter “S235ABC”) is depicted in a velocity range [−18, −13] km s{sup −1}. In the velocity space, these two clouds are separated by ∼4 km s{sup −1}, and are interconnected by a lower-intensity intermediate velocity emission, tracing a broad bridge feature. In the velocity channel maps, a possible complementary molecular pair at [−21, −20] km s{sup −1} and [−16, −15] km s{sup −1} is also evident. The sites, “S235ABC,” east 1, and south–west, are spatially seen in the interface of two clouds. Together, these observed features are consistent with the predictions of numerical models of the cloud–cloud collision (CCC) process, favoring the onset of the CCC in E-S235 about 0.5 Myr ago. Deep UKIDSS near-infrared photometric analysis of point-like sources reveals significant clustering of young stellar populations toward the sites located at the junction, and the “S235main.” The sites “S235ABC” harbor young compact H ii regions with dynamical ages of ∼0.06–0.22 Myr, and these sites (including south–west and east 1) also contain dust clumps (having M {sub clump} ∼ 40 to 635 M{sub ⊙}). Our observational findings suggest that the star formation activities (including massive stars) appear to be influenced by the CCC mechanism at the junction.

79 ASTRONOMY AND ASTROPHYSICS↗

Preventive Power Outage Estimation Based on A Novel Scenario Clustering Strategy: Preprint

The increasing occurrence of extreme weather events is challenging the power grid operation. In front of the extreme weather, the system operator is responsible for estimating the power outage and scheduling the restoration resources. This paper proposes an outage evaluation framework to identify the possible unserved load profiles, vulnerable areas, and mobile energy adequacy. The predicted vulnerable lines of an outage prediction model tool are utilized to generate numerous faulted line scenarios. Next, each scenario's nodal unserved load profile is obtained by solving a three-phase restoration model that considers the schedule of repair crews and mobile energy resources. Then, a novel scenario clustering strategy is developed to cluster the unserved load profiles into multiple representative ones for straightforward analysis. Finally, case studies on a distribution system evaluate the damage level brought by extreme weather and verify the effectiveness of the proposed scenario clustering strategy.

mobile energy resources↗

Constraining Galaxy-Halo connection using machine learning

We investigate the potential of machine learning (ML) methods to model small-scale galaxy clustering for constraining Halo Occupation Distribution (HOD) parameters. Our analysis reveals that while many ML algorithms report good statistical fits, they often yield likelihood contours that are significantly biased in both mean values and variances relative to the true model parameters. This highlights the importance of careful data processing and algorithm selection in ML applications for galaxy clustering, as even seemingly robust methods can lead to biased results if not applied correctly. ML tools offer a promising approach to exploring the HOD parameter space with significantly reduced computational costs compared to traditional brute-force methods if their robustness is established. Using our ANN-based pipeline, we successfully recreate some standard results from recent literature. Properly restricting the HOD parameter space, transforming the training data, and carefully selecting ML algorithms are essential for achieving unbiased and robust predictions. Among the methods tested, artificial neural networks (ANNs) outperform random forests (RF) and ridge regression in predicting clustering statistics, when the HOD prior space is appropriately restricted. We demonstrate these findings using the projected two-point correlation function (w p (r p )), angular multipoles of the correlation function (ξ ℓ (r)), and the void probability function (VPF) of Luminous Red Galaxies from Dark Energy Spectroscopic Instrument mocks. Our results show that while combining w p (r p ) and VPF improves parameter constraints, adding the multipoles ξ 0 , ξ 2 , and ξ 4 to w p (r p ) does not significantly improve the constraints.

cosmology↗

Determining the Cosmic Distance Scale from Interferometric Measurements of the Sunyaev-Zeldovich Effect

We determine the distances to 18 galaxy clusters with redshifts ranging from z approximately 0.14 to 0.78 from a maximum likelihood joint analysis of 30 GHz interferometric Sunyaev-Zeldovich effect (SZE) and X-ray observations. We model the intracluster medium (ICM) using a spherical isothermal Beta model. We quantify the statistical and systematic uncertainties inherent to these direct distance measurements, and we determine constraints on the Hubble parameter for three different cosmologies. These distances imply a Hubble constant of 60(sup+4+13)(sub-4-18)km s(exp -1)Mpc(exp -1) for an omega(sub Mu)= 0.3,omega(sub Lambda)=0.7 cosmology, where the uncertainties correspond to statistical followed by systematic at 68% confidence. With a sample of 18 clusters, systematic uncertainties clearly dominate. The systematics are observationally approachable and will be addressed in the coming years through the current generation of X-ray satellites (Chandra and XMM-Newton) and radio observatories (Owens Valley Radio Observatory, Berkeley-Illinois-Maryland Association, and Very Large Array). Analysis of high-redshift clusters detected in future SZE and X-ray surveys will allow a determination of the geometry of the universe from SZE-determined distances.

Reese, Erik D.↗

Analysis of elastic scattering and breakup of {sup 11}li in collisions with protons using a dynamical two-cluster model

The {sup 11}Li scattering and breakup on protons is considered under the assumption that the {sup 11}Li nucleus consists of two interacting clusters, which are a c = {sup 9}Li core and a h = 2n dineutron halo. The single-particle density of the {sup 11}Li nucleus, amicroscopic optical potential, and the cross section for {sup 11}Li+p scattering for various choices of cluster shape are obtained and analyzed by folding the density distribution for either cluster with the probability density for the relative motion of two clusters. A comparison with experimental data of the scattering cross section at low, 60–75 MeV, and intermediate, 700 MeV, energies is performed. The momentum distribution of c fragments upon {sup 11}Li breakup is calculated and studied with a help of the obtained p + c and p + h microscopic optical potentials.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Molecular diversity and evolution of far-red light-acclimated photosystem I

The need to acclimate to different environmental conditions is central to the evolution of cyanobacteria. Far-red light (FRL) photoacclimation, or FaRLiP, is an acclimation mechanism that enables certain cyanobacteria to use FRL to drive photosynthesis. During this process, a well-defined gene cluster is upregulated, resulting in changes to the photosystems that allow them to absorb FRL to perform photochemistry. Because FaRLiP is widespread, and because it exemplifies cyanobacterial adaptation mechanisms in nature, it is of interest to understand its molecular evolution. Here, we performed a phylogenetic analysis of the photosystem I subunits encoded in the FaRLiP gene cluster and analyzed the available structural data to predict ancestral characteristics of FRL-absorbing photosystem I. The analysis suggests that FRL-specific photosystem I subunits arose relatively late during the evolution of cyanobacteria when compared with some of the FRL-specific subunits of photosystem II, and that the order Nodosilineales, which include strains like Halomicronema hongdechloris and Synechococcus sp. PCC 7335, could have obtained FaRLiP via horizontal gene transfer. We show that the ancestral form of FRL-absorbing photosystem I contained three chlorophyll f-binding sites in the PsaB2 subunit, and a rotated chlorophyll a molecule in the A0B site of the electron transfer chain. Along with our previous study of photosystem II expressed during FaRLiP, these studies describe the molecular evolution of the photosystem complexes encoded by the FaRLiP gene cluster.

ancestral sequence reconstruction↗

Probability friends-of-friends (PFOF) group finder: Performance study and observational data applications on photometric surveys

In tandem with observational data sets, we utilize realistic mock catalogs, based on a semi-analytic galaxy formation model, constructed specifically for Pan-STARRS1 Medium Deep Surveys to assess the performance of the Probability Friends-of-Friends (PFOF) group finder, and aim to develop a grouping optimization method applicable to surveys like Pan-STARRS1. Producing mock PFOF group catalogs under a variety of photometric redshift accuracies (σ{sub Δz/(1+z{sub s)}}), we find that catalog purities and completenesses from 'good' (σ{sub Δz/(1+z{sub s)}}∼ 0.01) to 'poor' (σ{sub Δz/(1+z{sub s)}}∼ 0.07) photo-zs gradually degrade from 77% and 70% to 52% and 47%, respectively. A 'subset optimization' approach is developed by using spectroscopic-redshift group data from the target field to train the group finder for application to that field and demonstrated using zCOSMOS groups for PFOF searches within PS1 Medium Deep Field04 (PS1MD04) and DEEP2 EGS groups in PS1MD07. With four data sets spanning the photo-z accuracy range from 0.01 to 0.06, we find purities and completenesses agree with their mock analogs. Further tests are performed via matches to X-ray clusters. We find PFOF groups match ∼85% of X-ray clusters identified in COSMOS and PS1MD04, lending additional support to the reliability of the detection algorithm. In the end, we demonstrate, by separating red and blue group galaxies in the EGS and PS1MD07 group catalogs, that the algorithm is not biased with respect to specifically recovering galaxies by color. The analyses suggest the PFOF algorithm shows great promise as a reliable group finder for photometric galaxy surveys of varying depth and coverage.

79 ASTRONOMY AND ASTROPHYSICS↗

Atomically Precise Hexanuclear Ce(IV) Clusters as Functional Fluorescent Nanosensors for Rapid One-Step Detection of PFAS

Here, the presence of poly- and perfluoroalkyl substances (PFAS) in the environment is associated with adverse health effects but measuring PFAS is challenging due to the associated high cost and technical complexities of the analysis. Here, the reactivity of atomically precise metal-oxo clusters is reported and the foundation for their use is provided as fluorescent nanosensors for PFAS detection. The material comprises crystalline, water soluble, hexanuclear cerium-oxo clusters [Ce 6 (µ 3 -O) 4 (µ 3 -OH) 4 ] 12+ decorated with glycine molecules (Ce-Gly) characterized by fluorescence emission at 353 nm. The Ce-Gly fluorescence is found sensitive to long chain carboxylated PFAS of CF 3 –(CF 2 ) n –, where n ≥ 6, such as perfluorooctanoic, perfluorononanoic and perfluorodecanoic acids. This unique reactivity leads to a change in the emission spectra in a concentration dependent manner, enabling PFAS detection through ligand exchange and aggregation-induced emission (AIE) enhancement. No significant cross-reactivity from potentially co-existing species, including sulfonated PFAS, octanoic and dodecanoic acids, humic acid, and inorganic ions is observed. With an optimal concentration of 3.3 µg mL -1 Ce-Gly, the method demonstrated detection limits of 0.24 ppb for PFOA and 0.4 ppb for PFNA. These findings highlight the potential of fluorescence-based detection strategies utilizing nanoscale probes such as Ce-Gly as fluorescent probes and nanosensors for PFAS.

77 NANOSCIENCE AND NANOTECHNOLOGY↗

ON THE SERENDIPITOUS DISCOVERY OF A Li-RICH GIANT IN THE GLOBULAR CLUSTER NGC 362

We have serendipitously identified the first lithium-rich giant star located close to the red giant branch bump in a globular cluster. Through intermediate-resolution FLAMES spectra we derived a lithium abundance of A(Li) = 2.55 (assuming local thermodynamical equilibrium), which is extremely high considering the star’s evolutionary stage. Kinematic and photometric analysis confirm the object as a member of the globular cluster NGC 362. This is the fourth Li-rich giant discovered in a globular cluster, but is the only one known to exist at a luminosity close to the bump magnitude. The three previous detections are clearly more evolved, located close to, or beyond, the tip of their red giant branch. Our observations are able to discard the accretion of planets/brown dwarfs, as well as an enhanced mass-loss mechanism as a formation channel for this rare object. While the star sits just above the cluster bump luminosity, its temperature places it toward the blue side of the giant branch in the color–magnitude diagram. We require further dedicated observations to unambiguously identify the star as a red giant: we are currently unable to confirm whether Li production has occurred at the bump of the luminosity function or if the star is on the pre-zero-age horizontal branch. The latter scenario provides the opportunity for the star to have synthesized Li rapidly during the core helium flash or gradually during its red giant branch ascent via some extra mixing process.

79 ASTRONOMY AND ASTROPHYSICS↗

RX J0848.6+4453: The evolution of galaxy sizes and stellar populations in A z = 1.27 cluster

RX J0848.6+4453 (Lynx W) at redshift 1.27 is part of the Lynx Supercluster of galaxies. We present an analysis of the stellar populations and star formation history for a sample of 24 members of the cluster. Our study is based on deep optical spectroscopy obtained with Gemini North combined with imaging data from Hubble Space Telescope. Focusing on the 13 bulge-dominated galaxies for which we can determine central velocity dispersions, we find that these show a smaller evolution with redshift of sizes and velocity dispersions than reported for field galaxies and galaxies in poorer clusters. Our data show that the galaxies in RX J0848.6+4453 populate the fundamental plane (FP) similar to that found for lower-redshift clusters. The zero-point offset for the FP is smaller than expected if the cluster's galaxies are to evolve passively through the location of the FP we established in our previous work for z = 0.8-0.9 cluster galaxies and then to the present-day FP. The FP zero point for RX J0848.6+4453 corresponds to an epoch of last star formation at z{sub form}=1.95{sub −0.15}{sup +0.22}. Further, we find that the spectra of the galaxies in RX J0848.6+4453 are dominated by young stellar populations at all galaxy masses and in many cases show emission indicating low-level ongoing star formation. The average age of the young stellar populations as estimated from the strength of the high-order Balmer line Hζ is consistent with a major star formation episode 1-2 Gyr prior, which in turn agrees with z {sub form} = 1.95. These galaxies dominated by young stellar populations are distributed throughout the cluster. We speculate that low-level star formation has not yet been fully quenched in the center of this cluster, possibly because the cluster is significantly poorer than other clusters previously studied at similar redshifts, which appear to have very little ongoing star formation in their centers. The mixture in RX J0848.6+4453 of passive galaxies with young stellar populations and massive galaxies still experiencing some star formation appears similar to the galaxy populations recently identified in two z ≈ 2 clusters.

79 ASTRONOMY AND ASTROPHYSICS↗

Determining the Cosmic Distance Scale from Interferometric Measurements of the Sunyaev-Zel'Dovich Effect

The distances to eighteen galaxy clusters are determined, with redshifts ranging from z approx. 0.14 to z approx. 0.78 from a maximum likelihood joint analysis of 30 GHz interferometric Sunyaev-Zel'dovich effect (SZE) and X-ray observations. We model the intracluster medium (ICM) using a spherical isothermal beta model. We quantify the statistical and systematic uncertainties inherent to these direct distance measurements, and we determine constraints on the Hubble parameter for three different cosmologies. These distances imply a Hubble constant of 60((sup +4+13)(sub -4-18)) km s(exp -1) megaparsec(exp -1) for an Omega(sub M) = 0.3, Omega(sub Lambda) = 0.7 cosmology, where the uncertainties correspond to statistical followed by systematic at 68% confidence. With a sample of eighteen clusters, systematic uncertainties clearly dominate. The systematics are observationally approachable and will be addressed in the coming years through the current generation of X-ray satellites (Chandra & XMIM-Newton) and radio observatories (OVRO (Owens Valley Radio Observatory), BIMA (Berkeley Illinois Maryland Association), & VLA (Very Large Array)). Analysis of high redshift clusters detected in future SZE and X-ray surveys will allow a determination of the geometry of the universe from SZE determined distances.

Reese, Erik D.↗

Spatial Analysis of Great Lakes Regional Icing Cloud Liquid Water Content

Abstract Clustering of cloud microphysical conditions, such as liquid water content (LWC) and drop size, can affect the rate and shape of ice accretion and the airworthiness of aircraft. Clustering may also degrade the accuracy of cloud LWC measurements from radars and microwave radiometers being developed by the government for remotely mapping icing conditions ahead of aircraft in flight. This paper evaluates spatial clustering of LWC in icing clouds using measurements collected during NASA research flights in the Great Lakes region. We used graphical and analytical approaches to describe clustering. The analytical approach involves determining the average size of clusters and computing a clustering intensity parameter. We analyzed flight data composed of 1-s-frequency LWC measurements for 12 periods ranging from 17.4 minutes (73 km) to 45.3 minutes (190 km) in duration. Graphically some flight segments showed evidence of consistency with regard to clustering patterns. Cluster intensity varied from 0.06, indicating little clustering, to a high of 2.42. Cluster lengths ranged from 0.1 minutes (0.6 km) to 4.1 minutes (17.3 km). Additional analyses will allow us to determine if clustering climatologies can be developed to characterize cluster conditions by region, time period, or weather condition. Introduction

Ryerson, Charles C.↗

Data Analysis Approaches for the Risk-Informed Safety Margins Characterization Toolkit

In the past decades, several numerical simulation codes have been employed to simulate accident dynamics (e.g., RELAP5-3D, RELAP-7, MELCOR, MAAP). In order to evaluate the impact of uncertainties into accident dynamics, several stochastic methodologies have been coupled with these codes. These stochastic methods range from classical Monte-Carlo and Latin Hypercube sampling to stochastic polynomial methods. Similar approaches have been introduced into the risk and safety community where stochastic methods (such as RAVEN, ADAPT, MCDET, ADS) have been coupled with safety analysis codes in order to evaluate the safety impact of timing and sequencing of events. These approaches are usually called Dynamic PRA or simulation-based PRA methods. These uncertainties and safety methods usually generate a large number of simulation runs (database storage may be on the order of gigabytes or higher). The scope of this paper is to present a broad overview of methods and algorithms that can be used to analyze and extract information from large data sets containing time dependent data. In this context, “extracting information” means constructing input-output correlations, finding commonalities, and identifying outliers. Some of the algorithms presented here have been developed or are under development within the RAVEN statistical framework.

97 MATHEMATICS AND COMPUTING↗

Revisiting Newly Large Magellanic Cloud Age-gap Star Clusters

Recently, a noticeable number of new star clusters was identified in the outskirts of the Large Magellanic Cloud (LMC) populating the so-called star-cluster age gap, a space of time (∼4–12 Gyr) where the only known star cluster is up-to-date ESO 121-SC 03. We used Survey of the Magellanic Stellar History DR2 data sets, as well as those employed to identify these star-cluster candidates, to produce relatively deep color–magnitude diagrams (CMDs) of 17 out of 20 discovered age-gap star clusters with the aim of investigating them in detail. Our analysis relies on a thorough CMD cleaning procedure of the field-star contamination, which presents variations in its stellar density and astrophysical properties, such as luminosity and effective temperature, around the star-cluster fields. We built star-cluster CMDs from stars with membership probabilities assigned from the cleaning procedure. These CMDs and their respective spatial distribution maps favor the existence of LMC star field density fluctuations rather than age-gap star clusters, although a definitive assessment on them will be possible from further deeper photometry.

47 OTHER INSTRUMENTATION↗

Descriptors of water aggregation

For this work, we rely on a total of 23 (cluster size, 8 structural, and 14 connectivity) descriptors to investigate structural patterns and connectivity motifs associated with water cluster aggregation. In addition to the cluster size n (number of molecules), the 8 structural descriptors can be further categorized into (i) one-body (intramolecular): covalent OH bond length (r OH ) and HOH bond angle (θ HOH ), (ii) two-body: OO distance (r OO ), OHO angle (θ OHO ), and HOOX dihedral angle ($\phi$ HOOX ), where X lies on the bisector of the HOH angle, (iii) three-body: OOO angle (θ OOO ), and (iv) many-body: modified tetrahedral order parameter (q) to account for two-, three-, four-, five-coordinated molecules (q m , m = 2, 3, 4, 5) and radius of gyration (R g ). The 14 connectivity descriptors are all many-body in nature and consist of the AD, AAD, ADD, AADD, AAAD, AAADD adjacencies [number of hydrogen bonds accepted (A) and donated (D) by each water molecule], Wiener index, Average Shortest Path Length, hydrogen bond saturation (% HB), and number of non-short-circuited three-membered cycles, four-membered cycles, five-membered cycles, six-membered cycles, and seven-membered cycles. We mined a previously reported database of 4 948 959 water cluster minima for (H 2 O) n , n = 3–25 to analyze the evolution and correlation of these descriptors for the clusters within 5 kcal/mol of the putative minima. It was found that r OH and % HB correlated strongly with cluster size n, which was identified as the strongest predictor of energetic stability. Marked changes in the adjacencies and cycle count were observed, lending insight into changes in the hydrogen bond network upon aggregation. A Principal Component Analysis (PCA) was employed to identify descriptor dependencies and group clusters into specific structural patterns across different cluster sizes. The results of this study inform our understanding of how water clusters evolve in size and what appropriate descriptors of their structural and connectivity patterns are with respect to system size, stability, and similarity. The approach described in this study is general and can be easily extended to other hydrogen-bonded systems.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Enhanced Resistance Pines for Improved Renewable Biofuel and Chemical Production (Technical Report)

We completed phenotyping constitutive and inducible oleoresin flow across two seasons, constitutive resin canal number and density and wood terpene content in our ADEPT2 and CCLONES populations. We completed genetic association between 19 oleoresin phenotypes and a total of 523,192 SNP markers from ADEPT2 and 13,883 SNP markers in CCLONES using four mixed linear models. A total of 293 significant SNPs (FDR = 0.20) were identified. We used the MENTOR tool to mine mechanistic connections from a multiplex network constructed from poplar multi-omic data to construct a conceptual model for a subset of these significant SNPs. Our model contains 6 transcriptional regulators in addition to 3 monoterpene synthases. To generate more lines of evidence for these significant SNPs, we completed a time course RNAseq experiment after inducing vascular zone cells to differentiate into new resin canals with a methyl jasmonate treatment, a single nuclei RNAseq that identified differentiating resin canal epithelial cells and are completing analysis for a QTL study in a hybrid pine population. The time course identified 4634 significantly down and 1890 significantly up regulated transcripts after treatment with methyl jasmonate, an inducer of new resin canal formation in the vascular cambial meristem. To analyze this large set of differentially regulated genes, we created a predictive expression network and analyzed it with random walk restart using 6 seed genes coding for transcription factors regulating xylem differentiation in poplar. Of the top ranked 200 transcripts, 119 transcripts were significant differentially expressed supporting these transcripts as potential candidates regulating resin canal formation. Analysis of single nuclei sequencing of shoot tips that contain differentiating resin canals, identified 10 clusters. One cluster was highly enriched in transcripts coding for 9 of the enzymes in the MEP pathway 3 prenyl synthetases, and 3 monoterpene synthases strongly suggesting that this cluster represents resin canal epithelial cells. We are mining the additional transcripts to create a trajectory analysis. In summary, we have identified > 10 novel genes that are strongly supported candidates for further analysis in breeding lines and for genetic engineering over- and under- expressing lines to increase wood terpene content to improve resistance to insect and fungal pathogens while simultaneously increasing terpene supplies for renewable chemicals and biofuels.

59 BASIC BIOLOGICAL SCIENCES↗