Structural Divergence Research Articles

Divergent Population Structure in Five Common Rockfish Species of Puget Sound, WA Suggests the Need for Species-Specific Management.

Quantifying connectivity between endangered or threatened marine populations is critical information for management and conservation, especially where abundance and productivity differ among such populations. Spatial patterns of such connectivity depend not only on extrinsic factors such as oceanography and bathymetry but also on intrinsic species-specific factors such as life history, demography and the location of glacial refugia. Nevertheless, population structure is often inferred from related or ecologically similar species. For example, the population structure in most rockfish species (Sebastes spp.) in the Salish Sea and the US West Coast is currently inferred from genetic data of three species that are known to hybridise in Puget Sound. Here, we determined the population structure and connectivity in five Puget Sound Rockfish species (Black [Sebastes melanops], Yellowtail [S. flavidus], Redstripe [S. proriger], Greenstriped [S. elongatus], and Puget Sound Rockfish [S. emphaeus]) from over 12,000 restriction-site associated DNA sequencing (RADseq) loci. We found species-specific patterns of genetic differentiation, attributable to both extrinsic and intrinsic factors. Specifically, Black and Puget Sound rockfishes showed no genetic differentiation; Yellowtail and Greenstriped rockfishes were structured according to known geographic barriers; and Redstripe Rockfish revealed evidence for temporal genetic differentiation, suggesting irregular recruitment influences population structure. Only Yellowtail Rockfish followed the federal DPS boundaries generally assumed for rockfish, further emphasizing the importance of species-specific management for the effective recovery and management of these rockfish populations and of marine species in general.

Structural Evaluation of Interleukin-19 Cytokine and Interleukin-19-Bound Receptor Complex Using Computational Immuno-Engineering Approach

Interleukin 19 (IL-19) is an anti-inflammatory cytokine that belongs to the IL-10 family, where IL-20 and IL-24 also exist. While IL-19 and IL-20 share some comparable structural folds, there are certain structural divergences in their N-terminal ends. To date, there are no reported IL-19 receptors; although, it has been suggested in the literature that IL-19 would bind to lL-20 receptor (IL-20R) and trigger the JAK-STAT signaling pathways. The present report examines the structure of the IL-19 cytokine and its receptor complex using a computational approach. Specifically, the postulated modes of interactions for IL-20R as an IL-19 receptor are examined on the basis of a set of computational findings. The author has used molecular docking and molecular dynamics simulation to generate a 3D model for the IL-19 complex with IL-20R. When a protein’s crystal structure is not available in the literature, predictive modeling is often employed to determine the protein’s 3D structure. The model assessment can be based on various factors, which include stability analysis using RMSD calculations, tracking changes in time-based secondary structures and the associated Gibbs energies, ΔG. Since one model complex (referred to as model A throughout this paper) can be used as a working hypothesis for future experiments, this structure has been explored here in detail to check its stability, subunit interfaces, and binding residues. The information gathered in this approach can potentially help to design specific experiments to test the validity of the model protein structure. Additionally, the results of this research should be relevant for understanding anti-inflammatory mechanisms and, eventually, could contribute to the efforts for therapeutic developments and targeted therapy.

Computational Study of Network and Type-I Functional Divergence in Alcohol Dehydrogenase Enzymes Across Species Using Molecular Dynamics Simulation.

Alcohol dehydrogenases (ADHs) are critical enzymes involved in the oxidation of alcohols, contributing to various metabolic pathways across organisms. This study investigates type I functional divergence within three ADH1 families: Saccharomyces cerevisiae (PDB ID: 4W6Z), Gadus morhua (PDB ID: 1CDO), and Homo sapiens (PDB ID: 1HDX). Understanding the molecular evolution and mechanisms underlying functional divergence of ADHs is essential for comprehending their adaptive significance. For this purpose, we performed a computational analysis that included structural characterization of ADHs through three-dimensional modeling, site-specific analysis to evaluate selective pressures and evolutionary constraints, and network analysis to elucidate relationships between structural features and functional divergence. Our findings indicate substantial variations in evolutionary and structural adaptations among the ADH families.

Unravelling spatial scale effects on elevational diversity gradients: insights from montane small mammals in Kenya

BackgroundMontane ecosystems play crucial roles as global biodiversity hotspots. However, climatic changes and anthropogenic pressure increasingly threaten the stability of montane community dynamics, such as diversity-elevation interactions, creating a challenge in understanding species biogeography and community ecology dynamics in these crucial conservation areas. We examined how varying sampling spatial grains influence small mammal diversity patterns within Kenya’s tallest montane ecosystems.MethodsEmploying a combination of multidimensional alpha diversity metrics and multisite beta diversity characteristics (species richness, phylogenetic and functional diversity and divergence, and multisite beta diversity) alongside spatial generalized additive multivariate regression analyses, we tested how spatial scaling influences elevational diversity gradient patterns and their associations with environmental and human activity variables.ResultsThe diversity-elevation associations were generally homogeneous across spatial grains; however, idiosyncratic patterns emerged across mountains. The total (taxonomic, phylogenetic, and functional) beta diversity, nestedness, and turnover resultant components monotonically increased or decreased with varying spatial grains. The associations between the diversity patterns and the environmental and human footprint variables increased with spatial grain size but also presented variations across mountains and indices. Species richness and phylogenetic and functional richness indices were more strongly influenced by spatial scale variations than were the divergence and community structure indices in both the diversity distribution patterns and their associations with the environmental and human variables.ConclusionsThe diversity-elevation and diversity-environment (including human activity pressure) relationships across spatial grains suggest that montane small mammal diversity patterns portray subtle but systematic sensitivity to sampling spatial grain variation and underscore the importance of geographical context in shaping these elevational diversity gradients. For improved effectiveness, conservation efforts should consider these spatial effects and the unique geographical background of individual montane ecosystems.

The neurocognitive correlates of DTI indicators of white matter disorganization in pediatric moderate-to-severe traumatic brain injury.

Neuroimaging has expanded our understanding of pediatric brain disorders in which white matter organization and connectivity are crucial to functioning. Paralleling the known pathobiology of many neurodevelopmental disorders, traumatic brain injury (TBI) in childhood can alter trajectories of brain development. Specifically, diffusion tensor imaging (DTI) studies in TBI have demonstrated white matter (WM) abnormalities that suggest microstructural disruptions that may underlie atypical neurodevelopment. The neurocognitive correlates of these previous findings will be explored in this study. Indicators of WM organization were collected in 44 pediatric patients with moderate/severe TBI and 76 controls over two post-injury time points: T1 (8-20 weeks) and T2 (54-96 weeks). Our previous work identified two TBI subgroups based on information processing differences: one with slower interhemispheric transfer times (IHTT) of visual information than controls and another with comparable IHTT. We extend this prior work by evaluating neurocognitive trajectories associated with divergent WM structure post-injury in slow and normal IHTT TBI subgroups. At T1, both TBI subgroups performed significantly worse than controls on a norm-referenced working memory index (WMI), but only the Normal IHTT TBI subgroup significantly improved over the 12-month follow-up period (p = 0.014) to match controls (p = 0.119). In contrast, the Slow IHTT TBI subgroup did not show any recovery in working memory performance over time and performed more poorly than the control group (p < 0.001) at T2. Improvement in one of the two WMI subtests was associated with DTI indicators of WM disorganization in CC tracts to the precentral, postcentral, frontal, and parietal cortices. IHTT and WM mean diffusivity predicted 79% of the variance in cognitive recovery from T1 to T2 when also accounting for other known predictors of TBI recovery. In the year following TBI, some pediatric patients experienced persisting working memory disturbance while others exhibited recovery; stratification was based on an event-related potential marker. More or less improvement in neurocognition was also associated with the degree of WM disorganization. IHTT, measured post-acutely after TBI, and progression of WM disorganization over time predicted neurocognitive trajectories at the chronic timeframe - potentially representing a prognostic biomarker.

Non-Linear Saturated Multi-Objective Pseudo-Screening Using Support Vector Machine Learning, Pareto Front, and Belief Functions: Improving Wastewater Recycling Quality

Increasing wastewater treatment efficiency is a primary aim in the circular economy. Wastewater physicochemical and biochemical processes are quite complex, often requiring a combination of statistical and machine learning tools to empirically model them. Since wastewater treatment plants are large-scale operations, the limited opportunities for extensive experimentation may be offset by miniaturizing experimental schemes through the use of fractional factorial designs (FFDs). A recycling quality improvement study that relies on non-linear multi-objective multi-parameter FFD (NMMFFD) datasets was reanalyzed. A published NMMFFD ultrafiltration screening/optimization case study was re-examined regarding how four controlling factors affected three paper mill recycling characteristic responses using a combination of statistical and machine learning methods. Comparative machine learning screening predictions were provided by (1) quadratic support vector regression and (2) optimizable support vector regression, in contrast to quadratic linear regression. NMMFFD optimization was performed by employing Pareto fronts. Pseudo-screening was applied by decomposing the replicated NMMFFD dataset to single replicates and then testing their replicate repeatability by introducing belief functions that sought to maximize credibility and plausibility estimates. Various versions of belief functions were considered, since the novel role of the three process characteristics, as independent sources, created a high level of conflict during the information fusion phase, due to the inherent divergent belief structures. Correlations between two characteristics, but with opposite goals, may also have contributed to the source conflict. The active effects for the NMMFFD dataset were found to be the transmembrane pressure and the molecular weight cut-off. The modified adjustment was pinpointed to the molecular weight cut-off at 50 kDa, while the optimal transmembrane pressure setting persisted at 2.0 bar. This mixed-methods approach may provide additional confidence in determining improved recycling process adjustments. It would be interesting to implement this approach in polyfactorial wastewater screenings with a greater number of process characteristics.

Temporal resolution of spike coding in feedforward networks with signal convergence and divergence.

Convergent and divergent structures in the networks that make up biological brains are found across many species and brain regions at various spatial scales. Neurons in these networks fire action potentials, or "spikes", whose precise timing is becoming increasingly appreciated as large sources of information about both sensory input and motor output. While previous theories on coding in convergent and divergent networks have largely neglected the role of precise spike timing, our model and analyses place this aspect at the forefront. For a suite of stimuli with different timescales, we demonstrate that structural bottlenecks- small groups of neurons post-synaptic to network convergence - have a stronger preference for spike timing codes than expansion layers created by structural divergence. Additionally, we found that a simple network model based on convergence and divergence ratios of a hawkmoth (Manduca sexta) nervous system can reproduce the relative contribution of spike timing information in its motor output, providing testable predictions on optimal temporal resolutions of spike coding across the moth sensory-motor pathway at both the single-neuron and population levels. Our simulations and analyses suggest a relationship between the level of convergent/divergent structure present in a feedforward network and the loss of stimulus information encoded by its population spike trains as their temporal resolution decreases, which could be tested experimentally across diverse neural systems in future studies. We further show that this relationship can be generalized across different spike-generating models and measures of coding capacity, implying a potentially fundamental link between network structure and coding strategy using spikes.

10.B. Scientific session: The European Health Data Space (EHDS): A sea of change for health data in Europe

Abstract A wealth of data is generated every day throughout our health systems which, if leveraged well, can underpin the digital solutions and policies that will transform health and care. However, the complexity and divergence of rules, structures and processes within and across European Member States make it difficult to fully harness that potential at European scale. The European Health Data Space will address this challenge by empowering Europeans to access and control their health data and by offering a harmonised and simplified framework for the reuse of health data, including for research, innovation, and policymaking purposes. During the workshop, we will present an overview of the European Health Data Space framework and its implementation phases and discuss its benefits for targeted stakeholders, including citizens, researchers and policymakers in public health. Objectives 1. Emphasise the importance of leveraging health data for research, innovation and policymaking; 2. Present the European Health Data Space regulation and what actions are being undertaken to prepare for its implementation; 3. Discuss how access to their health data can enable patients and individuals play an active role in their own health journey; 4. Discuss what will be the main benefits for policymakers and researchers in public health resulting from enhanced access to health data. Introduction by Chair for presenting the European Health Data Space and the setting the scene for the session. Short presentations by speakers: 1. Implementing the EHDS: lessons from the EHDS2 pilot - Marianne Benderra, Health Data Hub, presenting his experience on developing and piloting the EHDS infrastructure for secondary use of health data, highlighting key project developments; 2. How can the EHDS enable participatory healthcare? - Henrique Martins, ISCTE, xShare project on how the xShare “Yellow Button” will empower individuals with access to and control over their health data and may foster the development of knowledge and tools necessary for prevention and management of their health; 3. What will the EHDS enable for research and policymaking? - Nienke Schutte, Scienciano, bringing the perspective of a leading European public health institute how the benefits the EHDS framework can bring for policymaking, research and innovation. 15 min Q&amp;A session, taking questions from the audience, possibly also through Slido. Possible guiding questions: How can stakeholders contribute more broadly to the development of the EHDS? What support is needed to ensure that data users and data holders are prepared when the EHDS framework becomes operational? Conclusions 2 min by Chair. Speakers/Panelists Marianne Benderra French Health Data Hub, Paris, France Henrique Manuel Martins ISCTE, Lisbon, Portugal Nienke Schutte Sciensano, Brussels, Belgium

Immunotherapy response induces divergent tertiary lymphoid structure morphologies in hepatocellular carcinoma.

Tertiary lymphoid structures (TLS) are associated with improved response in solid tumors treated with immune checkpoint blockade, but understanding of the prognostic and predictive value of TLS and the circumstances of their resolution is incomplete. Here we show that in hepatocellular carcinoma treated with neoadjuvant immunotherapy, high intratumoral TLS density at the time of surgery is associated with pathologic response and improved relapse-free survival. In areas of tumor regression, we identify a noncanonical involuted morphology of TLS marked by dispersion of the B cell follicle, persistence of a T cell zone enriched for T cell-mature dendritic cell interactions and increased expression of T cell memory markers. Collectively, these data suggest that TLS can serve as both a prognostic and predictive marker of response to immunotherapy in hepatocellular carcinoma and that late-stage TLS may support T cell memory formation after elimination of a viable tumor.

Insights into Genes Encoding LEA_1 Domain-Containing Proteins in Cyperus esculentus, a Desiccation-Tolerant Tuber Plant

LEA_1 domain-containing proteins constitute a class of late-embryogenesis-abundant proteins that are highly hydrophilic and predominantly accumulate in mature seeds. Though LEA_1 proteins have been proven to be essential for seed desiccation tolerance and longevity, little information is available on their roles in non-seed storage organs. In this study, a first genome-wide characterization of the LEA_1 gene family was conducted in tigernut (Cyperus esculentus L., Cyperaceae), whose underground tubers are desiccation tolerant with a moisture content of less than 6%. Five family members identified in tigernut are comparative to four to six found in seven other Cyperaceae plants, but relatively more than three reported in Arabidopsis. Further comparison of 125 members from 29 plant species supports early divergence of the LEA_1 family into two phylogenetic groups before angiosperm radiation, and gene expansion in tigernut was contributed by whole-genome duplications occurring after the split with the eudicot clade. These two phylogenetic groups could be further divided into six orthogroups in the momocot clade, five of which are present in tigernut and the remaining one is Poaceae specific. Frequent structural variation and expression divergence of paralogs were also observed. Significantly, in contrast to seed-preferential expression of LEA_1 genes in Arabidopsis, rice, and maize, transcriptional profiling and qRT-PCR analysis revealed that CeLEA1 genes have evolved to predominantly express in tubers, exhibiting a seed desiccation-like accumulation during tuber development. Moreover, CeLEA1 transcripts in tubers were shown to be considerably more than that of their orthologs in purple nutsedge, another Cyperaceae plant producing desiccation-sensitive tubers. These results imply species-specific activation and key roles of CeLEA1 genes in the acquisition of desiccation tolerance of tigernut tubers as observed in orthodox seeds. Our findings not only improve the understanding of lineage-specific evolution of the LEA_1 family, but also provide valuable information for further functional analysis and genetic improvement in tigernut.

Duplication and sub-functionalization of flavonoid biosynthesis genes plays important role in Leguminosae root nodule symbiosis evolution.

Gene innovation plays an essential role in trait evolution. Rhizobial symbioses, the most important N2-fixing agent in agricultural systems that exists mainly in Leguminosae, is one of the most attractive evolution events. However, the gene innovations underlying Leguminosae root nodule symbiosis (RNS) remain largely unknown. Here, we investigated the gene gain event in Leguminosae RNS evolution through comprehensive phylogenomic analyses. We revealed that Leguminosae-gain genes were acquired by gene duplication and underwent a strong purifying selection. Kyoto Encyclopedia of Genes and Genomes analyses showed that the innovated genes were enriched in flavonoid biosynthesis pathways, particular downstream of chalcone synthase (CHS). Among them, Leguminosae-gain type Ⅱ chalcone isomerase (CHI) could be further divided into CHI1A and CHI1B clades, which resulted from the products of tandem duplication. Furthermore, the duplicated CHI genes exhibited exon-intron structural divergences evolved through exon/intron gain/loss and insertion/deletion. Knocking down CHI1B significantly reduced nodulation in Glycine max (soybean) and Medicago truncatula; whereas, knocking down its duplication gene CHI1A had no effect on nodulation. Therefore, Leguminosae-gain type Ⅱ CHI participated in RNS and the duplicated CHI1A and CHI1B genes exhibited RNS functional divergence. This study provides functional insights into Leguminosae-gain genetic innovation and sub-functionalization after gene duplication that contribute to the evolution and adaptation of RNS in Leguminosae.

The variable structural flexibility of the Bacillus circulans β-galactosidase isoforms determines their unique functionalities

β-Galactosidase from Bacillus circulans ATCC 31382 (BgaD) is a biotechnologically important enzyme for the synthesis of β-galactooligosaccharides (GOS). Among its four isoforms, isoform A (BgaD-A) has distinct synthetic properties. Here, we present cryoelectron microscopy (cryo-EM) structures of BgaD-A and compare them with the known X-ray crystal structure of isoform D (BgaD-D), revealing substantial structural divergences between the two isoforms. In contrast to BgaD-D, BgaD-A features a flexible Big-4 domain and another enigmatic domain. The newly identified flexible region in BgaD-A is termed as "barrier domain 8," and serves as a barricade, obstructing the access of longer oligosaccharide substrates into the active site of BgaD-A. The transgalactosylation reactions catalyzed by both isoforms revealed that BgaD-A has a higher selectivity than BgaD-D in the earlier stages of the reaction and is prevailingly directed to shorter galactooligosaccharides. This study improves our understanding of the structural determinants governing β-galactosidase catalysis, with implications for tailored GOS production.

Telomere-to-telomere assemblies of cattle and sheep Y-chromosomes uncover divergent structure and gene content.

Reference genomes of cattle and sheep have lacked contiguous assemblies of the sex-determining Y chromosome. Here, we assemble complete and gapless telomere to telomere (T2T) Y chromosomes for these species. We find that the pseudo-autosomal regions are similar in length, but the total chromosome size is substantially different, with the cattle Y more than twice the length of the sheep Y. The length disparity is accounted for by expanded ampliconic region in cattle. The genic amplification in cattle contrasts with pseudogenization in sheep suggesting opposite evolutionary mechanisms since their divergence 19MYA. The centromeres also differ dramatically despite the close relationship between these species at the overall genome sequence level. These Y chromosomes have been added to the current reference assemblies in GenBank opening new opportunities for the study of evolution and variation while supporting efforts to improve sustainability in these important livestock species that generally use sire-driven genetic improvement strategies.

Robust phylogenomics settles controversies of classification and reveals evolution of male embolic complex of the Laufeia clade (Araneae, Salticidae, Euophryini).

The Laufeia clade is a peculiar lineage of euophryine jumping spiders showing rapid divergence of male genital structures, especially the embolic complex that directly interacts with female genitalia during sperm transfer. With the rapid growth of species discovery and the perplexing morphology of male genitalia in the Laufeia clade, the controversy in its classification has become a crucial problem. In this study, we applied a phylogenomic approach using ultra-conserved elements data to infer the phylogeny of the Laufeia clade with extensive taxon sampling. A comparative morphological study was performed to evaluate diagnostic characters and understand the evolution of the male embolic complex within the Laufeia clade. The evolution of microhabitats (foliage, tree trunk, rock and surface litter) was also investigated to uncover the potential link between the microhabitat shifts and male embolic complex divergence. The results provide a strongly supported phylogenetic framework and updated generic concepts for the Laufeia clade. The synapomorphies for the updated genera within the Laufeia clade were identified through character mapping on the phylogeny. Ancestral state reconstruction analyses revealed that the Type I embolic complex (characterized by a disc-like embolic disc with a lamina as its outer edge) was ancestral and gradually evolved into the Type II (without lamina of embolic disc, base of embolic complex often modified into a functional "conductor") and Type III (lacking lamina of embolic disc and base of embolic complex) embolic complex, and that some embolic shapes evolved multiple times independently in different lineages of the Laufeia clade. The shift from foliage-dwelling to tree trunk-dwelling in the common ancestor of the Laufeia clade may have facilitated the divergent evolution of male embolic complex in the Laufeia clade. This study provides a solid foundation for future studies of systematics and evolution of this group.

A comparative analysis of planarian genomes reveals regulatory conservation in the face of rapid structural divergence

The planarian Schmidtea mediterranea is being studied as a model species for regeneration, but the assembly of planarian genomes remains challenging. Here, we report a high-quality haplotype-phased, chromosome-scale genome assembly of the sexual S2 strain of S. mediterranea and high-quality chromosome-scale assemblies of its three close relatives, S. polychroa, S. nova, and S. lugubris. Using hybrid gene annotations and optimized ATAC-seq and ChIP-seq protocols for regulatory element annotation, we provide valuable genome resources for the planarian research community and a first comparative perspective on planarian genome evolution. Our analyses reveal substantial divergence in protein-coding sequences and regulatory regions but considerable conservation within promoter and enhancer annotations. We also find frequent retrotransposon-associated chromosomal inversions and interchromosomal translocations within the genus Schmidtea and, remarkably, independent and nearly complete losses of ancestral metazoan synteny in Schmidtea and two other flatworm groups. Overall, our results suggest that platyhelminth genomes can evolve without syntenic constraints.

Evaluation of the incident management system of a bigger city during the winter flood 2023/24 in northern Germany: Organized (ir)responsibility in the pre-disaster phase

Incident management systems operate within complex and uncertain conditions during disasters. Therefore, researching their activities is challenging as there is no clear right or wrong. The winter 2023/2024 flood event in the city of Oldenburg, Germany, provided an opportunity to evaluate crisis management under high uncertainty, although no disaster has eventually occurred. Three stakeholder groups of the Incident Management System were examined through After-Action Reviews: The Emergency Operation Center (EOC), specialist advisors, and the Area Command (AC). Data on performance shaping factors (descriptions and judgements) were collected and analyzed using the Countenance Evaluation Model as a general framework in combination with a Systems-Thinking approach. The study aimed to identify variables within and between groups as well as factors in the environment that either hindered or facilitated work transactions. It emerged that the work organization in bodies of public administration is at odds with the uncertain, fast-paced, and problem-oriented structure of Incident Management System operations, causing stress and adding workload to employees. Additionally, the separation of strategic and tactical decision making led to coordination issues due to divergent time structures and task logics of EOC and AC. Furthermore, although specialist advisors played a crucial role in risk assessments and setting the direction of risk mitigation activities, it became clear that this person related resource is scarce and difficult to embed into the Incident Command System. A final finding is the importance of the larger Emergency Operation Center working environment. The spatial constraints and noise levels caused stress.

The Diagnostic Analysis of the Thermodynamic Characteristics of Typhoon “Maysak” during Its Transformation Process

This study utilized high-resolution numerical simulation data from the WRF model to conduct a thermodynamic diagnosis of the process by which Typhoon “Maysak” transformed and merged with the Northeast Cold Vortex. The results indicated that the continuous intrusion of cold vortex air and the relative cold advection formed by the typhoon’s movement led to the demise of the typhoon’s warm core structure. The low-level low-pressure convergence and upper-level high-pressure divergence structure disappeared. After the transformation and merging with the Northeast Cold Vortex, the cyclone became cold throughout the entire layer, with a cold center appearing at low levels. During the process of the typhoon’s transformation and merging with the Northeast Cold Vortex, cold air accumulated near the low levels of the cyclone, causing the pseudo-adiabatic potential temperature lines to tilt and resulting in the slanted development of vertical vorticity in the mid-levels of the cyclone. After the typhoon transformed and merged with the Northeast Cold Vortex, the positive vertical vorticity advection at the bottom of the upper-level cold vortex trough promoted the cyclone’s development directly from the mid-levels to the upper levels, while the jet stream at the bottom of the cold vortex trough facilitated the maintenance of the positive vertical vorticity advection. Concurrently, the thermodynamic shear vorticity parameter could describe the typical vertical structure characteristics of the dynamic and thermodynamic fields above the rain area during the typhoon transformation process. In terms of temporal evolution trends, there was a certain correspondence with the development and movement of the ground rain area, and the perturbation thermodynamic divergence parameter had a good indicative effect on the area of heavy rainfall.

Unexplored microbial diversity from 2,500 food metagenomes and links with the human microbiome

Complex microbiomes are part of the food we eat and influence our own microbiome, but their diversity remains largely unexplored. Here, we generated the open access curatedFoodMetagenomicData (cFMD) resource by integrating 1,950 newly sequenced and 583 public food metagenomes. We produced 10,899 metagenome-assembled genomes spanning 1,036 prokaryotic and 108 eukaryotic species-level genome bins (SGBs), including 320 previously undescribed taxa. Food SGBs displayed significant microbial diversity within and between food categories. Extension to >20,000 human metagenomes revealed that food SGBs accounted on average for 3% of the adult gut microbiome. Strain-level analysis highlighted potential instances of food-to-gut transmission and intestinal colonization (e.g., Lacticaseibacillus paracasei) as well as SGBs with divergent genomic structures in food and humans (e.g., Streptococcus gallolyticus and Limosilactobabillus mucosae). The cFMD expands our knowledge on food microbiomes, their role in shaping the human microbiome, and supports future uses of metagenomics for food quality, safety, and authentication.

Beyond N = ∞ in large N conformal vector models at finite temperature

We investigate finite-temperature observables in three-dimensional large N critical vector models taking into account the effects suppressed by 1N\\documentclass[12pt]{minimal} \\usepackage{amsmath} \\usepackage{wasysym} \\usepackage{amsfonts} \\usepackage{amssymb} \\usepackage{amsbsy} \\usepackage{mathrsfs} \\usepackage{upgreek} \\setlength{\\oddsidemargin}{-69pt} \\begin{document}$$ \\frac{1}{N} $$\\end{document}. Such subleading contributions are captured by the fluctuations of the Hubbard-Stratonovich auxiliary field which need to be handled with care due to a subtle divergence structure which we clarify. The examples we consider include the scalar O(N) model, the Gross-Neveu model, the Nambu-Jona-Lasinio model and the massless Chern-Simons Quantum Electrodynamics. We present explicit results for the free energy density to the subleading order in 1N\\documentclass[12pt]{minimal} \\usepackage{amsmath} \\usepackage{wasysym} \\usepackage{amsfonts} \\usepackage{amssymb} \\usepackage{amsbsy} \\usepackage{mathrsfs} \\usepackage{upgreek} \\setlength{\\oddsidemargin}{-69pt} \\begin{document}$$ \\frac{1}{N} $$\\end{document}, which captures the thermal one-point function of the stress-energy tensor to this order. We also include the dependence on a chemical potential. We determine the Wilson coefficient in the thermal effective action that is sensitive to global symmetry for the first time directly in interacting CFTs, which produces a symmetry-resolved asymptotic density of states. We further provide a formula from diagrammatics for the one-point functions of general single-trace higher-spin currents. We observe that in most cases considered, these subleading effects lift the apparent degeneracies between observables in different models at infinite N, while in special cases the discrepancies only start to appear at the next-to-subleading order.

Advanced Structure Analysis Reveals a Transient Portimine B Hydrate.

Portimine B was isolated from an extract derived from the dinoflagellate Vulcanodinium rugosum, a known producer of the closely related portimine A. Initial molecular characterization studies of portimine B suggested an open tetrahydrofuranyl ring isomer, contrary to the intact ring moiety found in portimine A. In 2023, the Baran lab synthesized both portimines A and B suggesting that both macrocyclic analogs contained the intact tetrahydrofuranyl ring. In this note, we utilize newly acquired NMR data, the i-HMBC NMR experiment, and advanced density functional theory calculations to define the structural divergence, originating from the presence of a transient hydrate.