Cave Pools in Carlsbad Caverns National Park Contain Diverse Bacteriophage Communities and Novel Viral Sequences.

Viruses are the most abundant biological entities on Earth, and they play a critical role in the environment and biosphere where they regulate microbial populations and contribute to nutrient cycling. Environmental viruses have been the most studied in the ocean, but viral investigations have now spread to other environments. Here, viral communities were characterized in four cave pools in Carlsbad Caverns National Park to test the hypotheses that (i) viral abundance is ten-fold higher than prokaryotic cell abundance in cavern pools, (ii) cavern pools contain novel viral sequences, and (iii) viral communities in pools from developed portions of the cave are distinct from those of pools in undeveloped parts of the same cave.

Agro-industrial wastes and their application perspectives in metal decontamination using biocomposites and bacterial biomass: a review.

Contamination of water bodies is a significant global issue that results from the deliberate release of pollutants into the environment, especially from mining and metal processing industries. The main pollutants generated by these industries are metallic wastes, particularly metals, which can cause adverse effects on the environment and human health. Therefore, it is crucial to develop effective and sustainable approaches to prevent their discharge into the environment.

Radiolytic support for oxidative metabolism in an ancient subsurface brine system.

Long-isolated subsurface brine environments (Ma-Ga residence times) may be habitable if they sustainably provide substrates, e.g. through water-rock reactions, that support microbial catabolic energy yields exceeding maintenance costs.

MIBiG 4.0: advancing biosynthetic gene cluster curation through global collaboration.

Specialized or secondary metabolites are small molecules of biological origin, often showing potent biological activities with applications in agriculture, engineering and medicine. Usually, the biosynthesis of these natural products is governed by sets of co-regulated and physically clustered genes known as biosynthetic gene clusters (BGCs). To share information about BGCs in a standardized and machine-readable way, the Minimum Information about a Biosynthetic Gene cluster (MIBiG) data standard and repository was initiated in 2015.

Living in Their Heyday: Iron-Oxidizing Bacteria Bloomed in Shallow-Marine, Subtidal Environments at ca. 1.88 Ga.

The majority of large iron formations (IFs) were deposited leading up to Earth's great oxidation episode (GOE). Following the GOE, IF deposition decreased for almost 500 Myr. Subsequently, around 1.

Thermoplastic Molding of Silk-Curcumin Sustainable Composite Materials with Antibacterial Properties.

Silk fibroin (SF) is a natural protein generated from the silkworm cocoons. It is useful for many different material applications. Versatile aqueous process engineering options can be used to support the morphological and structural modifications of silk materials related to tailored physical, chemical, and biological properties.

T'ah kóó hóniidló, we're still HERE! Mining legacies, Indigenous health and innovative solutions.

In the world today, there are many unknowns especially with rising environmental concerns. However, one of the most important is an irreplaceable and shared resource, water or as the Diné (Navajo) refer to as, Tó. Throughout the world many Indigenous communities are facing water challenges, from lack of and access to adequate infrastructure, water rights, climate change and water contamination issues due to a variety of sources including anthropogenic sources like mining, especially, on the Navajo (Diné) reservation.

Two-molecule theory of polyethylene liquids.

Two-molecule theory refers to a class of microscopic, self-consistent field theories for the radial distribution function in classical molecular liquids. The version examined here can be considered as one of the very few formally derived closures to the reference interaction site model (RISM) equation. The theory is applied to polyethylene liquids, computing their equilibrium structural and thermodynamic properties at melt densities.

An integrated framework of deep learning and entropy theory for enhanced high-dimensional permeability field identification in heterogeneous aquifers.

Accurately estimating high-dimensional permeability (k) fields through data assimilation is critical for minimizing uncertainties in groundwater flow and solute transport simulations. However, designing an effective monitoring network to obtain diverse system responses in heterogeneous aquifers for data assimilation presents significant challenges. To investigate the influence of different measurement types (hydraulic heads, solute concentrations, and permeability) and monitoring strategies on the accuracy of permeability characterization, this study integrates a deep learning-based surrogate modeling approach and the entropy-based maximum information minimum redundancy (MIMR) monitoring design criterion into a data assimilation framework.

Optimization of Crystal Structures in Polylithionite Concentrate: A Molecular Dynamics Approach to Lithium Extraction Efficiency.

Molecular dynamics (MD) techniques offer significant potential for optimizing mineral extraction processes by simulating economically or physically restrictive conditions at the laboratory level. Lithium, a crucial metal in the electromobility era, exemplifies the need for ongoing re-evaluation of extraction techniques. This research aims to simulate the crystal structures of mineral species present in a polylithionite mineral concentrate [KLiAl(SiO)(F,OH)] using crystallographic data obtained from X-ray diffraction analysis.

Ab Initio Molecular Dynamics Investigation of Water and Butanone Adsorption on UiO-66 with Defects.

Volatile organic compounds (VOCs) are harmful chemicals that are found in minute quantities in the atmosphere and are emitted from a variety of industrial and biological processes. They can be harmful to breathe or serve as biomarkers for disease detection. Therefore, capture and detection of VOCs is important.

Biophysical Modelling for Insight into Oxygen Diffusion, Distribution, and Measurement.

Building on an extensive history of physiological and systems-oriented modelling, my group and others have recently used molecular simulation studies to understand oxygen (O) transport and localisation. Molecular simulations enable biophysical insight into processes difficult to study with experiments alone and are sometimes described as a "computational microscope." Our work has emphasised lipid membrane contributions to oxygen diffusion and uptake, suggesting that lipid-based pathways along membranes and lipid deposits are likely to accelerate diffusive transport through cells and tissues.

Flickering gamma-ray flashes, the missing link between gamma glows and TGFs.

Two different hard-radiation phenomena are known to originate from thunderclouds: terrestrial gamma-ray flashes (TGFs) and gamma-ray glows. Both involve an avalanche of electrons accelerated to relativistic energies but are otherwise different. Glows are known to last for one to hundreds of seconds, have moderate intensities and originate from quasi-stationary thundercloud fields.

Highly dynamic gamma-ray emissions are common in tropical thunderclouds.

Thunderstorms emit fluxes of gamma rays known as gamma-ray glows, sporadically observed by aircraft, balloons and from the ground. Observations report increased gamma-ray emissions by tens of percent up to two orders of magnitude above the background, sometimes abruptly terminated by lightning discharges. Glows are produced by the acceleration of energetic electrons in high-electric-field regions within thunderclouds and contribute to charge dissipation.

Unlocking Solutions: Innovative Approaches to Identifying and Mitigating the Environmental Impacts of Undocumented Orphan Wells in the United States.

In the United States, hundreds of thousands of undocumented orphan wells have been abandoned, leaving the burden of managing environmental hazards to governmental agencies or the public. These wells, a result of over a century of fossil fuel extraction without adequate regulation, lack basic information like location and depth, emit greenhouse gases, and leak toxic substances into groundwater. For most of these wells, basic information such as well location and depth is unknown or unverified.

Genome-wide patterns of homoeologous gene flow in allotetraploid coffee.

Premise: Allopolyploidy-a hybridization-induced whole-genome duplication event-has been a major driver of plant diversification. The extent to which chromosomes pair with their proper homolog vs. with their homoeolog in allopolyploids varies across taxa, and methods to detect homoeologous gene flow (HGF) are needed to understand how HGF has shaped polyploid lineages.

Comprehensive design and performance validation of a wind tunnel for advanced respirable dust deposition investigations.

This study presents the comprehensive design and performance validation of a wind tunnel specifically developed for advanced investigations into respirable dust deposition pertinent to coal mining environments. The design integrates a constant particle delivery system engineered to maintain uniform particle dispersion, which is critical for replicating real-world conditions in coal mines. Our methodology involved using ANSYS Fluent for the design and optimization of a blowing-type wind tunnel, with a focus on controlling turbulence levels and minimizing pressure drops, which are crucial for accurate dust behaviour simulation.

First Simultaneous Measurement of Differential Muon-Neutrino Charged-Current Cross Sections on Argon for Final States with and without Protons Using MicroBooNE Data.

We report the first double-differential neutrino-argon cross section measurement made simultaneously for final states with and without protons for the inclusive muon neutrino charged-current interaction channel. The proton kinematics of this channel are further explored with a differential cross section measurement as a function of the leading proton's kinetic energy that extends across the detection threshold. These measurements use data collected with the MicroBooNE detector from 6.

Developments and applications of the OPTIMADE API for materials discovery, design, and data exchange.

The Open Databases Integration for Materials Design (OPTIMADE) application programming interface (API) empowers users with holistic access to a growing federation of databases, enhancing the accessibility and discoverability of materials and chemical data. Since the first release of the OPTIMADE specification (v1.0), the API has undergone significant development, leading to the v1.

Discovery of antimicrobial peptides clostrisin and cellulosin from Clostridium: insights into their structures, co-localized biosynthetic gene clusters, and antibiotic activity.

Antimicrobial resistance presents a substantial threat to global public health, demanding urgent attention and action. This study focuses on lanthipeptides, ribosomally encoded peptides that display significant structural diversity and hold promising potential as antibiotics. Genome mining was employed to locate biosynthetic gene clusters (BGCs) containing class II lanthipeptide synthetases encoded by genes.

Little evidence for homoeologous gene conversion and homoeologous exchange events in Gossypium allopolyploids.

Premise: A complicating factor in analyzing allopolyploid genomes is the possibility of physical interactions between homoeologous chromosomes during meiosis, resulting in either crossover (homoeologous exchanges) or non-crossover products (homoeologous gene conversion). Homoeologous gene conversion was first described in cotton by comparing SNP patterns in sequences from two diploid progenitors with those from the allopolyploid subgenomes. These analyses, however, did not explicitly consider other evolutionary scenarios that may give rise to similar SNP patterns as homoeologous gene conversion, creating uncertainties about the reality of the inferred gene conversion events.