Artificial Intelligence Transforming Post-Translational Modification Research.

Post-Translational Modifications (PTMs) are covalent changes to amino acids that occur after protein synthesis, including covalent modifications on side chains and peptide backbones. Many PTMs profoundly impact cellular and molecular functions and structures, and their significance extends to evolutionary studies as well. In light of these implications, we have explored how artificial intelligence (AI) can be utilized in researching PTMs.

Differential responses of plant and microbial respiration to extreme precipitation and drought during spring and summer in the Eurasian meadow steppe.

Increasing extreme precipitation and drought events along changes in their seasonal patterns due to climate change are expected to have profound consequences for carbon cycling. However, how these climate extremes impact ecosystem respiration (R) and whether these impacts differ between seasons remain unclear. Here, we reveal the responses of R and its components to extreme precipitation and drought in spring and summer by conducting a five-year manipulative experiment in a temperate meadow steppe.

A paradigm shift for evaluating natural attenuation of radioactive iodine in soils and sediments: Species-specific mechanisms and pathways.

The primary approach to assessing monitored natural attenuation (MNA) is currently based on a conceptual model utilizing the total contaminant concentrations, assuming a single aqueous species. However, many contaminants, such as metals and radionuclide - including iodine, can exist in multiple species that behave chemically differently in the environment and can exist simultaneously. For example, radioiodine often occurs concurrently as three major aqueous species: iodide (I), iodate (IO), and organo-I, which undergo distinct attenuation pathways and exhibit markedly different mobility and geochemical behavior.

A coarse-grained model of clay colloidal aggregation and consolidation with explicit representation of the electrical double layer.

Knowledge Gap: The aggregation of clay minerals in liquid water exemplifies colloidal self-assembly in nature. These negatively charged aluminosilicate platelets interact through multiple mechanisms with different sensitivities to particle shape, surface charge, aqueous chemistry, and interparticle distance and exhibit complex aggregation structures. Experiments have difficulty resolving the associated colloidal assemblages at the scale of individual particles.

Sub-5 Ångstrom Porosity Tuning in Calixarene-Derived Porous Liquids via Supramolecular Complexation Construction.

Sub-Ångstrom-level porosity engineering, which is appealing in gas separations, has been demonstrated in solid carbon, polymer, and framework materials but rarely achieved in the liquid phase. In this work, a gas molecular sieving effect in the liquid phase at sub-5 Ångstrom scale is created via sophisticated porosity tuning in calixarene-derived porous liquids (PLs). Type II PLs are constructed via supramolecular complexation between the sodium salts of calixarene derivatives and crown ether solvents.

Fe starvation induces a second LHCI tetramer to photosystem I in green algae.

Iron (Fe) availability limits photosynthesis at a global scale where Fe-rich photosystem (PS) I abundance is drastically reduced in Fe-poor environments. We used single-particle cryo-electron microscopy to reveal a unique Fe starvation-dependent arrangement of light-harvesting chlorophyll (LHC) proteins where Fe starvation-induced TIDI1 is found in an additional tetramer of LHC proteins associated with PSI in and . These cosmopolitan green algae are resilient to poor Fe nutrition.

Tree drought physiology: critical research questions and strategies for mitigating climate change effects on forests.

Droughts of increasing severity and frequency are a primary cause of forest mortality associated with climate change. Yet, fundamental knowledge gaps regarding the complex physiology of trees limit the development of more effective management strategies to mitigate drought effects on forests. Here, we highlight some of the basic research needed to better understand tree drought physiology and how new technologies and interdisciplinary approaches can be used to address them.

Aromatic amino acid metabolism and active transport regulation are implicated in microbial persistence in fractured shale reservoirs.

Hydraulic fracturing has unlocked vast amounts of hydrocarbons trapped within unconventional shale formations. This large-scale engineering approach inadvertently introduces microorganisms into the hydrocarbon reservoir, allowing them to inhabit a new physical space and thrive in the unique biogeochemical resources present in the environment. Advancing our fundamental understanding of microbial growth and physiology in this extreme subsurface environment is critical to improving biofouling control efficacy and maximizing opportunities for beneficial natural resource exploitation.

The promising role of proteomes and metabolomes in defining the single-cell landscapes of plants.

The plant community has a strong track record of RNA sequencing technology deployment, which combined with the recent advent of spatial platforms (e.g. 10× genomics) has resulted in an explosion of single-cell and nuclei datasets that can be positioned in an in situ context within tissues (e.

Evolution of sulfonated tannins in red wines with ageing: A targeted metabolomic approach.

During wine ageing, tannins could react with sulfur dioxide to form sulfonated flavanols which are anticipated to alter tannin binding to proteins contributing to the reduction of astringency during ageing. Previous studies have identified or quantified monomeric and dimeric sulfonated flavanols in aged wines, but the evolution of sulfonated tannins has been lacking. Here, we quantified sulfonated tannins in three Washington state vineyards over a 20-year period, employing targeted LC-QToF analysis.

The Natural Products Magnetic Resonance Database (NP-MRD) for 2025.

The Natural Products Magnetic Resonance Database (NP-MRD; https://np-mrd.org) is a comprehensive, freely accessible, web-based resource for the deposition, distribution, extraction, and retrieval of nuclear magnetic resonance (NMR) data on natural products (NPs). The NP-MRD was initially established to support compound de-replication and data dissemination for the NP community.

Identification of novel microcystins in algal extracts by a liquid chromatography-high-resolution mass spectrometry data analysis pipeline.

Background: Microcystins are an emergent public health problem. These toxins are secondary metabolites of harmful cyanobacterial blooms, with blooms becoming more prevalent with eutrophication of water. Exposure to microcystins can result in sickness, liver damage, and even death.

The human plasma lipidome response to exertional heat tolerance testing.

Background: The year of 2023 displayed the highest average global temperatures since it has been recorded-the duration and severity of extreme heat are projected to increase. Rising global temperatures represent a major public health threat, especially to occupations exposed to hot environments, such as construction and agricultural workers, and first responders. Despite efforts of the scientific community, there is still a need to characterize the pathophysiological processes leading to heat related illness and develop biomarkers that can predict its onset.

Progress on Photo-, Electro-, and Photoelectro-Catalytic Conversion of Recalcitrant Polyethylene, Polypropylene, and Polystyrene - A Review.

Recalcitrant waste plastics such a polyethylene, polypropylene, and polystyrene are difficult to recycle and are mostly disposed of in landfills and eventually leached into the environmental as micro- and nano-plastics. This review explores how photo-, electro-, and combined photoelectro-catalytic processes can assist in the degradation and upcycling of waste plastic into different chemicals and mitigate their release to the environment. In this work, we discuss how the different reaction mechanisms proceed, explore the current relevant literature, and highlight the developments needed to advance the field.

Novel Toxin Biosynthetic Gene Cluster in Harmful Algal Bloom-Causing Heteroscytonema crispum: Insights into the Origins of Paralytic Shellfish Toxins.

Caused by both eukaryotic dinoflagellates and prokaryotic cyanobacteria, harmful algal blooms are events of severe ecological, economic, and public health consequence, and their incidence has become more common of late. Despite coordinated research efforts to identify and characterize the genomes of harmful algal bloom-causing organisms, the genomic basis and evolutionary origins of paralytic shellfish toxins produced by harmful algal blooms remain at best incomplete. The paralytic shellfish toxin saxitoxin has an especially complex genomic architecture and enigmatic phylogenetic distribution, spanning dinoflagellates and multiple cyanobacterial genera.

Ameloblastin binding to biomimetic models of cell membranes - A continuum of intrinsic disorder.

Objective: A 37-residue amino acid sequence corresponding to the segment encoded by exon-5 of murine ameloblastin (Ambn), AB2 (Y67-Q103), has been implicated with membrane association, ameloblastin self-assembly, and amelogenin-binding. Our aim was to characterize, at the residue level, the structural behavior of AB2 bound to chemical mimics of biological membranes using NMR spectroscopy.

Design: To better define the structure of AB2 using NMR-based methods, recombinant C- and N-labelled AB2 (*AB2) was prepared and data collected free in solution and with deuterated dodecylphosphocholine (dPC) micelles, deuterated bicelles, and both small and large unilamellar vesicles.

Tracking the topology of neural manifolds across populations.

Neural manifolds summarize the intrinsic structure of the information encoded by a population of neurons. Advances in experimental techniques have made simultaneous recordings from multiple brain regions increasingly commonplace, raising the possibility of studying how these manifolds relate across populations. However, when the manifolds are nonlinear and possibly code for multiple unknown variables, it is challenging to extract robust and falsifiable information about their relationships.

Mineral-associated organic matter is heterogeneous and structured by hydrophobic, charged, and polar interactions.

The formation of mineral-associated organic matter (MAOM) is a key phenomenon that may explain the slow turnover rates of carbon in soil organic matter (SOM). Despite this, important details pertaining to the structure and dynamics of MAOM remain unknown. In the present study, we use replica-exchange molecular dynamics simulations to gain insight into the structure of MAOM on the surface of prototypical phyllosilicate clay and Fe-oxide minerals, montmorillonite and goethite, fine-grained minerals that strongly impact soil carbon dynamics in temperate and tropical regions, respectively.

2D Nitrogen-Doped Graphene Materials for Noble Gas Separation.

Noble gases, notably xenon, play a pivotal role in diverse high-tech applications. However, manufacturing xenon is an inherently challenging task, due to its unique properties and trace abundance in the Earth's atmosphere. Consequently, there is a pressing need for the development of efficient methods for the separation of noble gases.

Weathering influences the ice nucleation activity of microplastics.

Microplastics are being increasingly detected in the atmosphere at altitudes relevant to mixed-phase cloud formation. However, the extent to which microplastics, along with their dynamic surface properties resulting from environmental weathering, could influence atmospheric microphysical processes remains largely unexplored. Here, through a series of ice nucleation experiments and droplet freezing assays, we highlight the capability of model polyethylene microplastics to induce heterogeneous ice nucleation via immersion freezing under atmospherically relevant conditions.

A molecular view of peptoid-induced acceleration of calcite growth.

The extensive deposits of calcium carbonate (CaCO) generated by marine organisms constitute the largest and oldest carbon dioxide (CO) reservoir. These organisms utilize macromolecules like peptides and proteins to facilitate the nucleation and growth of carbonate minerals, serving as an effective method for CO sequestration. However, the precise mechanisms behind this process remain elusive.

Chemical and spectroscopic characterization of plutonium tetrafluoride.

Anhydrous plutonium tetrafluoride is an important intermediate in the production of metallic Pu. This historically important compound is also known to exist in at least two distinct, yet understudied hydrate forms, PuF·HO(s) (0.5 ≤ ≤ 2) and PuF·2.