How can we make sound replication decisions?

Replication and the reported crises impacting many fields of research have become a focal point for the sciences. This has led to reforms in publishing, methodological design and reporting, and increased numbers of experimental replications coordinated across many laboratories. While replication is rightly considered an indispensable tool of science, financial resources and researchers' time are quite limited.

Automating the practice of science: Opportunities, challenges, and implications.

Automation transformed various aspects of our human civilization, revolutionizing industries and streamlining processes. In the domain of scientific inquiry, automated approaches emerged as powerful tools, holding promise for accelerating discovery, enhancing reproducibility, and overcoming the traditional impediments to scientific progress. This article evaluates the scope of automation within scientific practice and assesses recent approaches.

Is Ockham's razor losing its edge? New perspectives on the principle of model parsimony.

The preference for simple explanations, known as the parsimony principle, has long guided the development of scientific theories, hypotheses, and models. Yet recent years have seen a number of successes in employing highly complex models for scientific inquiry (e.g.

A Primer on Proteomic Characterization of Intercellular Communication in a Virus Microenvironment.

Intercellular communication is fundamental to multicellular life and a core determinant of outcomes during viral infection, where the common goals of virus and host for persistence and replication are generally at odds. Hosts rely on encoded innate and adaptive immune responses to detect and clear viral pathogens, while viruses can exploit or disrupt these pathways and other intercellular communication processes to enhance their spread and promote pathogenesis. While virus-induced signaling can result in systemic changes to the host, striking alterations are observed within the cellular microenvironment directly surrounding a site of infection, termed the virus microenvironment (VME).

Structural and functional analysis of SAM-dependent N-methyltransferases involved in ovoselenol and ovothiol biosynthesis.

Thio/selenoimidazole Nπ-methyltransferases are an emerging family of enzymes catalyzing the final step in the production of the S/Se-containing histidine-derived antioxidants ovothiol and ovoselenol. These enzymes, prevalent in prokaryotes, show minimal sequence similarity to other methyltransferases, and the structural determinants of their reactivities remain poorly understood. Herein, we report ligand-bound crystal structures of OvsM from the ovoselenol pathway as well as a member of a previously unknown clade of standalone ovothiol-biosynthetic Nπ-methyltransferases, which we have designated OvoM.

Macromolecular interactions and geometrical confinement determine the 3D diffusion of ribosome-sized particles in live cells.

The crowded bacterial cytoplasm is composed of biomolecules that span several orders of magnitude in size and electrical charge. This complexity has been proposed as the source of the rich spatial organization and apparent anomalous diffusion of intracellular components, although this has not been tested directly. Here, we use biplane microscopy to track the 3D motion of self-assembled bacterial genetically encoded multimeric nanoparticles (bGEMs) with tunable size (20 to 50 nm) and charge (-3,240 to +2,700 e) in live cells.

Iron limitation triggers roseoceramide biosynthesis and membrane remodeling in marine roseobacter.

Chemical communication between marine bacteria and their algal hosts drives population dynamics and ultimately determines the fate of major biogeochemical cycles in the ocean. To gain deeper insights into this small molecule exchange, we screened niche-specific metabolites as potential modulators of the secondary metabolome of the roseobacter, . Metabolomic analysis led to the identification of a group of cryptic lipids that we have termed roseoceramides.

Cognitive neuroscience: How the brain navigates abstract task spaces.

Humans and other animals learn the abstract structure of a task and then use this structure to rapidly generalize to new situations. A recent study reveals how the brain builds and uses abstract task representations.

The 2025 Motile Active Matter Roadmap.

Activity and autonomous motion are fundamental aspects of many living and engineering systems. Here, the scale of biological agents covers a wide range, from nanomotors, cytoskeleton, and cells, to insects, fish, birds, and people. Inspired by biological active systems, various types of autonomous synthetic nano- and micromachines have been designed, which provide the basis for multifunctional, highly responsive, intelligent active materials.

Pinch-off dynamics of emulsion filaments before and after polymerization of the internal phase.

The capillary break-up of complex fluid filaments occurs in many scientific and industrial applications, particularly in bio-printing where both liquid and polymerized droplets exist in the fluid. The simultaneous presence of fluid and solid particles within a carrier fluid and their interactions lead to deviations in the filament break-up from the well-established capillary breakup dynamics of single-phase liquids. To examine the significance of the dispersed phase and the internal interactions between liquid droplets and solid particles, we prepare emulsions through photopolymerization and conduct experimental investigations into the pinch-off dynamics of fluid filaments, focusing on the impact of varying concentrations of liquid droplets (before polymerization) and polymerized droplets.

Structured protein domains enter the spotlight: modulators of biomolecular condensate form and function.

Biomolecular condensates are membraneless organelles that concentrate proteins and nucleic acids. One of the primary components of condensates is multidomain proteins, whose domains can be broadly classified as structured and disordered. While structured protein domains are ubiquitous within biomolecular condensates, the physical ramifications of their unique properties have been relatively underexplored.

Diet-induced obesity mediated through estrogen-related receptor α is independent of intestinal function.

Obesity has escalated to epidemic proportions, driving significant advances in therapeutic strategies aimed at combating this condition. The Estrogen-related receptor α (ESRRA), a transcription factor, plays pivotal roles in energy metabolism across multiple tissues. Research has consistently shown that the absence of Esrra results in notable fat malabsorption and increased resistance to diet-induced obesity.

Probing the functional constraints of influenza A virus NEP by deep mutational scanning.

The influenza A virus nuclear export protein (NEP) is a multifunctional protein that is essential for the viral life cycle and has very high sequence conservation. However, since the open reading frame of NEP largely overlaps with that of another influenza viral protein, non-structural protein 1, it is difficult to infer the functional constraints of NEP based on sequence conservation analysis. In addition, the N-terminal of NEP is structurally disordered, which further complicates the understanding of its function.

Spatially programmed alignment and actuation in printed liquid crystal elastomers.

Liquid crystal elastomers (LCEs) exhibit reversible shape morphing behavior when cycled above their nematic-to-isotropic transition temperature. During extrusion-based 3D printing, LCE inks are subjected to coupled shear and extensional flows that can be harnessed to spatially control the alignment of their nematic director along prescribed print paths. Here, we combine experiment and modeling to elucidate the effects of ink composition, nozzle geometry, and printing parameters on director alignment.

A histochemical approach to activity-based copper sensing reveals cuproplasia-dependent vulnerabilities in cancer.

Copper is an essential nutrient for sustaining vital cellular processes spanning respiration, metabolism, and proliferation. However, loss of copper homeostasis, particularly misregulation of loosely bound copper ions which are defined as the labile copper pool, occurs in major diseases such as cancer, where tumor growth and metastasis have a heightened requirement for this metal. To help decipher the role of copper in the etiology of cancer, we report a histochemical activity-based sensing approach that enables systematic, high-throughput profiling of labile copper status across many cell lines in parallel.

High-resolution isotopic data link settlement complexification to infant diets within the Roman Empire.

Our study explores the potential relationship between infant feeding practices and settlement complexity in the Roman Empire through high-resolution Bayesian-modeled stable isotope measurements from incremental dentine. We compiled isotopic data from permanent first molars of individuals from various Roman sites: five from Bainesse (UK), 30 from Thessaloniki (Greece), along with new carbon and nitrogen isotope analyses from four individuals from Pompeii and six from Ostia Via del Mare (AVM). Our results reveal significant inter-site variability in breastfeeding durations, ranging from 1.

Fact-checks focus on famous politicians, not partisans.

Does the fact-checking enterprise focus its attention on one party? If Republican or Democratic politicians were systematically more likely to have their statements evaluated, that would call into question both the impartiality of the fact-checking enterprise and the results of the many papers that rely on fact-checks to drive other measurements. Despite frequent claims that fact-checking organizations are biased against Republicans, there is little systematic evidence regarding political bias in this industry. We address these gaps using data on how often each member of Congress was fact-checked from 2018 to 2021.

Expansion of a conserved architecture drives the evolution of the primate visual cortex.

Human brain evolution is marked by a disproportionate expansion of cortical regions associated with advanced perceptual and cognitive functions. While this expansion is often attributed to the emergence of novel specialized brain areas, modifications to evolutionarily conserved cortical regions also have been linked to species-specific behaviors. Distinguishing between these two evolutionary outcomes has been limited by the ability to make direct comparisons between species.

Reducing Cofilin dosage makes embryos resilient to heat stress.

In addition to regulating the actin cytoskeleton, Cofilin also senses and responds to environmental stress. Cofilin can promote cell survival or death depending on context. Yet, many aspects of Cofilin's role in survival need clarification.

The North American Repository for Archaeological Isotopes.

Here, we present the North American Repository for Archaeological Isotopes (NARIA), the largest open-access compilation of previously reported isotopic measurements (n = 28,374) from bioarchaeological samples in North America (i.e., Canada, Greenland, Mexico, and the United States of America) covering a time-frame of more than 12,000 years.

Contrastive learning of T cell receptor representations.

Computational prediction of the interaction of T cell receptors (TCRs) and their ligands is a grand challenge in immunology. Despite advances in high-throughput assays, specificity-labeled TCR data remain sparse. In other domains, the pre-training of language models on unlabeled data has been successfully used to address data bottlenecks.

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.

Infection-induced lysine lactylation enables herpesvirus immune evasion.

Aerobic glycolysis is a hallmark of many viral infections, leading to substantial accumulation of lactate. However, the regulatory roles of lactate during viral infections remain poorly understood. Here, we report that human cytomegalovirus (HCMV) infection leverages lactate to induce widespread protein lactylation and promote viral spread.