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Here, the authors show that multiplex autism spectrum disorder (ASD) families share more gut bacterial strains than healthy families, with distinct strain-sharing patterns highlighting how family environments shape microbial configurations in ASD.

A skeleton of the alvarezsauroid Alnashetri cerropoliciensis—representing a highly complete alvarezsauroid skeleton from South America—provides evidence on the evolution of the peculiar anatomy and miniaturization within this unusual theropod dinosaur clade.

It is unclear whether the harsh abiotic conditions of drylands hinder biological invasions. This global analysis shows that drylands are vulnerable to non-native plants and are likely to become more so as native plant diversity declines and grazing pressure intensifies.

u-Segment3D is a universal framework that translates and enhances 2D instance segmentations to a 3D consensus instance segmentation without training data. It performs well across diverse datasets, including cells with complex morphologies.

Genetic predictors of health outcomes often drop in accuracy when applied to people dissimilar to participants of large genetic studies. Here, the authors investigate the root causes and highlight open questions underlying this problem.

Extrachromosomal circular DNAs (ecDNAs) are prevalent in human cancers and are thought to drive tumor evolution and drug resistance by amplifying oncogenes. Here, authors develop ec3D to reconstruct three-dimensional ecDNA structures, revealing how their spatial organization rewires regulatory circuits.

This Resource paper presents a global SARS-CoV-2 phylogenetic tree of 4,471,579 high-quality genomes consistently constructed by Viridian, an efficient amplicon-aware assembler.

Using 63 globally distributed grassland and shrubland sites from the International Drought Experiment, this study identified plant traits linked to drought resistance after 1 year of extreme drought across growth forms, lifespans and climate.

Earth’s core dynamo, which produces the magnetic field, may have been influenced by spatial variations in heat flux across the core–mantle boundary, according to combined palaeomagnetic datasets and geodynamo simulations.

Bruijns et al. present a modeling tool that enables the tracking of learning dynamics across subjects to reveal how behaviors emerge and adapt. Applying the tool to a decision-making task in mice uncovers similarities and differences across individuals.

Including data from 1,047 patients across 19 inflammatory diseases, a new atlas presents a comprehensive model of inflammation in circulating immune cells.

Releasing only males remains a major hurdle for mosquito genetic control. Here, authors develop a mosquito strain using CRISPR and a synthetic sex chromosome, producing dark males and yellow females that develop slower and lay desiccation-sensitive eggs, enabling easy separation and safe releases.

Why are some species widespread while others are found only in small, isolated areas? This study shows that species with narrow ranges, and thus higher extinction risk, are often island-restricted, poor dispersers, and have evolved relatively recently.

Analyzing data of the Mexican Biobank project, a new study finds regional differences in clinically relevant genetic frequencies and presents MexVar, a publicly accessible resource designed to support ancestry-informed genetic testing.

Here, the authors identify distinct, autism-specific diet microbiome interactions, showing how unhealthy diets and synthetic emulsifiers drive dysbiosis. The findings pave the way for microbiome-aware dietary strategies for autism.

Here, the authors report an exome-wide association study for multi-organ imaging traits by leveraging recent bioinformatic tools such as AlphaMissense. The identified signals elucidate the genetic effects from rare variants on human organs and their connections to complex diseases

Plant traits drive ecosystem dynamics yet are challenging to map globally due to sparse measurements. Here, the authors combine crowdsourced biodiversity observations with Earth observation data to accurately map 31 plant traits at 1 km² resolution.

The way in which the brain processes language from a collection of sounds to meaningful concepts remains poorly understood. Here, the authors show that the brain’s temporal responses to speech closely follow the layer-by-layer progression of LLMs, revealing shared computational principles.

Polygenic scores for body mass index and obesity constructed using data from 5 million people with different ancestries were associated with distinct weight gain trajectories from early childhood to adulthood.

Omnivores like bears can switch between plant and animal diets, potentially helping them respond to changing conditions. By combining modern and fossil data, this study shows that bears shift toward carnivory in harsher climates and toward herbivory in more productive environments.

Oceans provide essential ecosystem services to human society, yet the climate impacts on blue capital have long been ignored. Incorporating the latest works on ocean science and economics, researchers show that accounting for the potential damage would almost double the social cost of carbon estimation.

Zeng et al. analyzed cfDNA methylation and fragmentomic data from 1,294 patient plasma samples across 14 major cancer types to present a comprehensive landscape of pancancer and cancer-specific cell-free DNA methylation and fragmentomic features.

Identifying jets originating from heavy quarks plays a fundamental role in hadronic collider experiments. In this work, the ATLAS Collaboration describes and tests a transformer-based neural network architecture for jet flavour tagging based on low-level input and physics-inspired constraints.

Analysis of behavioral data often involves tracking animal keypoints in video and motion capture recordings. DISK imputes missing keypoints, thereby improving downstream analyses.

An optimal model-experiment integration for testing many complex hypotheses is still lacking. Here authors introduce improv, a modular software platform enabling real-time adaptive neuroscience experiments, orchestrating parallel data collection, modeling, and experimental control. Authors demonstrate various use cases, including online neural analysis and closed-loop optogenetics in zebrafish.

HIV infection and substance use disorders converge in human midbrain. Here, authors show transcriptional impacts using single-nucleus RNA sequencing, linking dopaminergic vulnerability and microglial dysregulation, and in viremia, GABAergic deficits.

Cell type labelling in single-cell datasets remains a major bottleneck. Here, the authors present AnnDictionary, an open-source toolkit that enables atlas-scale analysis and provides the first benchmark of LLMs for de novo cell type annotation from marker genes, showing high accuracy at low cost.

Fine-scale field analysis and modelling of the spatial dynamics of infection of Darwin’s frogs with Batrachochytrium dendrobatidis fungus identifies highly localized transmission dynamics that generate clustered epidemics and can drive collapse of local subpopulations.

Beck et al. develop a model where striosomes create a flexible “decision-space” that adapts to environmental context and internal state. It explains how we make choices and why decision-making varies between people, and in neuropsychiatric disorders.

Understanding the architectural principles shape human brain networks is a major challenge for systems neuroscience. Here, authors show embryogenic age is associated with functional and structural brain architecture and that embryonic age gradients are associated with genes related to nervous system development and vulnerability to neurological disorders.

Alternative stable states in forests have implications for the biosphere. Here, the authors combine forest biodiversity observations and simulations revealing that leaf types across temperate regions of the NH follow a bimodal distribution suggesting signatures of alternative forest states.

Climate change can alter when and how animals grow, breed, and migrate, but it is unclear whether this allows populations to persist. This global study shows that shifts in seasonal timing are key to helping vertebrate species maintain population growth under global warming.

The authors find that TDP-43 loss of function—the pathology defining the neurodegenerative conditions ALS and FTD—induces novel mRNA polyadenylation events, which have different effects, including an increase in RNA stability, leading to higher protein levels.

Analysis of more than 95% of each diploid human genome of a four-generation, twenty-eight-member family using five complementary short-read and long-read sequencing technologies provides a truth set to understand the most fundamental processes underlying human genetic variation.

Microbial mutualists could affect plant population persistence under climate change. Here the authors show that fungal endophytes contribute to the population persistence of a grass species by ameliorating drought stress but are more likely to disappear locally under climate variability.

Genome-wide association meta-analyses of attention-deficit/hyperactivity disorder symptom measures and clinical diagnoses identify new risk loci, highlight putative effector genes and yield improved polygenic risk scores.

Researchers find that whether a person is first vaccinated or first infected with COVID-19 influences their antibody and T-cell responses, offering new insights into how hybrid immunity develops and protects over time.

What is the state of trust in scientists around the world? To answer this question, the authors surveyed 71,922 respondents in 68 countries and found that trust in scientists is moderately high.

Here, the authors perform metagenomic analysis of Ecuadorian mothers and children showing that improved WASH and reduced animal exposure can lower antimicrobial resistance in the gut but may reduce gut microbial diversity, with the strongest effects observed in mothers.

Wood density is an important plant trait. Data from 1.1 million forest inventory plots and 10,703 tree species show a latitudinal gradient in wood density, with temperature and soil moisture explaining variation at the global scale and disturbance also having a role at the local level.

Authors show that all individuals have asymmetrically glycosylated IgGs—the glycans on each of the Fc protomers are not identical. Asymmetrically monofucosylated IgGs drive dengue disease and are functionally similar to afucosylated IgGs.

The authors present a federated learning framework for battery fault detection in electric vehicles using charging station data. It enables privacy-preserving collaboration among data owners, creating customized models that improve fault detection accuracy and generalization across diverse data distributions.

Scleractinian corals are important in both shallow and deep ecosystems. Here, the authors use global spatial distribution data with a phylogenetic approach to examine directionality and speed of colonization during depth diversification, finding an offshore-onshore pattern of evolution and that depth dispersion is associated with phenotypic innovations.

Analysis of whole-genome sequences of 25,465 individuals of European ancestry shows that rare variants contribute substantially to the heritability of height and body mass index.

As we age, our brains don’t just shrink, their entire geometry changes. This study links specific patterns of brain expansion and compression to cognitive impairment, revealing a new way to understand age-related decline.

The social exposome—lifelong social and economic adversity—can shape brain health and dementia risk. Here, the authors show that an adverse social exposome is linked to poorer clinical, cognitive, and brain changes in Latin American older adults.

Deaminases of the APOBEC3 family contribute to the mutagenesis of various cancers, including urothelial carcinoma (UC) of the bladder. Here, the authors use functional studies and transcriptomics to demonstrate that APOBEC3 promotes tumour progression and squamous trans-differentiation in UC through IL-1α and downstream activation of the AP-1 transcription factor.

Cardiac fibrosis arises from persistent myofibroblast activity. This study reveals how chromatin factors control scar-forming cells in the heart and shows that inhibiting KAT5 can reduce harmful cardiac fibrosis.

A fluorescence resonance energy transfer biosensor called Rango enables examination of the Ran–importin-β system in cells. Small changes in RanGTP concentration tip the balance between positive and negative mitotic regulators, thereby promoting spindle assembly and function.