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This study reveals how plant-associated bacteria dynamically reprogram gene expression during root colonization, using a new high-throughput approach that overcomes low bacterial biomass and interference from plant RNA.

Mechanical response of semiconducting polymers affects their electrical properties, yet the detail remains elusive. Zhong et al. examine the multiscale structural evolution of conjugated polymer thin films during uniaxial deformation and link it to mechanical resilience and solar cell performance.

Many thermophiles that are abundant in geothermal systems have never been cultivated and are poorly understood. Here, Lai et al. describe the cultivation of one such organism, a deeply branching member of the archaeal phylum Thermoproteota, and provide evidence that it has evolved to specialize in branched-chain amino acid metabolism.

The APOE-ε4 allele is the strongest genetic risk factor for late-onset Alzheimer’s disease, but it is not deterministic. Here, the authors show that common genetic variation changes how APOE-ε4 influences cognition.

Humanity’s Last Exam, a multi-modal benchmark at the frontier of human knowledge, is designed to be an expert-level closed-ended academic benchmark with broad subject coverage.

Two-dimensional metal halide perovskites exhibit diverse structures, but tuning their intralayer structure is challenging. Now, ammonium-terminated bidentate linkers have been used to develop 2D perovskites. These materials exhibit superior thermal resistance and improved photovoltaic performance compared with their Ruddlesden–Popper and Dion–Jacobson counterparts.

Global Burden of Disease estimates show that between 1990 and 2023, the prevalence and burden of drug use disorders, inclusive of amphetamine, cannabis, cocaine and opioid use, have been increasing in high-income countries, particularly in the USA.

Climate change is altering how plants balance carbon gain and water loss. This study maps global leaf-level water-use efficiency over the past two decades, showing it is highest in regions that are cold or dry, increasing worldwide, and strongly influenced by atmospheric dryness.

Modulation of random heteropolymers results in globular polymer clusters with catalytic activity mimicking proteins.

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.

The STAR experiment at the Relativistic Heavy Ion Collider at Brookhaven National Laboratory demonstrates evidence of spin correlations in \(\Lambda \bar{\Lambda }\) hyperon pairs inherited from virtual spin-correlated strange quark–antiquark pairs during QCD confinement.

The existing ENCODE registry of candidate human and mouse cis-regulatory elements is expanded with the addition of new ENCODE data, integrating new functional data as well as new cell and tissue types.

Ionic liquid additives increase the power conversion efficiency of perovskite solar cells, but their effect on perovskite crystallization remains unclear. Xu et al. provide mechanistic insights and demonstrate improved operational stability under continous illumination and 90 °C thermal stress.

cellSTAAR advances noncoding rare variant association analysis by integrating single-cell genomics data.

The CMS Collaboration reports the measurement of the spin, parity, and charge conjugation properties of all-charm tetraquarks, exotic fleeting particles formed in proton–proton collisions at the Large Hadron Collider.

Reconfigurable all-liquid optical fibers enable gigabit-speed communication while offering softness, rapid self-healing, and on-demand reconfiguration, providing a resilient alternative to brittle quartz fibers in dynamic application environments.

The ALICE Collaboration provides details on the microscopic mechanism that ends up creating antideuteron in high-energy proton–proton collisions at the Large Hadron Collider.

A multiscale photoproximity labeling proteomics workflow captures dynamic neighborhoods of extracellular and intracellular epidermal growth factor (EGF) receptor interactomes during early, middle and late signaling upon activation by EGF.

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.

The quark structure of the f₀(980) hadron is still unknown after 50 years of its discovery. Here, the CMS Collaboration reports a measurement of the elliptic flow of the f₀(980) state in proton-lead collisions at a nucleon-nucleon centre-of-mass energy of 8.16 TeV, providing strong evidence that the state is an ordinary meson.

DNA affinity purification and sequencing (DAP-seq) allows genome-scale studies of transcription factor (TF)-binding sites with high reproducibility. Here, Lax et al. use this technique to characterize 58 TFs encoded by genes regulated by adenine methylation, and provide insights into the regulatory mechanisms of gene expression in an opportunistic pathogenic fungus.

Nitrate contamination in water poses environmental and health risks. Here, authors design alkylated polyaniline polymers that selectively capture nitrate over chloride, improving removal efficiency and reducing costs in wastewater treatment.

Superconducting qubits are sensitive to multiple noise sources that compromise their coherence. Here the authors report a piezoelectric effect in aluminum-silicon junctions, revealing a previously unexplored mechanism that may limit superconducting quantum processor performance.

Whole-genome sequencing data for 2,778 cancer samples from 2,658 unique donors across 38 cancer types is used to reconstruct the evolutionary history of cancer, revealing that driver mutations can precede diagnosis by several years to decades.

Understanding deregulation of biological pathways in cancer can provide insight into disease etiology and potential therapies. Here, as part of the PanCancer Analysis of Whole Genomes (PCAWG) consortium, the authors present pathway and network analysis of 2583 whole cancer genomes from 27 tumour types.

Analyses of 2,658 whole genomes across 38 types of cancer identify the contribution of non-coding point mutations and structural variants to driving cancer.

Decadal changes in land surface wind speed are well known, but their ecosystem impacts remain unclear. This study suggests that wind speed changes significantly affect vegetation productivity by altering water availability and stomatal conductance.

Analysis of cancer genome sequencing data has enabled the discovery of driver mutations. Here, as part of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium the authors present DriverPower, a software package that identifies coding and non-coding driver mutations within cancer whole genomes via consideration of mutational burden and functional impact evidence.

Multi-omics datasets pose major challenges to data interpretation and hypothesis generation owing to their high-dimensional molecular profiles. Here, the authors develop ActivePathways method, which uses data fusion techniques for integrative pathway analysis of multi-omics data and candidate gene discovery.

In this work, Urem et al. characterize the mode of action as well as mechanism of reduced susceptibility related to a class of antimicrobials that is in development for the treatment of infections with Gram-positive pathogens.

Gallium is used as a sacrificial agent and mixing medium for the isothermal solidification synthesis of high-entropy alloy nanomaterials with diverse crystallinities and morphologies.

Sustainable food production under climate change requires farming practices that support plant–soil–microbe interactions. This study suggests that conservation agriculture with warming enhances wheat nitrogen uptake by reducing microbial competition.

The development of three-dimensional (3D) covalent organic frameworks (COFs) with novel topologies is of both fundamental and practical interest but the construction of highly crystalline 3D COF remains challenging. Here, the authors report highly crystalline 3D COFs with pto and mhq-z topologies by rationally selecting rectangular-planar and trigonal-planar building blocks with appropriate conformational strains.

The characterization of 4,645 whole-genome and 19,184 exome sequences, covering most types of cancer, identifies 81 single-base substitution, doublet-base substitution and small-insertion-and-deletion mutational signatures, providing a systematic overview of the mutational processes that contribute to cancer development.

Nanoparticles are often stabilized by capping ligands but the specific role of such ligands during catalytic processes is often ignored. Now, in situ techniques including spatially resolved infrared nanospectroscopy reveal the ligand-assisted formation of a catalytic microenvironment on the surface of silver nanoparticles with nanoscale precision during CO₂ electroreduction.

High-resolution 3D printing technology making use of two-photon polymerization instead of traditional machining is described, allowing low-cost and scalable production of large arrays of high-quality 3D Paul traps.

Growth of high-quality III–V semiconductors for electronics and optoelectronics usually requires an atomic-lattice matched substrate. Here, the authors use templated liquid-phase crystal growth to create single-crystalline III–V material up to ten micrometres across on an amorphous substrate.

With the generation of large pan-cancer whole-exome and whole-genome sequencing projects, a question remains about how comparable these datasets are. Here, using The Cancer Genome Atlas samples analysed as part of the Pan-Cancer Analysis of Whole Genomes project, the authors explore the concordance of mutations called by whole exome sequencing and whole genome sequencing techniques.

The flagship paper of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium describes the generation of the integrative analyses of 2,658 cancer whole genomes and their matching normal tissues across 38 tumour types, the structures for international data sharing and standardized analyses, and the main scientific findings from across the consortium studies.

The authors present SVclone, a computational method for inferring the cancer cell fraction of structural variants from whole-genome sequencing data.

Cancers evolve as they progress under differing selective pressures. Here, as part of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium, the authors present the method TrackSig the estimates evolutionary trajectories of somatic mutational processes from single bulk tumour data.

Solvation dynamics at picosecond timescales critically affect charge transport in aqueous systems, but conflicting values have been reported for organic electrolytes. Lifetimes on the order of 1 ns for mixtures of organic polymer and lithium salt exhibiting ultraslow dynamics of solvation shell break-up are now reported.

Topochemical polymerization (TCP) emerges as a leading approach for synthesizing single crystalline polymers, but the untapped potential of performing TCP in a liquid medium with solid-state structural fidelity presents unsolved challenges. Here, the authors reveal details of single-crystal-to-single-crystal transformation during the TCP of chiral azaquinodimethane monomers through in situ crystallographic analysis while spotlighting a rare metastable crystalline phase.

Wang, Tang and colleagues develop the low-signal signed iterative random forest pipeline to investigate epistasis in the genetic control of cardiac hypertrophy, identifying epistatic variants near CCDC141, IGF1R, TTN and TNKS loci, and show that hypertrophy in induced pluripotent stem cell-derived cardiomyocytes is nonadditively influenced by interactions among CCDC141, TTN and IGF1R.

The authors here show that chromatin interactions during mouse fetal development are spatiotemporally dynamic. Integrating interactomes with other datasets predicts target genes for candidate enhancers and helps interpret noncoding risk variants in the human genome.