Zhang and colleagues engineered the poly(A) tail as a programmable regulatory element, showing that embedding cell-type-specific microRNA target sites directly within it confers robust, position-dependent silencing in off-target tissues while preserving activity in target cells. This strategy offers a new modular tool to enhance mRNA therapeutic safety and precision.

Immunization with a nucleoside-modified mRNA-LNP vaccine encoding the conserved malaria antigen E140 induced durable humoral immunity in mice and generated invasion-blocking antibodies against Plasmodium vivax. The results highlight E140 as a promising candidate for next-generation malaria vaccines.

Yuan and colleagues demonstrate that inhaled biodegradable nanosilica activates an alveolar macrophage–NK axis, triggering an IL-12/15/18 triad that programs memory-like NK cells. This non-fibrotic, cell-free strategy suppresses melanoma growth, prevents postsurgical recurrence, and synergizes with anti-PD-1, establishing a robust framework for in vivo NK cell immunotherapy.

Lu and colleagues identify BRD4 as a central epigenetic driver of vesicant-induced corneal injury. Using reproducible mouse and rabbit models, they show that short-term topical BRD4 inhibition suppresses acute inflammation and provides durable protection of corneal clarity, stromal organization, endothelial integrity, and neovascularization, supporting translational therapy for chemical eye injuries.

Blancafort and colleagues describe a non-viral polymeric system for the delivery of dCas9-KRAB silencers as ribonucleoprotein (RNP) payloads for EWSR1-FLI1 repression. They demonstrate highly efficient RNP delivery and robust silencing of EWSR1-FLI1 in both cell line and patient-derived xenografts of Ewing sarcoma, accompanied by potent anti-tumor effects.

Structure-guided design combined with protein language model-guided engineering and sgRNA optimization enables the development of a compact and highly efficient CRISPR–Cas12f genome editor. This integrated strategy substantially improves genome-editing activity while preserving high specificity, expanding the therapeutic potential of compact CRISPR systems.

Ouabain triggers cochlear spiral ganglion neuron (SGN) ferroptosis and hearing loss via SCD1 downregulation. MITF directly activates Scd1 transcription, and the MITF–SCD1 axis mitigates SGN ferroptosis and hearing impairment in ototoxic ouabain and cisplatin models, revealing a lipid metabolic vulnerability and therapeutic target for sensorineural hearing loss.

Liu and colleagues develop a dendritic cell vaccine loaded with the gut commensals Bacteroides fragilis (DC-Bf), which triggers CD8+ T cell-dependent antitumor immune responses via MHC-I-mediated cross-presentation and interleukin-12 secretion, and enhances the efficacy of PD-1 antibody by improving the immunosuppressive tumor microenvironment and diversifying the T cell receptor repertoire.

Liu and colleagues developed a robust in cellulo plasmid DNA replication system in human cells for replicating plasmid-borne adeno-associated virus (AAV) Rep/Cap genes during recombinant AAV (rAAV) production. This new approach not only enables a 10- to 20-fold plasmid reduction to significantly lower manufacturing costs but also substantially enhances rAAV potency, titer, and purity.

In the infection courses of different SARS-CoV-2 variants, disease outcomes and signatures were delineated by physiological changes, viral load, pathology, and pulmonary transcriptome analysis. This multi-dimensional landscape of disease outcomes and underlying mechanisms might provide important clues for immunotherapy of SARS-CoV-2 infection and pneumonia caused by other respiratory viruses.

Nature Biomedical Engineering, Published online: 09 September 2026; doi:10.1038/s41551-026-01790-9

A generative protein design workflow addresses important challenges with de novo protein engineering of chimaeric antigen receptors (CARs) to improve targeting of proteins important in cancer and create more effective CAR T therapies.

Nature Nanotechnology, Published online: 08 September 2026; doi:10.1038/s41565-026-02288-w

Publisher Correction: Edge-sharing RuO₂ single layer for stable and low overpotential acidic water electrolysis

Nature Nanotechnology, Published online: 08 September 2026; doi:10.1038/s41565-026-02262-6

Charge-switching S-lipids generate S-lipid nanoparticles that are neutral or negative at physiological pH but become cationic in acidic endosomes, enabling nucleic acid delivery with reduced inflammation compared with conventional LNPs.

Nature Nanotechnology, Published online: 07 September 2026; doi:10.1038/s41565-026-02271-5

Single copper atoms on boron nanosheets dynamically and reversibly switch to clusters, enabling the direct conversion of methane to acetic acid with 97% selectivity and high activity without the requirement for carbon monoxide.

arXiv:2609.09625v1 Announce Type: new Abstract: As Digital Twin (DT) systems evolve beyond state synchronization toward task-oriented and knowledge-driven operation, Cognitive Digital Twins (CDTs) have emerged as an extension that incorporates cognitive capabilities into twin operation. Existing CDT studies often focus on specific enabling techniques, such as learning modules, knowledge graphs, and large language models, while providing limited insight into how cognition can be systematically integrated into DT architectures. To address this issue, this paper proposes a four-layer CDT architecture consisting of the physical layer, digital-twin layer, cognitive layer, and task layer. The proposed architecture establishes a self-evolving closed operational loop spanning these four layers, in which physical states are synchronized into digital representations, cognition constructs task-specific cognitive models through knowledge, memory, and attention, and task-level decisions are generated under practical constraints. Operational feedback further refines cognitive experience and updates relationships and annotations in the digital representation, enabling subsequent task interpretation, initiation, and reasoning to evolve with system operation. Based on this framework, two representative operation modes are characterized: user-request-driven cognition and self-driven cognition. We further discuss key enabling mechanisms and deployment challenges associated with semantic communication, knowledge querying, task orchestration, and closed-loop synchronization. A lightweight simulation study illustrates reliable closed-loop task feasibility under limited semantic information and improved operational efficiency through accumulated task experience. The proposed framework provides a structured foundation for the design and development of future CDT systems.

arXiv:2609.09885v1 Announce Type: new Abstract: This paper studies unmanned aerial vehicle (UAV)-mouted reconfigurable intelligent surface (RIS)-assisted device-to-device (D2D) communication with stochastic link activation. It models UAV motion and attitude, time-varying Rician angles, and angle-dependent RIS reflection. A joint optimization of UAV trajectory, attitude, and RIS phases is formulated to maximize average sum rate under mobility, energy, and hardware constraints. The problem is addressed using deep reinforcement learning and a Decision Transformer trained on expert trajectories from multiple scenarios. Results demonstrate effective cross-scenario generalization, with zero-shot transfer outperforming direct DRL transfer and online fine-tuning achieving competitive performance with fewer interactions.

arXiv:2609.10055v1 Announce Type: new Abstract: Biomedical ontology normalization maps free-text expressions to standardized concepts, enabling consistent integration and analysis of biomedical data. This task remains challenging because lexical variation and subtle distinctions among hierarchically related concepts can obscure concept boundaries. We present OntologyAligner, a three-stage framework that combines ontology-aligned retrieval, large language model candidate reranking, and selective hierarchy-guided refinement. We also construct PhenoNormBench, a unified benchmark comprising 13,390 samples from seven Human Phenotype Ontology datasets. OntologyAligner achieved state-of-the-art performance on HPO normalization, with 88.78% Macro Top-1 Accuracy and 86.75% Micro Top-1 Accuracy, exceeding the strongest baseline by 4.85 and 5.07 percentage points, respectively. Ablation analyses showed complementary contributions from all three stages, and sensitivity analyses demonstrated stability across candidate-set sizes and model backbones. Applications to MONDO, MEDIC, and NCBITaxon further established portability to other ontologies. OntologyAligner offers a generalizable framework for accurate mapping of biomedical text to structured ontology concepts. PhenoNormBench and the code are publicly available at https://github.com/zhelishisongjie/OntologyAligner.

arXiv:2609.10451v1 Announce Type: new Abstract: Real-world GUI usage frequently involves workflows that span multiple devices and platforms, requiring the transfer of intermediate results, maintenance of shared state, and coordination across heterogeneous environments. However, existing GUI benchmarks overwhelmingly evaluate agents on single-device, statically defined tasks, thus leaving such cross-device capabilities largely unexamined, resulting in an overly optimistic assessment of agents' readiness for real-world usage. We introduce JarvisGUI, a dynamic benchmark that evaluates GUI agents on cross-device workflows requiring coordinated interaction across heterogeneous platforms, including Android, Windows, and Ubuntu. Specifically, JarvisGUI formulates GUI tasks as input-output transformations under a lightweight type system, which allows us to automatically compose multi-step, cross-device workflows and dynamically evaluate agent performance within a unified framework. By evaluating agents in virtual environments spanning multiple operating systems, JarvisGUI reveals that state-of-the-art open-source GUI agents struggle with the state-transfer awareness, cross-platform contextual reasoning, and long-horizon dependency management required for real-world workflows, exposing a critical capability gap invisible to existing benchmarks.

arXiv:2609.02663v1 Announce Type: cross Abstract: Pretrained vision-language models (VLMs) have shown promising performance in medical image segmentation by incorporating clinical text. However, it remains unclear how much textual information actually contributes to pixel-level predictions. In this work, we systematically investigate the role of text in multimodal medical image segmentation. We first analyze several commonly used fusion strategies and find that segmentation performance is largely insensitive to the choice of fusion module. To further understand modality interactions, we propose an Evidence Decoupling Decoder (EDD) based on evidential deep learning and deep supervision. EDD serves as an internal representation analysis tool that decomposes image evidence and text-modulated evidence throughout the decoding process while maintaining competitive segmentation performance. Experimental results show that the sensitivity to text perturbation varies substantially across datasets. On BUSI and BTMRI, removing text causes catastrophic performance drops, indicating strong model reliance on textual input. On ISIC and Kvasir-SEG, text exerts relatively marginal influence. We further find that text affects predictions mainly through global semantic modulation rather than independent spatial localization, and that the specific semantic components driving text sensitivity differ across datasets. These findings provide a deeper understanding of modality interaction in multimodal medical image segmentation and offer practical insights for future model design.

arXiv:2609.09219v1 Announce Type: cross Abstract: AI research agents combine prior knowledge, public sources, and experimental feedback to produce useful results. The Discovery Certification Protocol (DCP) turns claims about these results into executable recovery and feedback tests. Gate 1 validates useful improvement on sealed evaluation. Gate 2 gives matched agents the registered starting information and observed Web content while withholding the target research history. Every valid method reaching the numerical target supplies a recovery witness and triggers the Core veto. DCP Core requires adequate controls, zero observed recoveries, and a finite-sample bound on recovery in one fresh registered episode. Optional Gate 3 measures the average effect of truthful feedback relative to a specified neutral policy from a shared checkpoint. DCP Evidence adds this effect after independent null calibration and a registered effect margin. Two controlled audits exercise the complete protocol in SQLite optimization and virtual catalyst control under different models. Each produced zero recoveries in 96 episodes, with an upper bound of 0.0468. Each paired study yielded 30 truthful recoveries and zero neutral recoveries, with passing 60-pair null studies. Additional cases exercise Core, recovered, and audit-incomplete decisions. A deterministic, LLM-free verifier reproduces the decisions from frozen evidence. DCP provides a common evidence language for useful outcomes, alternative routes, and feedback effects across AI research.