综合性期刊最新文献

{"title":"Profile of Sharon Y. Strauss.","authors":"Jennifer Viegas","doi":"10.1073/pnas.2517479122","DOIUrl":"https://doi.org/10.1073/pnas.2517479122","url":null,"abstract":"<p><p>Evolutionary ecologist Sharon Y. Strauss, an early proponent of unifying the fields of ecology and evolution, helped advance both disciplines. Now a distinguished emeritus professor at the University of California, Davis, Strauss remains active in research. One major focus of her work is using phylogenetic evolutionary history to understand current ecology, an approach applied to research reported in her Inaugural Article. Strauss et al. determined that certain plant species may be less adaptable than expected to climate change. The finding holds widespread implications for conservation and management.</p>","PeriodicalId":20548,"journal":{"name":"Proceedings of the National Academy of Sciences of the United States of America","volume":"122 31","pages":"e2517479122"},"PeriodicalIF":9.4,"publicationDate":"2025-08-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144715186","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Correction for Das et al., Mycobacteriophage-mediated gene transfer enables in vitro drug screening and in vivo tracking of <i>Mycobacterium leprae</i>.","authors":"","doi":"10.1073/pnas.2517475122","DOIUrl":"10.1073/pnas.2517475122","url":null,"abstract":"","PeriodicalId":20548,"journal":{"name":"Proceedings of the National Academy of Sciences of the United States of America","volume":"122 31","pages":"e2517475122"},"PeriodicalIF":9.1,"publicationDate":"2025-08-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144715183","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Active bacterial baths in droplets.","authors":"Cristian Villalobos-Concha, Zhengyang Liu, Gabriel Ramos, Martyna Goral, Anke Lindner, Teresa López-León, Eric Clément, Rodrigo Soto, María Luisa Cordero","doi":"10.1073/pnas.2426096122","DOIUrl":"https://doi.org/10.1073/pnas.2426096122","url":null,"abstract":"<p><p>Suspensions of self-propelled objects represent a novel paradigm in colloidal science. In such \"active baths,\" traditional concepts such as Brownian motion, fluctuation-dissipation relations, and work extraction from heat reservoirs, must be extended beyond the conventional framework of thermal baths. Unlike thermal baths, which are characterized by a single parameter, the temperature, the fundamental descriptors of an active bath remain elusive. Particularly relevant are confined environments, which are common conditions for bacteria in Nature and in microbioreactor devices. In this study, buoyant passive tracers are employed as generalized probes to extract the properties of an active bath comprising motile bacteria confined within a droplet. By describing the bacterial suspension as a colored noise acting on the tracer, we extract the temporal memory [Formula: see text] and characteristic intensity [Formula: see text] of such noise, finding that [Formula: see text] varies little across the explored experimental conditions and [Formula: see text] is positively correlated with bacterial concentration. Notably, we put forward the generalizing concept of \"bath diffusivity,\" [Formula: see text], as a central predictor for the momentum transfer properties of this out-of-equilibrium situation. We show that [Formula: see text] scales linearly with bacterial concentration, modulated by a factor representing the role of confinement, expressed as the ratio of the confining radius to the probe radius. This finding, while still awaiting a complete theoretical explanation, offers insights into the transport or mixing properties of confined active baths and paves the way for a deeper understanding of active emulsions driven by confined active matter.</p>","PeriodicalId":20548,"journal":{"name":"Proceedings of the National Academy of Sciences of the United States of America","volume":"122 31","pages":"e2426096122"},"PeriodicalIF":9.1,"publicationDate":"2025-08-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144761073","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Precise mapping of single-stranded DNA breaks by sequence-templated erroneous DNA polymerase end-labelling","authors":"Leonie Wenson, Johan Heldin, Marcel Martin, Yücel Erbilgin, Barış Salman, Anders Sundqvist, Wesley Schaal, Friederike A. Sandbaumhüter, Erik T. Jansson, Xingqi Chen, Anton Davidsson, Bo Stenerlöw, Jaime A. Espinoza, Mikael Lindström, Johan Lennartsson, Ola Spjuth, Ola Söderberg","doi":"10.1038/s41467-025-62512-4","DOIUrl":"https://doi.org/10.1038/s41467-025-62512-4","url":null,"abstract":"<p>The ability to analyze whether DNA contains lesions is essential in identifying mutagenic substances. Currently, the detection of single-stranded DNA breaks (SSBs) lacks precision. To address this limitation, we develop a method for sequence-templated erroneous end-labelling sequencing (STEEL-seq), which enables the mapping of SSBs. The method requires a highly error-prone DNA polymerase, so we engineer a chimeric DNA polymerase, Sloppymerase, capable of replicating DNA in the absence of one nucleotide. Following the omission of a specific nucleotide (e.g., dATP) from the reaction mixture, Sloppymerase introduces mismatches directly downstream of SSBs at positions where deoxyadenosine should occur. This mismatch pattern, coupled with the retention of sequence information flanking these sites, ensures that the identified hits are bona fide SSBs. STEEL-seq is compatible with a variety of sequencing technologies, as demonstrated using Sanger, Illumina, PacBio, and Nanopore systems. Using STEEL-seq, we determine the SSB/base pair frequency in the human genome to range between 0.7 and 3.8 × 10⁻⁶ with an enrichment in active promoter regions.</p>","PeriodicalId":19066,"journal":{"name":"Nature Communications","volume":"19 1","pages":""},"PeriodicalIF":16.6,"publicationDate":"2025-08-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144770086","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Adaptive-learning physics-assisted light-field microscopy enables day-long and millisecond-scale super-resolution imaging of 3D subcellular dynamics","authors":"Lanxin Zhu, Jiahao Sun, Chengqiang Yi, Meng Zhang, Yihang Huang, Sicen Wu, Mian He, Liting Chen, Yicheng Zhang, Chunhong Zheng, Hao Chen, Jiang Tang, Yu-Hui Zhang, Dongyu Li, Peng Fei","doi":"10.1038/s41467-025-62471-w","DOIUrl":"https://doi.org/10.1038/s41467-025-62471-w","url":null,"abstract":"<p>Long-term and high-spatiotemporal-resolution 3D imaging of living cells remains an unmet challenge for super-resolution microscopy, owing to the noticeable phototoxicity and limited scanning speed. While emerging light-field microscopy can mitigate this issue through three-dimensionally capturing biological dynamics with merely single snapshot, it suffers from suboptimal resolution insufficient for resolving subcellular structures. Here we propose an Adaptive Learning PHysics-Assisted Light-Field Microscopy (Alpha-LFM) with a physics-assisted deep learning framework and adaptive-tuning strategies capable of light-field reconstruction of diverse subcellular dynamics. Alpha-LFM delivers sub-diffraction-limit spatial resolution (up to ~120 nm) while maintaining high temporal resolution and low phototoxicity. It enables rapid and mild 3D super-resolution imaging of diverse intracellular dynamics at hundreds of volumes per second with exceptional details. Using Alpha-LFM approach, we finely resolve the lysosome-mitochondrial interactions, capture rapid motion of peroxisome and the endoplasmic reticulum at 100 volumes per second, and reveal the variations in mitochondrial fission activity throughout two complete cell cycles of 60 h.</p>","PeriodicalId":19066,"journal":{"name":"Nature Communications","volume":"37 1","pages":""},"PeriodicalIF":16.6,"publicationDate":"2025-08-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144770088","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"This company claimed to ‘de-extinct’ dire wolves. Then the fighting started.","authors":"","doi":"10.1038/d41586-025-02456-3","DOIUrl":"https://doi.org/10.1038/d41586-025-02456-3","url":null,"abstract":"Colossal’s bold announcements have drawn criticism from many scientists, but the billion-dollar firm is not backing down.","PeriodicalId":18787,"journal":{"name":"Nature","volume":"28 1","pages":""},"PeriodicalIF":64.8,"publicationDate":"2025-08-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144769923","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Long-lived multilevel coherences and spin-1 dynamics encoded in the rotational states of ultracold molecules","authors":"Tom R. Hepworth, Daniel K. Ruttley, Fritz von Gierke, Philip D. Gregory, Alexander Guttridge, Simon L. Cornish","doi":"10.1038/s41467-025-62275-y","DOIUrl":"https://doi.org/10.1038/s41467-025-62275-y","url":null,"abstract":"<p>Rotational states of ultracold polar molecules possess long lifetimes, microwave-domain coupling, and tunable dipolar interactions. The availability of numerous rotational states has inspired many applications, including simulating quantum magnetism, encoding high-dimensional qudits and generating large synthetic dimensions. However, engineering the coherent superpositions of multiple rotational states needed for these applications is difficult owing to strong differential light shifts. Here, we overcome this challenge using individual molecules confined in near-magic wavelength optical tweezers. Through precision Ramsey spectroscopy, we find the exact magic wavelengths and sensitivities to detuning errors for multiple rotational state superpositions. We find for traps polarised parallel to the quantisation axis, the magic wavelengths are closely clustered enabling long-lived coherence across multiple rotational states simultaneously. Using a generalised Ramsey sequence, we demonstrate second-scale coherent spin-1 dynamics encoded in three rotational states and perform multiparameter estimation. With modest experimental improvements, we predict second-scale coherence across ten rotational states is achievable.</p>","PeriodicalId":19066,"journal":{"name":"Nature Communications","volume":"148 1","pages":""},"PeriodicalIF":16.6,"publicationDate":"2025-08-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144770087","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Environmental politics is doomed to fail — unless we tell better stories","authors":"","doi":"10.1038/d41586-025-02459-0","DOIUrl":"https://doi.org/10.1038/d41586-025-02459-0","url":null,"abstract":"Political thinking on global crises has become trapped. We need a new narrative.","PeriodicalId":18787,"journal":{"name":"Nature","volume":"28 1","pages":""},"PeriodicalIF":64.8,"publicationDate":"2025-08-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144769911","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Leveraging chemical synthesis to discover metabolites from the gut microbiome.","authors":"Allison J Keys,Nitesh K Nandwana,Eyas Alnasser,Emily C Gentry","doi":"10.1111/nyas.70004","DOIUrl":"https://doi.org/10.1111/nyas.70004","url":null,"abstract":"The gut microbiome has the biosynthetic potential to make a variety of secondary metabolites or natural products, which serve as molecular messages between cells and organisms. These chemical signals are capable of affecting physiology and behavior in real time, and are, therefore, bioactive and can exhibit medicinal properties including anticancer, antimicrobial, or immunomodulating activities. It is clearly important to identify signaling molecules in the human gut, but elucidating their chemical structures can be challenging since traditional isolation methods are typically not available. The discovery of microbiome-related metabolites requires multidisciplinary collaboration, where chemical synthesis often plays an essential role. This review highlights examples where synthetic chemistry was used to study novel metabolites produced by the gut microbiota. In the first part, we describe examples where organic synthesis was utilized in traditional contexts, as a last step for validating structures and sourcing material for biological testing. The final section of this review discusses next-generation applications for chemical synthesis, where integration with metabolomic or genomic analysis simultaneously uncovers both structural and biological information about small molecules from the gut.","PeriodicalId":8250,"journal":{"name":"Annals of the New York Academy of Sciences","volume":"20 1","pages":""},"PeriodicalIF":5.2,"publicationDate":"2025-08-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144769793","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"What it’s like fighting racism and sexism in shark science","authors":"","doi":"10.1038/d41586-025-02189-3","DOIUrl":"https://doi.org/10.1038/d41586-025-02189-3","url":null,"abstract":"Jaida Elcock, a co-founder of Minorities in Shark Sciences, talks about how pushback drives her forward.","PeriodicalId":18787,"journal":{"name":"Nature","volume":"30 1","pages":""},"PeriodicalIF":64.8,"publicationDate":"2025-08-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144769905","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}