综合性期刊最新文献

{"title":"Correction for Ferraro et al., Outdated reproductive norms, the naturalistic fallacy, and misunderstandings of welfare in recent call for zoo breed-and-feed programs.","authors":"","doi":"10.1073/pnas.2517345122","DOIUrl":"https://doi.org/10.1073/pnas.2517345122","url":null,"abstract":"","PeriodicalId":20548,"journal":{"name":"Proceedings of the National Academy of Sciences of the United States of America","volume":"122 31","pages":"e2517345122"},"PeriodicalIF":9.4,"publicationDate":"2025-08-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144715184","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":"Six million years of vole dental evolution shaped by tooth development.","authors":"Fabien Lafuma, Élodie Renvoisé, Julien Clavel, Ian J Corfe, Gilles Escarguel","doi":"10.1073/pnas.2505624122","DOIUrl":"https://doi.org/10.1073/pnas.2505624122","url":null,"abstract":"<p><p>Morphological change occurs over macroevolutionary timescales under the action of natural selection and genetic drift combined with developmental processes shaping organogenesis. Although determining their relative weight is made difficult by discrepancies between paleontological and neontological data, mammalian tooth morphology may bridge the gap between fossil record and laboratory observations. Fossils indicate that mammals have frequently diversified after evolving molars bearing more cusps, while developmental biology shows these emerge through the iterative signaling of enamel knots. However, this theoretical evo-devo model of mammalian tooth evolution has not been tested with empirical data from both fossils and laboratory experiments. In doing so, we identify a shared developmental basis for the convergent, ratcheted evolution of increasingly complex molars in arvicoline rodents (voles, lemmings, muskrats). Longer, narrower molars lead to more cusps throughout development and deep time, suggesting that tooth development directed morphological evolution. Both the arvicoline fossil record and vole tooth development show slower transitions toward the highest cusp counts. This pattern suggests that the developmental processes fueling the evolution of increasingly complex molars may also limit the potential for further complexity increases. Integrating paleontological and developmental data shows that long-term evolutionary trends can be accurately and mostly explained by the simple tinkering of developmental pathways.</p>","PeriodicalId":20548,"journal":{"name":"Proceedings of the National Academy of Sciences of the United States of America","volume":"122 31","pages":"e2505624122"},"PeriodicalIF":9.1,"publicationDate":"2025-08-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144761077","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":"SON-dependent nuclear speckle rehabilitation alleviates proteinopathies","authors":"William Dion, Yuren Tao, Maci Chambers, Shanshan Zhao, Riley K. Arbuckle, Michelle Sun, Syeda Kubra, Matthew A. Schaich, Yuhang Nie, Megan Ye, Imran Jamal, Mads B. Larsen, Daniel Camarco, Eleanor Ickes, Haokun H. Wang, C. DuPont, Bingjie Wang, Silvia Liu, Shaohua Pi, Bennett Van Houten, Bill B. Chen, Yuanyuan Chen, Xu Chen, Bokai Zhu","doi":"10.1038/s41467-025-62242-7","DOIUrl":"https://doi.org/10.1038/s41467-025-62242-7","url":null,"abstract":"<p>Current treatments targeting individual protein quality control pathways have limited efficacy in alleviating proteinopathies, highlighting the prerequisite for a common druggable target capable of global proteostasis modulation. Building upon our prior research establishing nuclear speckles as pivotal membrane-less organelles for transcriptional control of proteostasis, we aim to alleviate proteinopathies through nuclear speckle rehabilitation. We identify pyrvinium pamoate as a nuclear speckle rehabilitator that enhances protein quality control gene expression and suppresses YAP1 transcriptional activity via decreasing the surface/interfacial tension of nuclear speckle condensates through interaction with the intrinsically disordered region of nuclear speckle scaffold protein SON. In pre-clinical models, nanomolar pyrvinium pamoate protects against retinal degeneration and tauopathy mainly by promoting autophagy and ubiquitin-proteasome activity in a SON-dependent manner without causing stress. Aberrant nuclear speckle morphology, reduced protein quality control and increased YAP1 activity are observed in human tauopathies. Our study provides proof-of-principle of targeting nuclear speckles to ameliorate proteinopathies.</p>","PeriodicalId":19066,"journal":{"name":"Nature Communications","volume":"29 1","pages":""},"PeriodicalIF":16.6,"publicationDate":"2025-08-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144778338","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":"Characterization of ferric hydroxysulfate on Mars and implications of the geochemical environment supporting its formation","authors":"J. L. Bishop, J. M. Meusburger, C. M. Weitz, M. Parente, C. Gross, D. Talla, A. M. Saranathan, Y. Itoh, M. R. D. Gruendler, A. E. G. Howells, M. Yeşilbaş, T. Hiroi, B. Schmitt, A. Maturilli, M. Al-Samir, T. F. Bristow, B. Lafuente, M. Wildner","doi":"10.1038/s41467-025-61801-2","DOIUrl":"https://doi.org/10.1038/s41467-025-61801-2","url":null,"abstract":"<p>Sulfate minerals are significant components of the martian surface and provide clues about the martian geochemical environment. One unusual Fe-sulfate phase has been intriguing Mars scientists for over a decade due to its unique spectral bands that are distinct from any known minerals and its occurrence in layered sedimentary rocks. We describe here detection of ferric hydroxysulfate (Fe³⁺SO₄OH) and its implications for the geochemical history of Mars. Crystalline ferric hydroxysulfate is formed by heating hydrous Fe²⁺ sulfates to 100 °C or above and has a strong spectral band at 2.236 µm, similar to the spectral feature observed on Mars at Aram Chaos and on the plateau above Juventae Chasma. Hydrated sulfates at these locations likely formed through evaporative processes or low-temperature alteration. In contrast, Fe³⁺SO₄OH is more consistent with heating and oxidation of hydrated ferrous sulfates, potentially through deposition of lava, ash, or through hydrothermal processes.</p>","PeriodicalId":19066,"journal":{"name":"Nature Communications","volume":"44 1","pages":""},"PeriodicalIF":16.6,"publicationDate":"2025-08-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144778341","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":"Universal quantum computation using Ising anyons from a non-semisimple topological quantum field theory","authors":"Filippo Iulianelli, Sung Kim, Joshua Sussan, Aaron D. Lauda","doi":"10.1038/s41467-025-61342-8","DOIUrl":"https://doi.org/10.1038/s41467-025-61342-8","url":null,"abstract":"<p>We propose a framework for topological quantum computation using newly discovered non-semisimple analogs of topological quantum field theories in 2 + 1 dimensions. These enhanced theories offer more powerful models for quantum computation. The conventional theory of Ising anyons, which is believed to describe excitations in the <i>ν</i> = 5/2 fractional quantum Hall state, is not universal for quantum computation via braiding of quasiparticles. However, we show that the non-semisimple theory introduces new anyon types that extend the Ising framework. By adding just one new anyon type, universal quantum computation can be achieved through braiding alone. This result opens new avenues for realizing fault-tolerant quantum computing in topologically ordered systems.</p>","PeriodicalId":19066,"journal":{"name":"Nature Communications","volume":"11 1","pages":""},"PeriodicalIF":16.6,"publicationDate":"2025-08-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144778343","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":"Microhaplotype deep sequencing assays to capture Plasmodium vivax infection lineages","authors":"Mariana Kleinecke, Edwin Sutanto, Angela Rumaseb, Kian Soon Hoon, Hidayat Trimarsanto, Ashley Osborne, Paulo Manrique, Trent Peters, David Hawkes, Ernest Diez Benavente, Georgia Whitton, Sasha V. Siegel, Richard D. Pearson, Roberto Amato, Anjana Rai, Nguyen Thanh Thuy Nhien, Hoang Chau Nguyen, Ashenafi Assefa, Tamiru S. Degaga, Dagimawie Tadesse Abate, Awab Ghulam Rahim, Ayodhia Pitaloka Pasaribu, Inge Sutanto, Mohammad Shafiul Alam, Zuleima Pava, Tatiana Lopera-Mesa, Diego Echeverry, Tim William, Nicholas M. Anstey, Matthew J. Grigg, Nicholas P. Day, Nicholas J. White, Dominic P. Kwiatkowski, Aimee R. Taylor, Rintis Noviyanti, Daniel Neafsey, Ric N. Price, Sarah Auburn","doi":"10.1038/s41467-025-62357-x","DOIUrl":"https://doi.org/10.1038/s41467-025-62357-x","url":null,"abstract":"<p><i>Plasmodium vivax</i> elimination is challenged by dormant liver stages (hypnozoites) that can reactivate months after initial infection resulting in relapses. Relapsing infections confound antimalarial clinical efficacy trials due to the inability to distinguish between recurrences arising from blood-stage treatment failure (recrudescence), reinfection or relapse. Genetic relatedness of paired parasite isolates, measured by identity-by-descent (IBD), can provide important information on whether individuals have had single or multiple mosquito inoculations, thus informing on recurrence origin. We developed a high-throughput amplicon sequencing assay comprising 93 multi-SNP (microhaplotype) markers to determine IBD between <i>P. vivax</i> clinical isolates. The assay was evaluated in 745 global infections, including 128 infection pairs from a randomized controlled trial (RCT) (ClinicalTrials.gov NCT01680406). Simulations demonstrate low error in pairwise IBD estimation at the panel (RMSE &lt; 0.12) and IBD-based networks illustrate strong clustering by geography. IBD analysis in the RCT demonstrates a lower frequency of suspected relapses or recrudescence in patients treated with primaquine compared to those without primaquine; the impact is greater when paired with chloroquine than with artemether-lumefantrine. Our results demonstrate the potential to derive new information on <i>P. vivax</i> treatment and transmission using IBD generated by amplicon sequencing data that can be further improved with time-to-event models.</p>","PeriodicalId":19066,"journal":{"name":"Nature Communications","volume":"37 1","pages":""},"PeriodicalIF":16.6,"publicationDate":"2025-08-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144778358","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":"PreMode predicts mode-of-action of missense variants by deep graph representation learning of protein sequence and structural context","authors":"Guojie Zhong, Yige Zhao, Demi Zhuang, Wendy K. Chung, Yufeng Shen","doi":"10.1038/s41467-025-62318-4","DOIUrl":"https://doi.org/10.1038/s41467-025-62318-4","url":null,"abstract":"<p>Accurate prediction of the functional impact of missense variants is important for disease gene discovery, clinical genetic diagnostics, therapeutic strategies, and protein engineering. Previous efforts have focused on predicting a binary pathogenicity classification, but the functional impact of missense variants is multi-dimensional. Pathogenic missense variants in the same gene may act through different modes of action (i.e., gain/loss-of-function) by affecting different aspects of protein function. They may result in distinct clinical conditions that require different treatments. We develop a new method, PreMode, to perform gene-specific mode-of-action predictions. PreMode models effects of coding sequence variants using SE(3)-equivariant graph neural networks on protein sequences and structures. Using the largest-to-date set of missense variants with known modes of action, we show that PreMode reaches state-of-the-art performance in multiple types of mode-of-action predictions by efficient transfer-learning. Additionally, PreMode’s prediction of G/LoF variants in a kinase is consistent with inactive-active conformation transition energy changes. Finally, we show that PreMode enables efficient study design of deep mutational scans and can be expanded to fitness optimization of non-human proteins with active learning.</p>","PeriodicalId":19066,"journal":{"name":"Nature Communications","volume":"724 1","pages":""},"PeriodicalIF":16.6,"publicationDate":"2025-08-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144778372","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":"3D printing of salt-like granular polyacrylamide as sacrificial molds for shaping versatile materials","authors":"Yejia Si, Zhuo Sun, Qian Zhao, Tao Xie, Jingjun Wu","doi":"10.1038/s41467-025-62674-1","DOIUrl":"https://doi.org/10.1038/s41467-025-62674-1","url":null,"abstract":"<p>Digital light processing 3D printing is a powerful manufacturing technology for shaping materials into complex geometries with high resolution. However, the rheological and chemical requirements for printing limit the use of materials to photoactive resins. Here, we propose a versatile manufacturing platform for constructing versatile materials using DLP-printed water-soluble granular polyacrylamide as sacrificial molds. The polymerization-induced phase separation during printing results in a close packed granular geometry with intrinsic micropores, which greatly accelerates the dissolution rate of polyacrylamide. Combined with precise control over the molecular weight, this salt-like sacrificial mold can be fully dissolved in neutral water at room temperature within 30 min. Furthermore, significant surface oxygen inhibition promotes the leveling and spreading of liquid resin on the cured part surfaces, achieving a printing speed of 375 mm/h in a top-down printer. Due to the mild conditions for mold removal, complex-shaped architectures can be created from a variety of compositions, including temperature-sensitive low-melting alloys, alkaline-degradable polyesters, as well as widely used materials such as silicone rubber, polyurethane, polyolefin elastomer, and epoxy. Considering the fast mold dissolution rate and mild dissolution conditions, the present platform represents a potential low-cost, and universal indirect 3D printing method for shaping versatile materials.</p>","PeriodicalId":19066,"journal":{"name":"Nature Communications","volume":"30 1","pages":""},"PeriodicalIF":16.6,"publicationDate":"2025-08-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144778374","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":"Plan-B careers can be a force for good in science","authors":"","doi":"10.1038/d41586-025-02478-x","DOIUrl":"https://doi.org/10.1038/d41586-025-02478-x","url":null,"abstract":"Letter to the Editor","PeriodicalId":18787,"journal":{"name":"Nature","volume":"726 1","pages":""},"PeriodicalIF":64.8,"publicationDate":"2025-08-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144778389","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":"Conserve marine migratory species to protect ecological links between land and sea","authors":"","doi":"10.1038/d41586-025-02475-0","DOIUrl":"https://doi.org/10.1038/d41586-025-02475-0","url":null,"abstract":"Letter to the Editor","PeriodicalId":18787,"journal":{"name":"Nature","volume":"12 1","pages":""},"PeriodicalIF":64.8,"publicationDate":"2025-08-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144778601","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}