Jiaqi Zhang, Jiaojiao Hu, Ruogu Liu, Tian Zhou, Xuewei Luo, Peigang Liang, Zaichao Xie, Qinyue Zhao, Yan Chen, Dan Du, Cong Liu, Yiming Zheng, Dan Li, Bo Wang
{"title":"Author Correction: YAP maintains the dynamics of TDP-43 condensates and antagonizes TDP-43 pathological aggregates.","authors":"Jiaqi Zhang, Jiaojiao Hu, Ruogu Liu, Tian Zhou, Xuewei Luo, Peigang Liang, Zaichao Xie, Qinyue Zhao, Yan Chen, Dan Du, Cong Liu, Yiming Zheng, Dan Li, Bo Wang","doi":"10.1038/s41556-026-02121-5","DOIUrl":"https://doi.org/10.1038/s41556-026-02121-5","url":null,"abstract":"","PeriodicalId":18977,"journal":{"name":"Nature Cell Biology","volume":" ","pages":""},"PeriodicalIF":22.7,"publicationDate":"2026-10-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149148502","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Demi Wernaart, Amos Fumagalli, Mrittika Adhikary, Xiaodong Feng, Olaf Geintzer, Edwin S. Kyei-Baffour, Onno B. Bleijerveld, Liesbeth Hoekman, Ceri Zwart, Alexander Fish, Lisanne Giebel, Artur Burylo, Natalie Proost, Pierre-René Körner, Ferhat Alkan, Chao Yang, Janne Brouwer, Cecilia Anna Henriksen, Eric Westhof, Julien Champagne, Olaf van Tellingen, Marina Rodnina, Reuven Agami
{"title":"Global and specific mechanisms stimulate mistranslation in cancer","authors":"Demi Wernaart, Amos Fumagalli, Mrittika Adhikary, Xiaodong Feng, Olaf Geintzer, Edwin S. Kyei-Baffour, Onno B. Bleijerveld, Liesbeth Hoekman, Ceri Zwart, Alexander Fish, Lisanne Giebel, Artur Burylo, Natalie Proost, Pierre-René Körner, Ferhat Alkan, Chao Yang, Janne Brouwer, Cecilia Anna Henriksen, Eric Westhof, Julien Champagne, Olaf van Tellingen, Marina Rodnina, Reuven Agami","doi":"10.1038/s41556-026-02088-3","DOIUrl":"https://doi.org/10.1038/s41556-026-02088-3","url":null,"abstract":"Tryptophan codon-specific mistranslation, in the form of ribosomal frameshifting and tryptophan-to-phenylalanine (W > F) codon reassignments (substitutants), is induced in cancer cells by the limiting level of tryptophan imposed by anti-tumour immunity. While the oncogenic mitogen-activated protein kinase pathway drives frameshifting, whether substitutants are genetically regulated remains unknown. Here we screened for genes that control W > F substitutants following interferon-γ-mediated tryptophan shortage. This screen identified ADAR1, an enzyme that converts adenosine to inosine in double-stranded RNA molecules, and FTSJ1, an enzyme that 2′-O-methylates the anticodon region of several tRNAs. We demonstrate that ADAR1 sustains expression of key players in the ribosome quality control pathway, which in turn is essential for mistranslation events. FTSJ1, in contrast, specifically drives W > F mistranslation by methylation of tRNATrp to promote its binding to WARS1 loaded with phenylalanine instead of tryptophan. As ADAR1 and FTSJ1 levels are elevated in many cancer types, we propose that cancer cells deploy global and specific mechanisms to promote mistranslation in response to anti-tumour immunity.","PeriodicalId":18977,"journal":{"name":"Nature Cell Biology","volume":"13 1","pages":""},"PeriodicalIF":21.3,"publicationDate":"2026-10-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149087632","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
H. Mathilda Lennartz, Susana da Costa Nunes, Kristin Böhlig, Aditya Chhatre, Radek Šachl, Sascha M. Kuhn, Lior Moneta, Pavel Barahtjan, Wan Yee Yau, Juan M. Iglesias-Artola, Martin Hof, Lukáš Opálka, Carl D. Modes, Alf Honigmann, André Nadler
{"title":"Quantification of lipid sorting during clathrin-mediated endocytosis","authors":"H. Mathilda Lennartz, Susana da Costa Nunes, Kristin Böhlig, Aditya Chhatre, Radek Šachl, Sascha M. Kuhn, Lior Moneta, Pavel Barahtjan, Wan Yee Yau, Juan M. Iglesias-Artola, Martin Hof, Lukáš Opálka, Carl D. Modes, Alf Honigmann, André Nadler","doi":"10.1038/s41556-026-02068-7","DOIUrl":"10.1038/s41556-026-02068-7","url":null,"abstract":"Clathrin-mediated endocytosis is a major transport route for proteins from the plasma membrane to the interior of the cell. While the recruitment of cargo proteins to clathrin-coated pits is well understood, it remains an open question whether lipids are also sorted by this process. Here, to address this question, we combined super-resolution stimulated emission depletion imaging of bifunctional lipid probes with mathematical modelling. Quantification of ten different lipid species revealed significant differences in pit partitioning, ranging from slight enrichment to moderate exclusion. We find that the lipid asymmetry in the plasma membrane is sufficient to explain the observed trend. Taken together, our findings imply that clathrin-mediated endocytosis has a minor selectivity for cytoplasmic leaflet lipids, but overall does not substantially contribute to lipid sorting compared with non-vesicular trafficking. Lennartz et al. evaluate lipid enrichment in clathrin-coated pits and observe that the differential lipid partitioning into clathrin-coated pits is largely driven by the lipid asymmetry of the plasma membrane.","PeriodicalId":18977,"journal":{"name":"Nature Cell Biology","volume":"28 10","pages":"2027-2035"},"PeriodicalIF":22.7,"publicationDate":"2026-09-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.nature.comhttps://www.nature.com/articles/s41556-026-02068-7.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149081472","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Elin Vinsland, Sergio Marco Salas, Ivana Kapustová, Lijuan Hu, Simone Webb, Xiaofei Li, Xiaoling He, Mats Nilsson, Muzlifah Haniffa, Roger A. Barker, Oscar Persson, David R. Raleigh, Erik Sundström, Peter Lönnerberg, Sten Linnarsson
{"title":"Cell atlas of the developing human meninges reveals a dura-like nature of meningiomas","authors":"Elin Vinsland, Sergio Marco Salas, Ivana Kapustová, Lijuan Hu, Simone Webb, Xiaofei Li, Xiaoling He, Mats Nilsson, Muzlifah Haniffa, Roger A. Barker, Oscar Persson, David R. Raleigh, Erik Sundström, Peter Lönnerberg, Sten Linnarsson","doi":"10.1038/s41556-026-02074-9","DOIUrl":"10.1038/s41556-026-02074-9","url":null,"abstract":"The vertebrate central nervous system is enveloped by the meninges, consisting of the pia, arachnoid and dura layers. The arachnoid is hypothesized to give rise to the most common primary intracranial tumours, meningiomas. However, supporting molecular evidence is lacking. There are no effective medical therapies to treat meningiomas that are resistant to local interventions, encumbered by our limited understanding of their cellular origin. Here, to advance our understanding of meningioma biology, we generated a comprehensive reference single-cell and spatial transcriptomic atlas of human fetal meninges at postconceptional weeks 5–13. We found that the meningeal layers develop concurrently, and identified an inner CDH1-positive dura layer expressing tight-junction genes consistent with barrier function. Comparing meningiomas with fetal meninges, we show that, transcriptionally, meningioma cells resemble dura-lineage cells, and that common meningioma driver genes were expressed in the dura lineage. This raises the hypothesis that meningiomas could originate from dura-lineage cells. Vinsland et al. provide a single-cell and spatial transcriptomics atlas of postconceptional week 5–13 human meninges and perform comparative studies with meningioma data.","PeriodicalId":18977,"journal":{"name":"Nature Cell Biology","volume":"28 10","pages":"2155-2168"},"PeriodicalIF":22.7,"publicationDate":"2026-09-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.nature.comhttps://www.nature.com/articles/s41556-026-02074-9.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149075529","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Ken To, J. Patrick Pett, Olli Dufva, Nana-Jane Chipampe, Krzysztof Polanski, Ana-Maria Cujba, Kenny Roberts, Alexander V. Predeus, Nadav Yayon, Kazumasa Kanemaru, Manal I. Patel, David Horsfall, Tong Li, Pavel Mazin, Batuhan Cakir, Rakesh Kapuge, Alicja Wilk, Fani Memi, Xiaoling He, Nita Solanky, Saeed Kayhanian, Richard Mair, Koen Rademaker, Omer Ali Bayraktar, Muzlifah Haniffa, Roger A. Barker, Christopher D. Buckley, Sarah A. Teichmann
{"title":"Spatially resolved multiomics of human meningeal development reveal lineage and disease dynamics","authors":"Ken To, J. Patrick Pett, Olli Dufva, Nana-Jane Chipampe, Krzysztof Polanski, Ana-Maria Cujba, Kenny Roberts, Alexander V. Predeus, Nadav Yayon, Kazumasa Kanemaru, Manal I. Patel, David Horsfall, Tong Li, Pavel Mazin, Batuhan Cakir, Rakesh Kapuge, Alicja Wilk, Fani Memi, Xiaoling He, Nita Solanky, Saeed Kayhanian, Richard Mair, Koen Rademaker, Omer Ali Bayraktar, Muzlifah Haniffa, Roger A. Barker, Christopher D. Buckley, Sarah A. Teichmann","doi":"10.1038/s41556-026-02075-8","DOIUrl":"10.1038/s41556-026-02075-8","url":null,"abstract":"The meninges are increasingly recognized as key stromal and immune niches supporting cranial development. Here we constructed a paired single-nuclei RNA and Assay for Transposase-Accessible Chromatin atlas of human meningeal development from 6 to 21 postconception weeks across cranial regions. By integrating spatial transcriptomics, we resolved cell types across meningeal layers. Our multiomic atlas defines gene regulatory networks underlying blood–brain barrier endothelial identity during development. Within immune compartments, the data support a yolk sac origin for meningeal myeloid lineages, including perivascular macrophages primed for barrier immunity. We present two analytical tools: Nichefinder, for spatial label transfer and proximity analysis, and cell2home, for inferring chemotactic signalling. Using cell2home, we identify interactions potentially driving B cell migration from cranial marrow into prenatal meninges. We studied trisomy 21, and observed reduced fibroblast chemokine expression with enhanced JAK–STAT signalling. Together, this work provides a developmental atlas of the human meninges and defines cellular and regulatory programs shaping early barrier immunity. To, Pett, Dufva et al. perform single-nucleus RNA and ATAC sequencing, as well as spatial transcriptomics, to study human meninges at 6–21 weeks post conception.","PeriodicalId":18977,"journal":{"name":"Nature Cell Biology","volume":"28 10","pages":"2169-2178"},"PeriodicalIF":22.7,"publicationDate":"2026-09-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.nature.comhttps://www.nature.com/articles/s41556-026-02075-8.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149075454","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Joyce C M Meiring, Varsha Mahapatra, Ruijie Liu, Molly S C Gravett, Daan Morren, Harriet A J Saunders, Sung Ryul Choi, Andressa Pelster José, Adela Karhanova, Ioanna Metallidou, Alex Moore, Marèl F M Spoelstra, Ilya S Grigoriev, Matteo Giono, Saishree S Iyer, Samantha J Stehbens, J Fernando Díaz, Zdenek Lansky, Kelly E Stecker, Michel O Steinmetz, Stuart C Howes, Lukas C Kapitein, Anna Akhmanova
{"title":"Taxane-induced conformational changes in the microtubule lattice activate GEF-H1-dependent RhoA signalling.","authors":"Joyce C M Meiring, Varsha Mahapatra, Ruijie Liu, Molly S C Gravett, Daan Morren, Harriet A J Saunders, Sung Ryul Choi, Andressa Pelster José, Adela Karhanova, Ioanna Metallidou, Alex Moore, Marèl F M Spoelstra, Ilya S Grigoriev, Matteo Giono, Saishree S Iyer, Samantha J Stehbens, J Fernando Díaz, Zdenek Lansky, Kelly E Stecker, Michel O Steinmetz, Stuart C Howes, Lukas C Kapitein, Anna Akhmanova","doi":"10.1038/s41556-026-02079-4","DOIUrl":"https://doi.org/10.1038/s41556-026-02079-4","url":null,"abstract":"<p><p>Taxanes are widely used chemotherapeutic agents that perturb cell division. They also exert effects during interphase, but the underlying mechanisms are poorly understood. Here we show that taxanes activate RhoA signalling and induce actin remodelling by releasing the RhoA activator GEF-H1 from microtubules. This taxane-induced release of GEF-H1 occurs rapidly, is independent of tubulin post-translational modifications, and can be recapitulated using purified proteins. In vitro reconstitution assays combined with analyses of microtubule structure revealed that microtubule binding by GEF-H1 is inhibited by microtubule-stabilizing ligands that expand the microtubule lattice, such as taxanes and GMPCPP, but not by others, including GTPγS and discodermolide, which stabilize a compacted microtubule lattice. Our findings demonstrate that alterations in microtubule lattice conformation can activate key signalling pathways, offering insights into the mode of action of taxanes and the possible origins of their side effects.</p>","PeriodicalId":18977,"journal":{"name":"Nature Cell Biology","volume":" ","pages":""},"PeriodicalIF":22.7,"publicationDate":"2026-09-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149039884","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Scientific culture in the age of AI","authors":"Ivan Dikic, Henning Walczak","doi":"10.1038/s41556-026-02070-z","DOIUrl":"10.1038/s41556-026-02070-z","url":null,"abstract":"Recent changes in Genentech’s scientific organization, occurring as the company makes artificial intelligence (AI) increasingly central to its research strategy, highlight a broader question facing biomedical research: how will the growing use of AI reshape the process of scientific discovery?","PeriodicalId":18977,"journal":{"name":"Nature Cell Biology","volume":"28 10","pages":"1980-1982"},"PeriodicalIF":22.7,"publicationDate":"2026-09-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149039942","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Wei Li, Yuanxiang Jiang, Qingqing Zhao, Yang Xu, Deli Dai, Yu Rong, Xin Zhao, Han Zhang
{"title":"The dual-enhanced graph learning framework DePass allows paired data integration in single-cell and spatial multiomics","authors":"Wei Li, Yuanxiang Jiang, Qingqing Zhao, Yang Xu, Deli Dai, Yu Rong, Xin Zhao, Han Zhang","doi":"10.1038/s41556-026-02067-8","DOIUrl":"10.1038/s41556-026-02067-8","url":null,"abstract":"Recent sequencing advances have enabled abundant multi-omics data generation for both single-cell and spatial contexts. Integrating such multimodal data is critical for decoding cellular and tissue-level complexity. However, compared with single-modality profiling, multimodal data often exhibit higher levels of noise, and existing methods typically overlook this challenge during integration. Meanwhile, most current approaches are tailored to either single-cell or spatial data, limiting their applicability across data types. Here we present DePass, a scalable graph learning framework for paired data integration in both single-cell and spatial multi-omics. We propose a coupled enhancement-integration architecture that iteratively denoises data and improves integrated embeddings. We systematically benchmarked DePass across 6 modalities, 9 tissue types and 13 experimental platforms, demonstrating superior integration accuracy. In the in-house colorectal cancer data, DePass further uncovered immune niche substructure and spatial tumour heterogeneity at near single-cell resolution. These results establish DePass as a unified and generalizable solution for multi-omics integration across diverse biological contexts. Li, Jiang and colleagues present DePass, a graph-based deep learning framework for integrating paired multi-omics data in spatial and single-cell contexts. A dual-enhancement approach is used to remove noise from raw omics data using neighbourhood aggregation.","PeriodicalId":18977,"journal":{"name":"Nature Cell Biology","volume":"28 10","pages":"2179-2192"},"PeriodicalIF":22.7,"publicationDate":"2026-09-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149040025","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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