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Spatial immune scoring system predicts hepatocellular carcinoma recurrence
IF 64.8 1区 综合性期刊 Q1 MULTIDISCIPLINARY SCIENCES Pub Date : 2025-03-12 DOI: 10.1038/s41586-025-08668-x
Gengjie Jia, Peiqi He, Tianli Dai, Denise Goh, Jiabei Wang, Mengyuan Sun, Felicia Wee, Fuling Li, Jeffrey Chun Tatt Lim, Shuxia Hao, Yao Liu, Tony Kiat Hon Lim, Nye-Thane Ngo, Qingping Tao, Wei Wang, Ahitsham Umar, Björn Nashan, Yongchang Zhang, Chen Ding, Joe Yeong, Lianxin Liu, Cheng Sun

Given the high recurrence rates of hepatocellular carcinoma (HCC) post-resection1,2,3, improved early identification of patients at high risk for post-resection recurrence would help to improve patient outcomes and prioritize healthcare resources4,5,6. Here we observed a spatial and HCC recurrence-associated distribution of natural killer (NK) cells in the invasive front and tumour centre from 61 patients. Using extreme gradient boosting and inverse-variance weighting, we developed the tumour immune microenvironment spatial (TIMES) score based on the spatial expression patterns of five biomarkers (SPON2, ZFP36L2, ZFP36, VIM and HLA-DRB1) to predict HCC recurrence risk. The TIMES score (hazard ratio = 88.2, P < 0.001) outperformed current standard tools for patient risk stratification including the TNM and BCLC systems. We validated the model in 231 patients from five multicentred cohorts, achieving a real-world accuracy of 82.2% and specificity of 85.7%. The predictive power of these biomarkers emerged through the integration of their spatial distributions, rather than individual marker expression levels alone. In vivo models, including NK cell-specific Spon2-knockout mice, revealed that SPON2 enhances IFNγ secretion and NK cell infiltration at the invasive front. Our study introduces TIMES, a publicly accessible tool for predicting HCC recurrence risk, offering insights into its potential to inform treatment decisions for early-stage HCC.

{"title":"Spatial immune scoring system predicts hepatocellular carcinoma recurrence","authors":"Gengjie Jia, Peiqi He, Tianli Dai, Denise Goh, Jiabei Wang, Mengyuan Sun, Felicia Wee, Fuling Li, Jeffrey Chun Tatt Lim, Shuxia Hao, Yao Liu, Tony Kiat Hon Lim, Nye-Thane Ngo, Qingping Tao, Wei Wang, Ahitsham Umar, Björn Nashan, Yongchang Zhang, Chen Ding, Joe Yeong, Lianxin Liu, Cheng Sun","doi":"10.1038/s41586-025-08668-x","DOIUrl":"https://doi.org/10.1038/s41586-025-08668-x","url":null,"abstract":"<p>Given the high recurrence rates of hepatocellular carcinoma (HCC) post-resection<sup>1,2,3</sup>, improved early identification of patients at high risk for post-resection recurrence would help to improve patient outcomes and prioritize healthcare resources<sup>4,5,6</sup>. Here we observed a spatial and HCC recurrence-associated distribution of natural killer (NK) cells in the invasive front and tumour centre from 61 patients. Using extreme gradient boosting and inverse-variance weighting, we developed the tumour immune microenvironment spatial (TIMES) score based on the spatial expression patterns of five biomarkers (SPON2, ZFP36L2, ZFP36, VIM and HLA-DRB1) to predict HCC recurrence risk. The TIMES score (hazard ratio = 88.2, <i>P</i> &lt; 0.001) outperformed current standard tools for patient risk stratification including the TNM and BCLC systems. We validated the model in 231 patients from five multicentred cohorts, achieving a real-world accuracy of 82.2% and specificity of 85.7%. The predictive power of these biomarkers emerged through the integration of their spatial distributions, rather than individual marker expression levels alone. In vivo models, including NK cell-specific <i>Spon2</i>-knockout mice, revealed that SPON2 enhances IFNγ secretion and NK cell infiltration at the invasive front. Our study introduces TIMES, a publicly accessible tool for predicting HCC recurrence risk, offering insights into its potential to inform treatment decisions for early-stage HCC.</p>","PeriodicalId":18787,"journal":{"name":"Nature","volume":"15 1","pages":""},"PeriodicalIF":64.8,"publicationDate":"2025-03-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143608118","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}
引用次数: 0
Natural behaviour is learned through dopamine-mediated reinforcement
IF 64.8 1区 综合性期刊 Q1 MULTIDISCIPLINARY SCIENCES Pub Date : 2025-03-12 DOI: 10.1038/s41586-025-08729-1
Jonathan Kasdin, Alison Duffy, Nathan Nadler, Arnav Raha, Adrienne L. Fairhall, Kimberly L. Stachenfeld, Vikram Gadagkar

Many natural motor skills, such as speaking or locomotion, are acquired through a process of trial-and-error learning over the course of development. It has long been hypothesized, motivated by observations in artificial learning experiments, that dopamine has a crucial role in this process. Dopamine in the basal ganglia is thought to guide reward-based trial-and-error learning by encoding reward prediction errors1, decreasing after worse-than-predicted reward outcomes and increasing after better-than-predicted ones. Our previous work in adult zebra finches—in which we changed the perceived song quality with distorted auditory feedback—showed that dopamine in Area X, the singing-related basal ganglia, encodes performance prediction error: dopamine is suppressed after worse-than-predicted (distorted syllables) and activated after better-than-predicted (undistorted syllables) performance2. However, it remains unknown whether the learning of natural behaviours, such as developmental vocal learning, occurs through dopamine-based reinforcement. Here we tracked song learning trajectories in juvenile zebra finches and used fibre photometry3 to monitor concurrent dopamine activity in Area X. We found that dopamine was activated after syllable renditions that were closer to the eventual adult version of the song, compared with recent renditions, and suppressed after renditions that were further away. Furthermore, the relationship between dopamine and song fluctuations revealed that dopamine predicted the future evolution of song, suggesting that dopamine drives behaviour. Finally, dopamine activity was explained by the contrast between the quality of the current rendition and the recent history of renditions—consistent with dopamine’s hypothesized role in encoding prediction errors in an actor–critic reinforcement-learning model4,5. Reinforcement-learning algorithms6 have emerged as a powerful class of model to explain learning in reward-based laboratory tasks, as well as for driving autonomous learning in artificial intelligence7. Our results suggest that complex natural behaviours in biological systems can also be acquired through dopamine-mediated reinforcement learning.

{"title":"Natural behaviour is learned through dopamine-mediated reinforcement","authors":"Jonathan Kasdin, Alison Duffy, Nathan Nadler, Arnav Raha, Adrienne L. Fairhall, Kimberly L. Stachenfeld, Vikram Gadagkar","doi":"10.1038/s41586-025-08729-1","DOIUrl":"https://doi.org/10.1038/s41586-025-08729-1","url":null,"abstract":"<p>Many natural motor skills, such as speaking or locomotion, are acquired through a process of trial-and-error learning over the course of development. It has long been hypothesized, motivated by observations in artificial learning experiments, that dopamine has a crucial role in this process. Dopamine in the basal ganglia is thought to guide reward-based trial-and-error learning by encoding reward prediction errors<sup>1</sup>, decreasing after worse-than-predicted reward outcomes and increasing after better-than-predicted ones. Our previous work in adult zebra finches—in which we changed the perceived song quality with distorted auditory feedback—showed that dopamine in Area X, the singing-related basal ganglia, encodes performance prediction error: dopamine is suppressed after worse-than-predicted (distorted syllables) and activated after better-than-predicted (undistorted syllables) performance<sup>2</sup>. However, it remains unknown whether the learning of natural behaviours, such as developmental vocal learning, occurs through dopamine-based reinforcement. Here we tracked song learning trajectories in juvenile zebra finches and used fibre photometry<sup>3</sup> to monitor concurrent dopamine activity in Area X. We found that dopamine was activated after syllable renditions that were closer to the eventual adult version of the song, compared with recent renditions, and suppressed after renditions that were further away. Furthermore, the relationship between dopamine and song fluctuations revealed that dopamine predicted the future evolution of song, suggesting that dopamine drives behaviour. Finally, dopamine activity was explained by the contrast between the quality of the current rendition and the recent history of renditions—consistent with dopamine’s hypothesized role in encoding prediction errors in an actor–critic reinforcement-learning model<sup>4,5</sup>. Reinforcement-learning algorithms<sup>6</sup> have emerged as a powerful class of model to explain learning in reward-based laboratory tasks, as well as for driving autonomous learning in artificial intelligence<sup>7</sup>. Our results suggest that complex natural behaviours in biological systems can also be acquired through dopamine-mediated reinforcement learning.</p>","PeriodicalId":18787,"journal":{"name":"Nature","volume":"7 1","pages":""},"PeriodicalIF":64.8,"publicationDate":"2025-03-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143608119","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}
引用次数: 0
Liver cancer recurrence predicted by immune-cell location and gene expression
IF 64.8 1区 综合性期刊 Q1 MULTIDISCIPLINARY SCIENCES Pub Date : 2025-03-12 DOI: 10.1038/d41586-025-00734-8
Christian M. Schürch
Immune cells called natural killer cells can target and eliminate tumours. The gene expression and spatial distribution of the immune cells in the tumour microenvironment indicates whether liver cancer will recur after surgery.
{"title":"Liver cancer recurrence predicted by immune-cell location and gene expression","authors":"Christian M. Schürch","doi":"10.1038/d41586-025-00734-8","DOIUrl":"https://doi.org/10.1038/d41586-025-00734-8","url":null,"abstract":"Immune cells called natural killer cells can target and eliminate tumours. The gene expression and spatial distribution of the immune cells in the tumour microenvironment indicates whether liver cancer will recur after surgery.","PeriodicalId":18787,"journal":{"name":"Nature","volume":"24 1","pages":""},"PeriodicalIF":64.8,"publicationDate":"2025-03-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143608159","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}
引用次数: 0
Sapphire anvils squeeze metals atomically-thin
IF 64.8 1区 综合性期刊 Q1 MULTIDISCIPLINARY SCIENCES Pub Date : 2025-03-12 DOI: 10.1038/d41586-025-00776-y
Hear the biggest stories from the world of science | 12 March 2025
{"title":"Sapphire anvils squeeze metals atomically-thin","authors":"","doi":"10.1038/d41586-025-00776-y","DOIUrl":"https://doi.org/10.1038/d41586-025-00776-y","url":null,"abstract":"Hear the biggest stories from the world of science | 12 March 2025","PeriodicalId":18787,"journal":{"name":"Nature","volume":"183 1","pages":""},"PeriodicalIF":64.8,"publicationDate":"2025-03-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143608427","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}
引用次数: 0
Record sea surface temperature jump in 2023–2024 unlikely but not unexpected
IF 64.8 1区 综合性期刊 Q1 MULTIDISCIPLINARY SCIENCES Pub Date : 2025-03-12 DOI: 10.1038/s41586-025-08674-z
Jens Terhaar, Friedrich A. Burger, Linus Vogt, Thomas L. Frölicher, Thomas F. Stocker

Global ocean surface temperatures were at record levels for more than a year from April 2023 onwards, exceeding the previous record in 2015–2016 by 0.25 °C on average between April 2023 and March 20241. The nearly global extent and unprecedented intensity of this event prompted questions about how exceptional it was and whether climate models can represent such record-shattering jumps in surface ocean temperatures2. Here we construct observation-based synthetic time series to show that a jump in global sea surface temperatures that breaks the previous record by at least 0.25 °C is a 1-in-512-year event under the current long-term warming trend (1-in-205-year to 1-in-1,185-year event; 95% confidence interval). Without a global warming trend, such an event would have been practically impossible. Using 270 simulations from a wide range of fully coupled climate models, we show that these models successfully simulate such record-shattering jumps in global ocean surface temperatures, underpinning the models’ usefulness in understanding the characteristics, drivers and consequences of such events. These model simulations suggest that the record-shattering jump in surface ocean temperatures in 2023–2024 was an extreme event after which surface ocean temperatures are expected to revert to the expected long-term warming trend.

{"title":"Record sea surface temperature jump in 2023–2024 unlikely but not unexpected","authors":"Jens Terhaar, Friedrich A. Burger, Linus Vogt, Thomas L. Frölicher, Thomas F. Stocker","doi":"10.1038/s41586-025-08674-z","DOIUrl":"https://doi.org/10.1038/s41586-025-08674-z","url":null,"abstract":"<p>Global ocean surface temperatures were at record levels for more than a year from April 2023 onwards, exceeding the previous record in 2015–2016 by 0.25 °C on average between April 2023 and March 2024<sup>1</sup>. The nearly global extent and unprecedented intensity of this event prompted questions about how exceptional it was and whether climate models can represent such record-shattering jumps in surface ocean temperatures<sup>2</sup>. Here we construct observation-based synthetic time series to show that a jump in global sea surface temperatures that breaks the previous record by at least 0.25 °C is a 1-in-512-year event under the current long-term warming trend (1-in-205-year to 1-in-1,185-year event; 95% confidence interval). Without a global warming trend, such an event would have been practically impossible. Using 270 simulations from a wide range of fully coupled climate models, we show that these models successfully simulate such record-shattering jumps in global ocean surface temperatures, underpinning the models’ usefulness in understanding the characteristics, drivers and consequences of such events. These model simulations suggest that the record-shattering jump in surface ocean temperatures in 2023–2024 was an extreme event after which surface ocean temperatures are expected to revert to the expected long-term warming trend.</p>","PeriodicalId":18787,"journal":{"name":"Nature","volume":"22 1","pages":""},"PeriodicalIF":64.8,"publicationDate":"2025-03-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143608112","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}
引用次数: 0
Species turnover does not rescue biodiversity in fragmented landscapes
IF 64.8 1区 综合性期刊 Q1 MULTIDISCIPLINARY SCIENCES Pub Date : 2025-03-12 DOI: 10.1038/s41586-025-08688-7
Thiago Gonçalves-Souza, Jonathan M. Chase, Nick M. Haddad, Maurício H. Vancine, Raphael K. Didham, Felipe L. P. Melo, Marcelo A. Aizen, Enrico Bernard, Adriano G. Chiarello, Deborah Faria, Heloise Gibb, Marcelo G. de Lima, Luiz F. S. Magnago, Eduardo Mariano-Neto, André A. Nogueira, André Nemésio, Marcelo Passamani, Bruno X. Pinho, Larissa Rocha-Santos, Rodolpho C. Rodrigues, Nathalia Vieira Hissa Safar, Bráulio A. Santos, Alejandra Soto-Werschitz, Marcelo Tabarelli, Marcio Uehara-Prado, Heraldo L. Vasconcelos, Simone Vieira, Nathan J. Sanders

Habitat fragmentation generally reduces biodiversity at the patch scale (α diversity)1. However, there is ongoing debate about whether such negative effects can be alleviated at the landscape scale (γ diversity) if among-patch diversity (β diversity) increases as a result of fragmentation2,3,4,5,6. This controversial view has not been rigorously tested. Here we use a dataset of 4,006 taxa across 37 studies from 6 continents to test the effects of fragmentation on biodiversity across scales by explicitly comparing continuous and fragmented landscapes. We find that fragmented landscapes consistently have both lower α diversity and lower γ diversity. Although fragmented landscapes did tend to have higher β diversity, this did not translate into higher γ diversity. Our findings refute claims that habitat fragmentation can increase biodiversity at landscape scales, and emphasize the need to restore habitat and increase connectivity to minimize biodiversity loss at ever-increasing scales.

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引用次数: 0
Sliding and healing of frictional interfaces that appear stationary
IF 64.8 1区 综合性期刊 Q1 MULTIDISCIPLINARY SCIENCES Pub Date : 2025-03-12 DOI: 10.1038/s41586-025-08673-0
Krittanon Sirorattanakul, Stacy Larochelle, Vito Rubino, Nadia Lapusta, Ares J. Rosakis

Frictional interfaces are found in systems ranging from biological joints to earthquake faults. When and how these interfaces slide is a fundamental problem in geosciences and engineering1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20. It is believed that there exists a threshold shear force, called static friction, below which the interface is stationary4,10, despite many studies suggesting that this concept is outdated1,21,22,23,24,25,26,27,28. By contrast, rate-and-state friction formulations1,26,27 predict that interfaces are always sliding29, but this feature is often considered an artefact that calls for modifications30. Here we show that nominally stationary interfaces subjected to constant shear and normal loads, with a driving force that is notably below the classically defined static friction for which creep is known to occur9,27,28,29, are sliding, but with diminishingly small rates down to 10−12 m s−1. Our precise measurements directly at the interface are enabled by digital image correlation18,31,32. This behaviour contradicts classical models of friction but confirms the prediction of rate-and-state friction1,26,27. The diminishing slip rates of nominally stationary interfaces reflect interface healing, which would manifest itself in higher peak friction in subsequent slip events15,27,33, such as earthquakes and landslides, substantially modifying their nucleation and propagation and hence their hazard3,12,13,34.

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引用次数: 0
An archaic European face more than one million years old
IF 64.8 1区 综合性期刊 Q1 MULTIDISCIPLINARY SCIENCES Pub Date : 2025-03-12 DOI: 10.1038/d41586-025-00678-z
Fossilized midface is thought to be from a hominin species not previously found in Europe.
{"title":"An archaic European face more than one million years old","authors":"","doi":"10.1038/d41586-025-00678-z","DOIUrl":"https://doi.org/10.1038/d41586-025-00678-z","url":null,"abstract":"Fossilized midface is thought to be from a hominin species not previously found in Europe.","PeriodicalId":18787,"journal":{"name":"Nature","volume":"34 1","pages":""},"PeriodicalIF":64.8,"publicationDate":"2025-03-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143608489","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}
引用次数: 0
Robotic fingers can tell objects apart by touch
IF 50.5 1区 综合性期刊 Q1 MULTIDISCIPLINARY SCIENCES Pub Date : 2025-03-12 DOI: 10.1038/d41586-025-00706-y
Prosthetic appendage uses three layers of touch sensors to accurately differentiate between textures. Prosthetic appendage uses three layers of touch sensors to accurately differentiate between textures.
{"title":"Robotic fingers can tell objects apart by touch","authors":"","doi":"10.1038/d41586-025-00706-y","DOIUrl":"10.1038/d41586-025-00706-y","url":null,"abstract":"Prosthetic appendage uses three layers of touch sensors to accurately differentiate between textures. Prosthetic appendage uses three layers of touch sensors to accurately differentiate between textures.","PeriodicalId":18787,"journal":{"name":"Nature","volume":"639 8055","pages":"549-549"},"PeriodicalIF":50.5,"publicationDate":"2025-03-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143599067","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}
引用次数: 0
Reply to: Weather anomalies cannot explain insect decline
IF 50.5 1区 综合性期刊 Q1 MULTIDISCIPLINARY SCIENCES Pub Date : 2025-03-12 DOI: 10.1038/s41586-024-08529-z
Jörg Müller, Torsten Hothorn, Ye Yuan, Sebastian Seibold, Oliver Mitesser, Julia Rothacher, Julia Freund, Clara Wild, Marina Wolz, Annette Menzel
{"title":"Reply to: Weather anomalies cannot explain insect decline","authors":"Jörg Müller,&nbsp;Torsten Hothorn,&nbsp;Ye Yuan,&nbsp;Sebastian Seibold,&nbsp;Oliver Mitesser,&nbsp;Julia Rothacher,&nbsp;Julia Freund,&nbsp;Clara Wild,&nbsp;Marina Wolz,&nbsp;Annette Menzel","doi":"10.1038/s41586-024-08529-z","DOIUrl":"10.1038/s41586-024-08529-z","url":null,"abstract":"","PeriodicalId":18787,"journal":{"name":"Nature","volume":"639 8054","pages":"E12-E13"},"PeriodicalIF":50.5,"publicationDate":"2025-03-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143602863","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}
引用次数: 0
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