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A dual absorption pathway of novel oyster-derived peptide-zinc complex enhances zinc bioavailability and restores mitochondrial function J. Adv. Res. (IF 11.4) Pub Date : 2025-02-13 Ximing Yang, Siyi Wang, Hanxiong Liu, Tuo Zhang, Shuzhen Cheng, Ming Du
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Mebendazole induces ZBP-1 mediated PANoptosis of acute myeloid leukemia cells by targeting TUBA1A and exerts antileukemia effect J. Adv. Res. (IF 11.4) Pub Date : 2025-02-12 Wei Yang, Ying Xu, Shuai Liu, Lin Gao, Shi Li, Xina Xie, Qiaoxia Zhang, Obaid Habib, Ronglin Chen, Xiongfei Sun, Zesong Li
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Blocking S1P4 signaling attenuates brain injury in mice with ischemic stroke J. Adv. Res. (IF 11.4) Pub Date : 2025-02-12 Nikita Basnet, Hyunkyung Cho, Arjun Sapkota, Seungbae Park, Chaemin Lim, Bhakta Prasad Gaire, Donghee Kim, Joo-Youn Lee, Jae Hui Been, Seunghee Lee, Bong Yong Lee, Ji Woong Choi, Sanghee Kim
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Ai-enabled language models (LMs) to large language models (LLMs) and multimodal large language models (MLLMs) in drug discovery and development J. Adv. Res. (IF 11.4) Pub Date : 2025-02-12 Chiranjib Chakraborty, Manojit Bhattacharya, Soumen Pal, Srijan Chatterjee, Arpita Das, Sang-Soo Lee
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Association between caffeine and decreased liver fibrosis risk in patients with different glucose metabolism status J. Adv. Res. (IF 11.4) Pub Date : 2025-02-11 Jiahao Han, Chuan Liu, Huanhuan Yang, Zihe Dong, Xiaoguo Li, Ruixia Gao, Jie Li, Qun Zhang, Wai-kit Ming, Zhihui Li, Jia Li, Xiaolong Qi
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Sequential allogeneic HSCT after CAR-T therapy for relapsed/refractory acute lymphoblastic leukemia patients: A long-term follow-up result J. Adv. Res. (IF 11.4) Pub Date : 2025-02-11 Tingting Yang, Yetian Dong, Jimin Shi, Mingming Zhang, Delin Kong, Jingjing Feng, Shan Fu, Pingnan Xiao, Ruimin Hong, Huijun Xu, Yi Luo, Yanmin Zhao, Jian Yu, Xiaoyu Lai, Lizhen Liu, Huarui Fu, Yishan Ye, Dawei Cui, Jiazhen Cui, Simao Huang, Yongxian Hu
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Acetate prevents pistil dysfunction in rice under heat stress by inducing methyl jasmonate and quercetin synthesis J. Adv. Res. (IF 11.4) Pub Date : 2025-02-11 Hubo Li, Yongqiang Xu, Jie Lin, Baohua Feng, Aike Zhu, Xia Zhao, Danying Wang, Yuxiang Zeng, Haining Yang, Shimei Wang, Guanfu Fu
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Development of dual disease resistant Basmati rice varieties offer significant economic advantage and impetus to sustainable crop production J. Adv. Res. (IF 11.4) Pub Date : 2025-02-11 Ranjith Kumar Ellur, Apurva Khanna, Ashutosh Kumar Yadav, Santoshkumar Magdum, Sarvesh Kumar Maurya, K.K. Vinod, Alexander Balamurugan, G. Prakash, K.K. Mondal, S. Gopala Krishnan, M. Nagarajan, Praveen Koovalamkadu Velayudhan, Prolay Kumar Bhowmick, B. Haritha, A.K. Singh
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Compact Data Structures for Network Telemetry ACM Comput. Surv. (IF 23.8) Pub Date : 2025-02-12 Shir Landau-Feibish, Zaoxing Liu, Jennifer Rexford
Collecting and analyzing of network traffic data ( network telemetry ) plays a critical role in managing modern networks. Network administrators analyze their traffic to troubleshoot performance and reliability problems, and to detect and block cyberattacks. However, conventional traffic-measurement techniques offer limited visibility into network conditions and rely on offline analysis. Fortunately
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Approximate Computing Survey, Part I: Terminology and Software & Hardware Approximation Techniques ACM Comput. Surv. (IF 23.8) Pub Date : 2025-02-12 Vasileios Leon, Muhammad Abdullah Hanif, Giorgos Armeniakos, Xun Jiao, Muhammad Shafique, Kiamal Pekmestzi, Dimitrios Soudris
The rapid growth of demanding applications in domains applying multimedia processing and machine learning has marked a new era for edge and cloud computing. These applications involve massive data and compute-intensive tasks, and thus, typical computing paradigms in embedded systems and data centers are stressed to meet the worldwide demand for high performance. Concurrently, over the last 15 years
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Embodied Intelligence: A Synergy of Morphology, Action, Perception and Learning ACM Comput. Surv. (IF 23.8) Pub Date : 2025-02-12 Huaping Liu, Di Guo, Angelo Cangelosi
Embodied intelligence emphasizes that the intelligence is affected by the tight coupling of brain, body and environment. It is continuously and dynamically generated through the process of information perception and physical interaction with the environment. During the past years, the research scope of embodied intelligence has also been expanding and it has attracted great attentions from various
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Structural basis of disease mutation and substrate recognition by the human SLC2A9 transporter Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-12 Nitesh Kumar Khandelwal, Meghna Gupta, Paras Kumar, Sree Ganesh Balasubramani, Ignacia Echeverria, Robert M. Stroud
Urate provides ~50% of the reducing potential in human and primate plasma which is key to detoxifying reactive oxygen by-products of cellular metabolism. Urate is the endpoint of purine metabolism in primates, and its concentration in plasma is a balance between excretion from kidney and intestine, and subsequent reabsorption in and through cells of kidney proximal tubules to maintain a regulated concentration
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Osteocyte connexin hemichannels and prostaglandin E 2 release dictate bone marrow mesenchymal stromal cell commitment Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-12 Jingruo Zhang, Francisca M. Acosta, Xuewei Wang, Dezhi Zhao, Lidan Zhang, Rui Hua, Qianjin Guo, Leilei Zhong, Ling Qin, Manuel A. Riquelme, Jean X. Jiang
Bone is a dynamic organ constantly undergoing remodeling with both bone formation and resorption. Bone formation is mediated by osteoblasts originating from the differentiation of bone marrow (BM) mesenchymal stem and progenitor cells (BM-MSPCs). However, how bone cells communicate with BM-MSPCs to coordinate bone formation remains largely elusive. Here, we unveil a key role of osteocyte connexin 43
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Unequal resource division occurs in the absence of group division and identity Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-12 Eliane Deschrijver, Richard Ramsey
Based on the seminal minimal group experiment, the widely influential social identity theory has, in the last 45 y, led to the belief that discrimination follows from intergroup relations and social identity. A large body of research evidenced that people discriminate against members of their out versus ingroup, even if groups and identities were assigned on the basis of a quantity estimate, aesthetic
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Persistence selection between simulated biogeochemical cycle variants for their distinct effects on the Earth system Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-12 Richard A. Boyle, Edmund R. R. Moody, Gunnar Babcock, Daniel W. McShea, Sandra Álvarez-Carretero, Timothy M. Lenton, Philip C. J. Donoghue
The average long-term impact of Darwinian evolution on Earth’s habitability remains extremely uncertain. Recent attempts to reconcile this uncertainty by “Darwinizing” nonreplicating biogeochemical processes subject to persistence-based selection conform with the historicity of the geochemical record but lack mechanistic clarity. Here, we present a theoretical framework showing how: 1) A biogeochemical
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Deliberation during online bargaining reveals strategic information Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-12 Miruna Cotet, Wenjia Joyce Zhao, Ian Krajbich
A standard assumption in game theory is that decision-makers have preplanned strategies telling them what actions to take for every contingency. In contrast, nonstrategic decisions often involve an on-the-spot comparison process, with longer response times (RT) for choices between more similarly appealing options. If strategic decisions also exhibit these patterns, then RT might betray private information
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Structural characterization of influenza group 1 chimeric hemagglutinins as broad vaccine immunogens Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-12 Yen Thi Kim Nguyen, Xueyong Zhu, Julianna Han, Alesandra J. Rodriguez, Weina Sun, Wenli Yu, Peter Palese, Florian Krammer, Andrew B. Ward, Ian A. Wilson
Chimeric hemagglutinins (cHA) appear to be promising for the design and development of universal influenza vaccines. Influenza A group 1 cHAs, cH5/1, cH8/1, and cH11/1, comprising an H1 stem attached to either an H5, H8, or H11 globular head, have been used sequentially as vaccine immunogens in human clinical trials and induced high levels of broadly protective antibodies. Using X-ray crystallography
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Liver-specific transgenic expression of human NTCP in rhesus macaques confers HBV susceptibility on primary hepatocytes Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-12 Lauren N. Rust, Jochen M. Wettengel, Sreya Biswas, Junghyun Ryu, Nadine Piekarski, Sofiya Yusova, Savannah S. Lutz, Spandana Naldiga, Brayden J. Hinrichs, Michelle N. Sullivan, Jamie O. Lo, Ulrike Protzer, Jeremy V. Smedley, Jonah B. Sacha, Carol B. Hanna, Benjamin N. Bimber, Jon D. Hennebold, Benjamin J. Burwitz
Hepatitis B virus (HBV) poses a significant global health challenge, necessitating the urgent development of curative therapeutics. However, this progress is impeded by the lack of robust, immunocompetent preclinical animal models due to HBV’s strict species specificity. We previously showed that vector-mediated expression of the HBV entry receptor, human sodium-taurocholate cotransporting polypeptide
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The antimicrobial activity of ETD151 defensin is dictated by the presence of glycosphingolipids in the targeted organisms Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-12 Ons Kharrat, Yoshiki Yamaryo-Botté, Rouba Nasreddine, Sébastien Voisin, Thomas Aumer, Bruno P. A. Cammue, Jean-Baptiste Madinier, Thomas Knobloch, Karin Thevissen, Reine Nehmé, Vincent Aucagne, Cyrille Botté, Philippe Bulet, Céline Landon
Fungal infections represent a significant global health concern, with a growing prevalence of antifungal drug resistance. Targeting glucosylceramides (GlcCer), which are functionally important glycosphingolipids (GSL) present in fungal membranes, represents a promising strategy for the development of antifungal drugs. GlcCer are associated with the antifungal activity of certain plant and insect defensins
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Ratio-based indicators for cytosolic Ca 2+ with visible light excitation Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-12 Xinqi Zhou, Kayla J. Belavek, Marisol X. Navarro, Kayli N. Martinez, Abigail Hinojosa, Evan W. Miller
Calcium ions (Ca 2+ ) play central roles in cellular physiology. Fluorescent indicators for Ca 2+ ions revolutionized our ability to make rapid, accurate, and highly parallel measurement of Ca 2+ concentrations in living cells. The use of ratio-based imaging with one particular indicator, fura-2, allowed practitioners to correct for a number of experimental confounds, including dye bleaching, variations
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Fractional magnetic charges and channeling of Faraday lines by disclinations in artificial spin ice Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-12 Anthony Hurben, Yinchen Hao, Ioan-Augustin Chioar, Liu Yang, Nanny Strandqvist, Michael Saccone, Nicholas S. Bingham, Justin Ramberger, Chris Leighton, Cristiano Nisoli, Peter Schiffer
We have studied the magnetic moments of artificial spin ice arrays of nanomagnets in both undistorted square arrays and in arrays with a topological defect induced by a single disclination. We confirm that the disclination induces global, macroscopic changes in the low-energy collective states of the nanomagnet moment configuration. Specifically, the disclination leads to Faraday lines of effective
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Downscaling mutualistic networks from species to individuals reveals consistent interaction niches and roles within plant populations Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-12 Elena Quintero, Blanca Arroyo-Correa, Jorge Isla, Francisco Rodríguez-Sánchez, Pedro Jordano
Species-level networks emerge as the combination of interactions spanning multiple individuals, and their study has received considerable attention over the past 30 y. However, less is known about the structure of interaction configurations within species, even though individuals are the actual interacting units in nature. We compiled 46 empirical, individual-based, interaction networks on plant-animal
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Mycorrhiza increases plant diversity and soil carbon storage in grasslands Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-12 Entao Zhang, Yang Wang, Thomas W. Crowther, Weicheng Sun, Shiping Chen, Daowei Zhou, Zhouping Shangguan, Jianhui Huang, Jin-Sheng He, Yanfen Wang, Jiandong Sheng, Lisong Tang, Xinrong Li, Ming Dong, Yan Wu, Shuijin Hu, Yongfei Bai, Guirui Yu
Experimental studies have shown that symbiotic relationships between arbuscular mycorrhizal (AM) fungi and host plants can regulate soil organic carbon (SOC) storage. Although the impacts of mycorrhiza are highly context-dependent, it remains unclear how these effects vary across broad spatial scales. Based on data from 2296 field sites across grassland ecosystems of China, here we show that mycorrhizal
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Spatial population dynamics of bacterial colonies with social antibiotic resistance Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-12 Marlis K. Denk-Lobnig, Kevin B. Wood
Bacteria frequently inhabit surface-attached communities where rich “social” interactions can significantly alter their population-level behavior, including their response to antibiotics. Understanding these collective effects in spatially heterogeneous communities is an ongoing challenge. Here, we investigated the spatial organization that emerges from antibiotic exposure in initially randomly distributed
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CASP8 intronic expansion identified by poly-glycine-arginine pathology increases Alzheimer’s disease risk Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-12 Lien Nguyen, Ramadan Ajredini, Shu Guo, Lisa E. L. Romano, Rodrigo F. Tomas, Logan R. Bell, Paul T. Ranum, Tao Zu, Monica Bañez Coronel, Chase P. Kelley, Javier Redding-Ochoa, Evangelos Nizamis, Alexandra Melloni, Theresa R. Connors, Angelica Gaona, Kiruphagaran Thangaraju, Olga Pletnikova, H. Brent Clark, Beverly L. Davidson, Anthony T. Yachnis, Todd E. Golde, XiangYang Lou, Eric T. Wang, Alan E.
Alzheimer’s disease (AD) affects more than 10% of the population ≥65 y of age, but the underlying biological risks of most AD cases are unclear. We show anti-poly-glycine-arginine (a-polyGR) positive aggregates frequently accumulate in sporadic AD autopsy brains (45/80 cases). We hypothesize that these aggregates are caused by one or more polyGR-encoding repeat expansion mutations. We developed a
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Clear cell renal carcinoma essentially requires CDKL3 for oncogenesis Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-12 Lanjing Ma, Zhongqiu Pang, Haijiao Zhang, Xueling Yang, Shaoqin Zheng, Yi Chen, Weijie Ding, Qing Han, Xi Zhang, Liu Cao, Teng Fei, Qiang Wang, Daming Gao, Aina He, Ke-Bang Hu, Xuexin Li, Ren Sheng
Clear cell renal cell carcinoma (ccRCC) is the predominant human renal cancer with surging incidence and fatality lately. Hyperactivation of hypoxia-inducible factor (HIF) and mammalian target of rapamycin (mTOR) signaling are the common signatures in ccRCC. Herein, we employed spontaneous ccRCC model to demonstrate the indispensability of an underappreciated Ser/Thr kinase, CDKL3, in the initiation
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Engineered immunological niche directs therapeutic development in models of progressive multiple sclerosis Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-12 Laila M. Rad, Kevin R. Hughes, Sydney N. Wheeler, Joseph T. Decker, Sophia M. Orbach, Angelica Galvan, Jasmine Thornhill, Kate V. Griffin, Hamza Turkistani, Russell R. Urie, David N. Irani, Lonnie D. Shea, Aaron H. Morris
Primary progressive multiple sclerosis (MS) is a demyelinating autoimmune disease with only a single class of FDA-approved treatment, B cell depletion. Novel treatments could emerge from a deeper understanding of the interplay between multiple cell types within diseased tissue throughout progression. We initially describe an engineered biomaterial–based immunological niche (IN) as a surrogate for diseased
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Peer income exposure across the income distribution Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-12 Michelle Spiegel, Leah Clark, Thurston Domina, Emily K. Penner, Paul Hanselman, Paul Y. Yoo, Andrew Penner
Children from families across the income distribution attend public schools, making schools and classrooms potential sites for interaction between more- and less-affluent children. However, limited information exists regarding the extent of economic integration in these contexts. We merge educational administrative data from Oregon with measures of family income derived from IRS records to document
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Substance P receptor signaling contributes to host maladaptive responses during enteric bacterial infection Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-12 Michael Cremin, Valerie T. Ramirez, Kristina Sanchez, Emmy Tay, Kaitlin Murray, Ingrid Brust-Mascher, Colin Reardon
Immune responses in the intestine are intricately balanced to prevent pathogen entry without inducing immunopathology. The nervous system is well established to interface with the immune system to fine-tune immunity in various organ systems including the gastrointestinal tract. Specialized sensory neurons can detect bacteria, bacterial products, and the resulting inflammation, to coordinate the immune
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Mapping of the full polarization switching pathways for HfO 2 and its implications Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-12 Qi Hu, Shuning Lv, Hsiaoyi Tsai, Yufeng Xue, Xixiang Jing, Fanrong Lin, Chuanjia Tong, Tengfei Cao, Gilberto Teobaldi, Li-Min Liu
The discovery of ferroelectric phases in HfO 2 offers insights into ferroelectricity. Its unique fluorite structure and complex polarization switching pathways exhibit distinct characteristics, challenging conventional analysis methods. Combining group theory and first-principles calculations, we identify numerous unconventional electric polarization switching pathways in HfO 2 with energy barriers
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Impairment of DET1 causes neurological defects and lethality in mice and humans Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-12 Ozge Karayel, Allison Soung, Hem Gurung, Alexander F. Schubert, Susan Klaeger, Marc Kschonsak, Aljazi Al-Maraghi, Ajaz A. Bhat, Ammira S. Alshabeeb Akil, Debra L. Dugger, Joshua D. Webster, Dorothy M. French, Dhullipala Anand, Naharmal Soni, Khalid A. Fakhro, Christopher M. Rose, Seth F. Harris, Ada Ndoja, Kim Newton, Vishva M. Dixit
COP1 and DET1 are components of an E3 ubiquitin ligase that is conserved from plants to humans. Mammalian COP1 binds to DET1 and is a substrate adaptor for the CUL4A-DDB1-RBX1 RING E3 ligase. Transcription factor substrates, including c-Jun, ETV4, and ETV5, are targeted for proteasomal degradation to effect rapid transcriptional changes in response to cues such as growth factor deprivation. Here, we
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Regulatory roles of extracellular vesicles in pregnancy complications J. Adv. Res. (IF 11.4) Pub Date : 2025-02-10 Qian Sun, Hua Chang, Huan Wang, Lufeng Zheng, Yang Weng, Donghan Zheng, Dongming Zheng
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Hallucination Detection in Foundation Models for Decision-Making: A Flexible Definition and Review of the State of the Art ACM Comput. Surv. (IF 23.8) Pub Date : 2025-02-11 Neeloy Chakraborty, Melkior Ornik, Katherine Driggs-Campbell
Autonomous systems are soon to be ubiquitous, spanning manufacturing, agriculture, healthcare, entertainment, and other industries. Most of these systems are developed with modular sub-components for decision-making, planning, and control that may be hand-engineered or learning-based. While these approaches perform well under the situations they were specifically designed for, they can perform especially
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Data-Driven Evolutionary Algorithm Based on Inductive Graph Neural Networks for Multimodal Multi-Objective Optimization IEEE T. Evolut. Comput. (IF 11.7) Pub Date : 2025-02-11 Qianlong Dang, Qiqi Liu, Shuai Yang, Xiaoyu He
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Substrate and climate determine terrestrial litter decomposition Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-11 Qiuxia Wu, Xiangyin Ni, Xinyao Sun, Zihao Chen, Songbai Hong, Björn Berg, Mianhai Zheng, Ji Chen, Jingjing Zhu, Ling Ai, Yichen Zhang, Fuzhong Wu
Litter decomposition is a fundamental biogeochemical process for carbon flux and nutrient cycling in terrestrial ecosystems, yet the global variation in decomposition rates and their covariations with climate and substrate are not fully understood. Here, we synthesized a global dataset of 6,733 independent observations across six continents to illustrate the climatic and substrate controls over litter
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Adapting C 4 photosynthesis to atmospheric change and increasing productivity by elevating Rubisco content in sorghum and sugarcane Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-11 Coralie E. Salesse-Smith, Noga Adar, Baskaran Kannan, Thaibinhduong Nguyen, Wei Wei, Ming Guo, Zhengxiang Ge, Fredy Altpeter, Tom E. Clemente, Stephen P. Long
Meta-analyses and theory show that with rising atmospheric [CO 2 ], Rubisco has become the greatest limitation to light-saturated leaf CO 2 assimilation rates ( A sat ) in C 4 crops. So would transgenically increasing Rubisco increase A sat and result in increased productivity in the field? Here, we successfully overexpressed the Rubisco small subunit ( RbcS ) with Rubisco accumulation factor 1 ( Raf1
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Computational and in vitro evaluation of probiotic treatments for nasal Staphylococcus aureus decolonization Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-11 Burcu Tepekule, Weronika Barcik, Willy I. Staiger, Judith Bergadà-Pijuan, Thomas Scheier, Laura Brülisauer, Alex R. Hall, Huldrych F. Günthard, Markus Hilty, Roger D. Kouyos, Silvio D. Brugger
Despite the rising challenge of antibiotic resistance, current approaches to eradicate nasal pathobionts Staphylococcus aureus and Streptococcus pneumoniae rely on antibacterials. An alternative is the artificial inoculation of commensal bacteria, i.e., probiotic treatment, supported by the increasing evidence for commensal-mediated inhibition of pathogens. To systematically investigate the potential
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A deep learning–enabled smart garment for accurate and versatile monitoring of sleep conditions in daily life Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-11 Chenyu Tang, Wentian Yi, Muzi Xu, Yuxuan Jin, Zibo Zhang, Xuhang Chen, Caizhi Liao, Mengtian Kang, Shuo Gao, Peter Smielewski, Luigi G. Occhipinti
In wearable smart systems, continuous monitoring and accurate classification of different sleep-related conditions are critical for enhancing sleep quality and preventing sleep-related chronic conditions. However, the requirements for device–skin coupling quality in electrophysiological sleep monitoring systems hinder the comfort and reliability of night wearing. Here, we report a washable, skin-compatible
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Allosteric genetically encoded biosensor for spatiotemporal monitoring of endogenous RNA dynamics in living cells Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-11 Deyu Yuan, Huan He, William Song, Duhan Ma, Mingfeng Xie, Yuchun Wang, Jinliang Wei, Qianyu He, Yongli Bao, Yongyun Zhao
Functions of RNAs are associated with their abundance and unique subcellular localizations. RNA imaging methods for spatiotemporal monitoring of RNA dynamics would facilitate the discovery of unknown functions of RNA, yet improving RNA imaging is challenging because of limitations in methods for directly monitoring native RNA, especially the dynamics of RNA transport and concentration fluctuation.
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Bacterial polysaccharide lyase family 33: Specificity from an evolutionarily conserved binding tunnel Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-11 Mélanie Loiodice, Elodie Drula, Zak McIver, Svetlana Antonyuk, Arnaud Baslé, Marcelo Lima, Edwin A. Yates, Dominic P. Byrne, Jamie Coughlan, Andrew Leech, Shahram Mesdaghi, Daniel J. Rigden, Sophie Drouillard, William Helbert, Bernard Henrissat, Nicolas Terrapon, Gareth S. A. Wright, Marie Couturier, Alan Cartmell
Acidic glycans are essential for the biology of multicellular eukaryotes. To utilize them, microbial life including symbionts and pathogens has evolved polysaccharide lyases (PL) that cleave their 1,4 glycosidic linkages via a β-elimination mechanism. PL family 33 (PL33) enzymes have the unusual ability to target a diverse range of glycosaminoglycans (GAGs), as well as the bacterial polymer, gellan
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Geometric modeling of knitted fabrics Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-11 Lauren Niu, Geneviève Dion, Randall D. Kamien
Knitting can turn a one-dimensional yarn into a highly ramified three-dimensional structure. As a method of additive manufacturing, it holds promise for a class of lightweight, ultrastrong materials. Here, we present a purely geometric model to predict the three-dimensional self-folding of knitted fabrics made only of the two traditional stitches, knit and purl.
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Flake production: A universal by-product of primate stone percussion Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-11 Tomos Proffitt, Paula de Sousa Medeiros, Waldney Pereira Martins, Lydia. V. Luncz
The evolution of stone tool technology marks a significant milestone in hominin development, enabling early humans to manipulate their environments. The oldest known evidence, dating to 3.3 Ma, indicates a combination of percussive and flake production activities. Studying the archaeological signature of percussive stone tool use in living primate provides a potential analog to the origin of stone
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Scavenger endothelial cells alleviate tissue damage by engulfing toxic molecules derived from hemolysis Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-11 Yimei Dai, Yunyun Jiang, Canran Cao, Yongtai Xu, Siting Lai, Wenchao Zhu, Meng Gao, Feifei Li, Sicong He, Jin Xu
Hemolysis induces tissue damage by releasing cellular contents into the plasma. It is widely accepted that hemolysis-derived toxic molecules are cleared by macrophages or metabolized in hepatocytes. In zebrafish, we found that scavenger endothelial cells (SECs), a specialized endothelium with remarkable endocytosis capability, engulf both macromolecular hemoglobin (Hb) and small molecular unconjugated
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Synthetic tunable promoters for flexible control of multi-gene expression in mammalian cells J. Adv. Res. (IF 11.4) Pub Date : 2025-02-10 Zong-Heng Fu, Si Cheng, Jia-Wei Li, Nan Zhang, Yi Wu, Guang-Rong Zhao
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Long non-coding RNAs: Emerging regulators of invasion and metastasis in pancreatic cancer J. Adv. Res. (IF 11.4) Pub Date : 2025-02-09 Mengmeng Shi, Rui Zhang, Hao Lyu, Shuai Xiao, Dong Guo, Qi Zhang, Xing-Zhen Chen, Jingfeng Tang, Cefan Zhou
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Imitation Learning-Assisted Evolutionary Algorithm for Energy-Efficient Flexible Job Shop Scheduling Problem With Automated Guided Vehicles IEEE T. Evolut. Comput. (IF 11.7) Pub Date : 2025-02-10 Weiyao Cheng, Leilei Meng, Biao Zhang, Kaizhou Gao, Hongyan Sang
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Decoding resistance in the age of T6SS warfare. Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-10 Nicholas J Shikuma
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Photostationary state assumption seriously underestimates NOx emissions near large point sources at 10 to 60 m pixel resolution. Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-10 Lang Chen,Zhe Song,Ningning Yao,Huan Xi,Jian Li,Peng Gao,Yulei Chen,Haoyuan Su,Yuhai Sun,Boqiong Jiang,Jianmin Chen,Yuanhang Zhang,Tong Zhu,Pengfei Li,Xiaobing Pang,Shaocai Yu
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Interrogating nucleotide sequences with AI to understand codon usage patterns. Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-10 Assaf Elazar,Steve Mathew D A,M Madan Babu
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Reply to Chen et al.: Coarse simulations overestimate the distance to recover NO-NO2-O3 photochemical steady state in fresh NOx plumes. Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-10 Daniel J Varon,Dylan Jervis,Sudhanshu Pandey,Sebastian L Gallardo,Nicholas Balasus,Laura Hyesung Yang,Daniel J Jacob
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Giant RNA genomes: Roles of host, translation elongation, genome architecture, and proteome in nidoviruses Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-10 Benjamin W. Neuman, Alexandria Smart, Orian Gilmer, Redmond P. Smyth, Josef Vaas, Nicolai Böker, Dmitry V. Samborskiy, Ralf Bartenschlager, Stefan Seitz, Alexander E. Gorbalenya, Neva Caliskan, Chris Lauber
Positive-strand RNA viruses of the order Nidovirales have the largest known RNA genomes of vertebrate and invertebrate viruses with 36.7 and 41.1 kb, respectively. The acquisition of a proofreading exoribonuclease (ExoN) by an ancestral nidovirus enabled crossing of the 20 kb barrier. Other factors constraining genome size variations in nidoviruses remain poorly defined. We assemble 76 genome sequences
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Ancient origin and high diversity of zymocin-like killer toxins in the budding yeast subphylum Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-10 Padraic G. Heneghan, Letal I. Salzberg, Eoin Ó Cinnéide, Jan A. Dewald, Christina E. Weinberg, Kenneth H. Wolfe
Zymocin is a well-characterized killer toxin secreted by some strains of the yeast Kluyveromyces lactis . It acts by cleaving a specific tRNA in sensitive recipient cells. Zymocin is encoded by a killer plasmid or virus-like element (VLE), which is a linear DNA molecule located in the cytosol. We hypothesized that a tRNA-cleaving toxin similar to zymocin may have caused the three parallel changes to
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Clinical evaluation of patterned dried plasma spot cards to support quantification of HIV viral load and reflexive genotyping Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-10 Giorgio Gianini Morbioli, Keith R. Baillargeon, Monalisa N. Kalimashe, Vibha Kana, Hloniphile Zwane, Cheri van der Walt, Allison J. Tierney, Andrea C. Mora, Mark Goosen, Rivashni Jagaroo, Jessica C. Brooks, Ewaldé Cutler, Gillian Hunt, Michael R. Jordan, Alice Tang, Charles R. Mace
Quantifying viral load, a key indicator required to achieve control and elimination of the HIV epidemic, requires cell-free plasma or serum to ensure measurements are not biased by proviral DNA contained in infected CD4 T lymphocytes. Plasma separation cards (PSC) collect and preserve a dried specimen, which makes them practical solutions for decentralized sample collection and transport in limited-resource
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Reenacting a mouse genetic evolutionary arms race in yeast reveals that SLXL1/SLX compete with SLY1/2 for binding to Spindlins Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-10 Martin F. Arlt, Alyssa N. Kruger, Callie M. Swanepoel, Jacob L. Mueller
The house mouse X and Y chromosomes have recently acquired multicopy, rapidly evolving gene families representing an evolutionary arms race. This arms race between proteins encoded by X-linked Slxl1 / Slx and Y-linked Sly gene families can distort offspring sex ratio, but how these proteins compete remains unknown. Here, we report how Slxl1 / Slx and Sly encoded proteins compete in a protein family–specific
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Debiasing job ads by replacing masculine language increases gender diversity of applicant pools Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-10 Joyce C. He, Sonia K. Kang
Job advertisements for jobs in male-dominated fields tend to contain more masculine language, and a commonly proposed intervention to increase gender diversity in applicant pools is to remove this language. In our research, we offer predictions about the broader impact of such interventions on individuals who may not “fit” with traditional masculine identity. Across four multimethod studies ( N = 37
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Inhibition of GABARAP or GABARAPL1 prevents aminoglycoside- induced hearing loss Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-10 Jinan Li, Seung-Il Oh, Chang Liu, Bo Zhao
Aminoglycosides (AGs) are highly potent, broad-spectrum antibiotics frequently used as first-line treatments for multiple life-threatening infections. Despite their severe ototoxicity, causing irreversible hearing loss in millions of people annually, no preventive therapy has been approved. We previously reported that GABARAP and several other central autophagy proteins are essential for AG-induced
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Dynamic changes in histone lysine lactylation during meiosis prophase I in mouse spermatogenesis Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-10 Xiaoyu Zhang, Yan Liu, Ning Wang
Male germ cells, which are responsible for producing millions of genetically diverse sperm through meiosis in the testis, rely on lactate as their central energy metabolite. Recent study has revealed that lactate induces epigenetic modification in cells through histone lysine lactylation. Here, we report dynamic histone lactylation at histone H4-lysine 5 (K5), -K8, and -K12 during meiosis prophase
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Seesaw protein: Design of a protein that adopts interconvertible alternative functional conformations and its dynamics Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-10 Toma Ikeda, Tatsuya Nojima, Souma Yamamoto, Ryusei Yamada, Tatsuya Niwa, Hiroki Konno, Hideki Taguchi
According to classical Anfinsen’s dogma, a protein folds into a single unique conformation with minimal Gibbs energy under physiological conditions. However, certain proteins may fold into two or more conformations from single amino acid sequences. Here, we designed a protein that adopts interconvertible alternative functional conformations, termed “seesaw” protein (SSP). An SSP was engineered by fusing
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Resolving the dynamic correlated disorder in KTa 1− x Nb x O 3 Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2025-02-10 Xing He, Mayanak K. Gupta, Douglas L. Abernathy, Garrett E. Granroth, Feng Ye, Barry L. Winn, Lynn Boatner, Olivier Delaire
Understanding the complex temporal and spatial correlations of ions in disordered perovskite oxides is critical to rationalize their functional properties. Here, we provide insights into the longstanding controversy regarding the off-centering of transition metal (TM) ions in the archetypal ferroelectric alloy KTa 1 − x Nb x O 3 (KTN). By mapping the full energy ( E ) and wavevector ( Q ) dependence