PLoS Biology最新文献

{"title":"Penguins exploit tidal currents for efficient navigation and opportunistic foraging.","authors":"Richard M Gunner, Flavio Quintana, Mariano H Tonini, Mark D Holton, Ken Yoda, Margaret C Crofoot, Rory P Wilson","doi":"10.1371/journal.pbio.3002981","DOIUrl":"10.1371/journal.pbio.3002981","url":null,"abstract":"<p><p>Animals navigating in fluid environments often face forces from wind or water currents that challenge travel efficiency and route accuracy. We investigated how 27 Magellanic penguins (Spheniscus magellanicus) adapt their navigation strategies to return to their colony amid regional tidal ocean currents. Using GPS-enhanced dead-reckoning loggers and high-resolution ocean current data, we reconstructed penguin travel vectors during foraging trips to assess their responses to variable currents during their colony-bound movements. By integrating estimates of energy costs and prey pursuits, we found that birds balanced direct navigation with current-driven drift: in calm currents, they maintained precise line-of-sight headings to their colony. In stronger currents, they aligned their return with lateral flows, which increased travel distance, but at reduced energy costs, and provided them with increased foraging opportunities. Since the lateral tidal currents always reversed direction over the course of return paths, the penguins' return paths were consistently S-shaped but still resulted in the birds returning efficiently to their colonies. These findings suggest that Magellanic penguins can sense current drift and use it to enhance energy efficiency by maintaining overall directional accuracy while capitalizing on foraging opportunities.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":"23 7","pages":"e3002981"},"PeriodicalIF":7.2,"publicationDate":"2025-07-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12327074/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144660805","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}

{"title":"Influenza A virus induces PI4P production at the endoplasmic reticulum in an ATG16L1-dependent manner to promote the egress of viral ribonucleoproteins.","authors":"Carla Alemany, Juliane Da Graça, Quentin Giai Gianetto, Maud Dupont, Sylvain Paisant, Thibaut Douché, Catherine Isel, Cédric Delevoye, Lydia Danglot, Mariette Matondo, Etienne Morel, Jean-Baptiste Brault, Nadia Naffakh","doi":"10.1371/journal.pbio.3002958","DOIUrl":"10.1371/journal.pbio.3002958","url":null,"abstract":"<p><p>The genomic RNAs of influenza A viruses (IAVs) are replicated in the nucleus of infected cells in the form of viral ribonucleoproteins (vRNPs) before being exported to the cytoplasm. The small GTPase RAB11A is involved in the transport of vRNPs to the sites of viral assembly at the plasma membrane, but the molecular mechanisms involved remain largely unknown. Here we show that IAV infection remodels the architecture of the endoplasmic reticulum (ER) sheets, where vRNPs tend to accumulate in the absence of RAB11A. To decipher the interplay between RAB11A, vRNPs, and the ER, we investigated viral-induced perturbations of RAB11A proximity interactome. To this end, we generated cells stably expressing a TurboID-RAB11A fusion protein and performed biotin-based proximity labeling upon viral infection. We found that cellular regulators of phophatidylinositol-4-phosphate (PI4P) homeostasis, including the autophagic and stress response protein ATG16L1, are significantly enriched at the vicinity of RAB11A in infected cells. Infection induces an increase in cellular PI4P levels in an ATG16L1-dependent manner, while ATG16L1 relocalizes to ER membranes upon infection. Depletion of ATG16L1 decreases the co-distribution of vRNPs with PI4P punctae on ER membranes, and reduces the accumulation of vRNPs at the plasma membrane as well as the production of IAV infectious particles. Our data extend to IAVs the notion that viruses can modulate the metabolism and localization of phosphoinositides to control host membrane dynamics and point to the ER as an essential platform for vRNP transport. They provide evidence for a pivotal role of ATG16L1 in regulating the identity of endomembranes and coordinating RAB11A and PI4P-enriched membranes to ensure delivery of vRNPs to the plasma membrane.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":"23 7","pages":"e3002958"},"PeriodicalIF":9.8,"publicationDate":"2025-07-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12286409/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144651004","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}

{"title":"Long-term musical training can protect against age-related upregulation of neural activity in speech-in-noise perception.","authors":"Lei Zhang, Bernhard Ross, Yi Du, Claude Alain","doi":"10.1371/journal.pbio.3003247","DOIUrl":"10.1371/journal.pbio.3003247","url":null,"abstract":"<p><p>During cognitive tasks, older adults often show increased frontoparietal neural activity and functional connectivity. Cognitive reserve accrued from positive life choices like long-term musical training can provide additional neural resources to help cope with the effect of aging. However, the relationship between cognitive reserve and upregulated neural activity in older adults remains poorly understood. In this study, we measured brain activity using functional magnetic resonance imaging during a speech-in-noise task and assessed whether cognitive reserve accumulated from long-term musical training bolsters or holds back age-related increase in neural activity. Older musicians exhibited less upregulation of task-induced functional connectivity than older non-musicians in auditory dorsal regions, which predicted better behavioral performance in older musicians. Furthermore, older musicians demonstrated more youth-like spatial patterns of functional connectivity, as compared to older non-musicians. Our findings show that cognitive reserve accrued through long-term music training holds back age-related neural recruitment during speech-in-noise perception and enlighten the intricate interplay between cognitive reserve and age-related upregulated activity during cognitive tasks.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":"23 7","pages":"e3003247"},"PeriodicalIF":9.8,"publicationDate":"2025-07-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12262870/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144643944","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}

{"title":"A toolkit for mapping cell identities in relation to neighbors reveals conserved patterning of neuromesodermal progenitor populations.","authors":"Matthew French, Rosa P Migueles, Alexandra Neaverson, Aishani Chakraborty, Tom Pettini, Benjamin Steventon, Erik Clark, J Kim Dale, Guillaume Blin, Valerie Wilson, Sally Lowell","doi":"10.1371/journal.pbio.3003244","DOIUrl":"10.1371/journal.pbio.3003244","url":null,"abstract":"<p><p>Patterning of cell fates is central to embryonic development, tissue homeostasis, and disease. Quantitative analysis of patterning reveals the logic by which cell-cell interactions orchestrate changes in cell fate. However, it is challenging to quantify patterning when graded changes in identity occur over complex 4D trajectories, or where different cell states are intermingled. Furthermore, comparing patterns across multiple individual embryos, tissues, or organoids is difficult because these often vary in shape and size. This problem is further exacerbated when comparing patterning between species. Here we present a toolkit of computational approaches to tackle these problems. These strategies are based on measuring properties of each cell in relation to the properties of its neighbors to quantify patterning, and on using embryonic landmarks in order to compare these patterns between embryos. We perform detailed neighbor-analysis of the caudal lateral epiblast of E8.5 mouse embryos, revealing local patterning in emergence of early mesoderm cells that is sensitive to inhibition of Notch activity. We extend this toolkit to compare mouse and chick embryos, revealing conserved 3D patterning of the caudal-lateral epiblast that scales across an order of magnitude difference in size between these two species. We also examine 3D patterning of gene expression boundaries across the length of Drosophila embryos. We present a flexible approach to examine the reproducibility of patterning between individuals, to measure phenotypic changes in patterning after experimental manipulation, and to compare of patterning across different scales and tissue architectures.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":"23 7","pages":"e3003244"},"PeriodicalIF":7.2,"publicationDate":"2025-07-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12303391/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144643942","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}

{"title":"Masters of adaptation: How cancer and immune cell plasticity mediates tumor progression.","authors":"Sheera R Rosenbaum, Kaiah M Fields, Heide L Ford","doi":"10.1371/journal.pbio.3003301","DOIUrl":"10.1371/journal.pbio.3003301","url":null,"abstract":"<p><p>One of the greatest challenges to cancer therapy is tumor cell plasticity. Cancer cells can rapidly alter their phenotype to promote survival and evade immune cell attack, while the plasticity of other cells in the tumor microenvironment (such as immune cells, which need to be able to respond to a diverse range of bodily threats) can be leveraged to further promote tumor growth and progression. This Essay discusses the mutual plasticity of cancer and immune cells, with a focus on epithelial-mesenchymal plasticity in tumor cells, and explores how this interplay contributes to tumor progression and can be targeted therapeutically.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":"23 7","pages":"e3003301"},"PeriodicalIF":7.2,"publicationDate":"2025-07-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12282909/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144643946","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}

{"title":"A comprehensive atlas of full-length Arabidopsis eccDNA populations identifies their genomic origins and epigenetic regulation.","authors":"Syed Shan-E-Ali Zaidi, Sara Shakir, Hanne De Kort, Devang Mehta, Vu Nguyen, Ruben Gutzat, Hervé Vanderschuren","doi":"10.1371/journal.pbio.3003275","DOIUrl":"10.1371/journal.pbio.3003275","url":null,"abstract":"<p><p>Extrachromosomal circular DNA (eccDNA) has been described in several eukaryotic species and has been shown to impact phenomena as diverse as cancer and herbicide tolerance. EccDNA is thought to arise mainly through transposable element (TE) mobilization. Because studies based on short-read sequencing cannot efficiently identify full-length eccDNA forms generated from TEs, we employed the CIDER-Seq pipeline based on long-read sequencing, to obtain full-length eccDNAs from Arabidopsis. The generated eccDNA datasets identified centromeric/pericentromeric regions as hotspots of eccDNAs with several eccDNA molecules originating from Helitron and LTR TEs. To investigate the role of epigenetic marks on TE-derived eccDNA biogenesis, we studied Arabidopsis methylation mutants dcl3, rdr6, ros1, and ddm1. Contrasting the TE-suppression previously reported in the hypermethylated ros1 mutants, we identified activation of TEs in ros1, specifically of LTR/Gypsy TEs. An enrichment of LTR/Copia elements was identified in actively dividing calli and the shoot apical meristem (SAM). Uncharacterized \"variable TEs\" with high eccDNA and expression were identified in the SAM, including ATCOPIA58. Together, our study reveals the genomic origins of eccDNAs and delineates the link between epigenetic regulation, transposon mobilization, and eccDNA biogenesis.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":"23 7","pages":"e3003275"},"PeriodicalIF":9.8,"publicationDate":"2025-07-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12273906/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144643941","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}

{"title":"Pseudomonas intra-genus competition determines the protective function of synthetic bacterial communities in Arabidopsis thaliana.","authors":"Anton Amrhein, Mingxiao Zhang, Stéphane Hacquard, Anna Heintz-Buschart, Kathrin Wippel","doi":"10.1371/journal.pbio.3002882","DOIUrl":"10.1371/journal.pbio.3002882","url":null,"abstract":"<p><p>The plant root microbiota is crucial for nutrient acquisition, development, and disease suppression. Although commensal bacteria display host preference, their beneficial impact on their cognate host and mechanisms of species selection by the plant are still unclear. We use bacterial culture collections derived from the two model species Arabidopsis thaliana (At) and Lotus japonicus (Lj) to design synthetic communities (SynComs) and test their protective function upon exposure of At Col-0 to the detrimental root-colonizing At-derived Pseudomonas isolate R401. Lj-derived SynComs were fully protective, whereas At-derived SynComs displayed full protective activity only towards a R401 mutant impaired in the production of inhibitory exometabolites. The protective phenotypes were associated with a reduced titer of the R401 opportunistic pathogen. In vitro antagonist assays, in planta and in vitro bacterial community profiling, as well as strain-swapping and strain-dropout experiments revealed that competition among commensal Pseudomonas strains and R401 determines the success of the opportunist, independent of the original host or the phylogeny of the commensals. Furthermore, we determine the carbon utilization potential of these isolates, which may explain the competition with the detrimental strain and the role of host-secreted compounds. Our results provide evidence that intra-genus interactions within SynComs modulate plant health and disease, and that an individual beneficial strain can be sufficient to outcompete an opportunistic relative. This has implications for the successful development of beneficial microbial consortia for agriculture.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":"23 7","pages":"e3002882"},"PeriodicalIF":9.8,"publicationDate":"2025-07-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12262851/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144643947","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}

{"title":"Sensory and motor contents are prioritized dynamically in working memory.","authors":"Irene Echeverria-Altuna, Sage E P Boettcher, Freek van Ede, Anna C Nobre","doi":"10.1371/journal.pbio.3003273","DOIUrl":"10.1371/journal.pbio.3003273","url":null,"abstract":"<p><p>Internal selective attention prioritizes both sensory and motor contents in working memory to guide prospective behavior. Prior research has shown how attention modulation of sensory contents is flexible and temporally tuned depending on access requirements, but whether the prioritization of motor contents follows similar flexible dynamics remains elusive. Also uncharted is the degree of co-dependence of sensory and motor modulation, which gets at the nature of both working-memory representations and internal attention functions. To address these questions, we independently tracked the prioritization of sensory and motor working-memory contents as a function of dynamically evolving temporal expectations in human participants. The design orthogonally manipulated when an item location (left versus right side) and associated prospective action (left versus right hand) would be relevant. Contralateral-vs-ipsilateral modulation of posterior alpha (8-12 Hz) activity in electroencephalography (EEG) tracked prioritization of the item location, while contralateral-vs-ipsilateral modulation of central mu/beta (8-30 Hz) activity tracked response prioritization. Proactive and dynamic alpha and mu/beta modulation confirmed the flexible and temporally structured prioritization of sensory and motor contents alike. Intriguingly, the prioritization of sensory and motor contents was temporally uncoupled, showing dissociable patterns of modulation. The findings reveal multiple modulatory functions of internal attention operating in tandem to prepare relevant aspects of internal representations for adaptive behavior.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":"23 7","pages":"e3003273"},"PeriodicalIF":9.8,"publicationDate":"2025-07-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12258573/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144638542","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}

{"title":"The locus coeruleus influences behavior by coordinating effective integration of fear memories and sensory input.","authors":"Haoyu Duan, Tianyu Wang, Xinyang Zhang, Dan Xia, Zeyi Wang, Tsz Hei Fong, Tianxiang Li, Rongzhen Yan, Yang Zhan, Yulong Li, Wen-Jun Gao, Qiang Zhou","doi":"10.1371/journal.pbio.3003272","DOIUrl":"10.1371/journal.pbio.3003272","url":null,"abstract":"<p><p>An essential function of memory is to guide behavior for better survival and adaptation. While memory formation has been extensively studied, far less is understood about how memory retrieval influences behaviors. In the auditory Pavlovian threat conditioning paradigm using C57BL/6J mice, retrieving a conditioned threat memory is associated with spiking in two dorsomedial prefrontal cortex (dmPFC) neurons with transient (T-neurons) and sustained (S-neurons) patterns. We show here that T-neurons and S-neurons are two distinct neuronal populations with different neuronal and synaptic properties and mRNA profiles. S-neuron spiking matches freezing behavior and is required for freezing. This sustained activity in S-neurons requires auditory inputs and the release of norepinephrine (NE) in the dmPFC. The activation of the locus coeruleus (LC) is initiated by dmPFC T-neuron inputs, sustained by auditory inputs, and is required for the transition to freezing by enhancing S-neuron activity. Interestingly, LC activation precipitates a brief period during which nonconditioned cues also induce freezing. Our findings highlight the critical contribution of the LC/NE system in the transition from memory to behavior, which coordinates the effective integration of memory, sensory inputs and emotional state for optimal adaptation.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":"23 7","pages":"e3003272"},"PeriodicalIF":9.8,"publicationDate":"2025-07-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12273993/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144638543","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}

{"title":"Bi-directional metabolic reprogramming between cancer cells and T cells reshapes the anti-tumor immune response.","authors":"Yajing Qiu, Yihan Xu, Xinyuan Ding, Congcong Zhao, Hongcheng Cheng, Guideng Li","doi":"10.1371/journal.pbio.3003284","DOIUrl":"10.1371/journal.pbio.3003284","url":null,"abstract":"<p><p>Cancer cells and T cells engage in dynamic crosstalk within the tumor microenvironment (TME), shaping tumor progression and anti-tumor immunity. While cancer cells reprogram metabolism to support growth and immune evasion, T cells must adapt their metabolic states to maintain effector functions. Tumor-driven metabolic perturbations, such as nutrient depletion and accumulation of immunosuppressive metabolites, profoundly impair T cell function and fate. Conversely, metabolically reprogrammed T cells can modulate the TME and influence tumor growth. This reciprocal metabolic crosstalk represents both metabolic competition and intercellular communication, offering promising therapeutic targets.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":"23 7","pages":"e3003284"},"PeriodicalIF":7.2,"publicationDate":"2025-07-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12316400/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144638539","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}