PLoS Biology最新文献

{"title":"Correction: Upregulation of DNA repair genes and cell extrusion underpin the remarkable radiation resistance of Trichoplax adhaerens.","authors":"Angelo Fortunato, Alexis Fleming, Athena Aktipis, Carlo C Maley","doi":"10.1371/journal.pbio.3003132","DOIUrl":"https://doi.org/10.1371/journal.pbio.3003132","url":null,"abstract":"<p><p>[This corrects the article DOI: 10.1371/journal.pbio.3001471.].</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":"23 4","pages":"e3003132"},"PeriodicalIF":9.8,"publicationDate":"2025-04-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143812750","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":"Extreme diversity of phage amplification rates and phage-antibiotic interactions revealed by PHORCE.","authors":"Yuval Mulla, Janina Müller, Denny Trimcev, Tobias Bollenbach","doi":"10.1371/journal.pbio.3003065","DOIUrl":"https://doi.org/10.1371/journal.pbio.3003065","url":null,"abstract":"<p><p>Growth rate plays a fundamental role in microbiology and serves as an important proxy for fitness in evolution. While high-throughput measurements of bacterial growth rates are easily performed in any microbiology laboratory, similar methods are lacking for bacteriophages. This gap hinders systematic comparisons of important phage phenotypes, such as their amplification rate in bacterial populations and their bactericidal effect, across different phages and environmental conditions. Here, we show that the amplification rate of lytic phages can be quantified by analyzing bacterial population growth and collapse dynamics under phage predation using a parsimonious mathematical model - an approach termed Phage-Host Observation for Rate estimation from Collapse Events (PHORCE). We found that the resulting phage amplification rate captures the bactericidal effect independent of initial phage and bacterial population sizes for fast-growing hosts and adsorption-limited phages. Using high-throughput PHORCE, we found that the amplification rates of Escherichia coli phages vary widely by more than three orders of magnitude. Furthermore, our approach suggests that phage-antibiotic interactions are predominantly determined by the antibiotic, and not by the phage. In particular, the ribosome-inhibiting antibiotic doxycycline generally showed antagonism with phage amplification, whereas the DNA-damaging antibiotic nitrofurantoin was synergistic. This framework provides a means to quantitatively characterize phage phenotypes and may facilitate future high-throughput phage screens for antibacterial applications.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":"23 4","pages":"e3003065"},"PeriodicalIF":9.8,"publicationDate":"2025-04-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143812751","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":"Active and passive touch are differentially represented in the mouse somatosensory thalamus.","authors":"Anton Sumser, Emilio Ulises Isaías-Camacho, Rebecca Audrey Mease, Alexander Groh","doi":"10.1371/journal.pbio.3003108","DOIUrl":"https://doi.org/10.1371/journal.pbio.3003108","url":null,"abstract":"<p><p>Active and passive sensing strategies are integral to an animal's behavioral repertoire. Nevertheless, there is a lack of information regarding the neuronal circuitry that underpins these strategies, particularly at the thalamus level. We evaluated how active versus passive whisker deflections are represented in single neurons of the ventral posteromedial thalamus (VPM) and the posterior medial thalamus (POm) in awake mice. These are the first- and higher-order thalamic nuclei of the whisker system, respectively. VPM neurons robustly responded to both active and passive whisker deflections, while POm neurons showed a preference for passive deflections and responded poorly to active touches. This response disparity could not be explained by stimulus kinematics and only in part by the animal's voluntary whisking state. In contrast, cortical activity significantly influenced POm's responses to passive touch. Inhibition of the barrel cortex strongly attenuated whisker responses in POm and simultaneously increased the whisking phase coding. This suggests that POm receives touch information from the cortex which strongly adapts and is gated by rare events. Together, these findings suggest two thalamic relay streams, where VPM robustly relays both active and passive deflection, while POm's sensitivity requires top-down cortical involvement to signal salient events such as unexpected deflections, originating in the environment.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":"23 4","pages":"e3003108"},"PeriodicalIF":9.8,"publicationDate":"2025-04-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143812749","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":"Whisking and locomotion are jointly represented in superior colliculus neurons.","authors":"Suma Chinta, Scott R Pluta","doi":"10.1371/journal.pbio.3003087","DOIUrl":"https://doi.org/10.1371/journal.pbio.3003087","url":null,"abstract":"<p><p>Active sensation requires the brain to interpret external stimuli against an ongoing estimate of body position. While internal estimates of body position are often ascribed to the cerebral cortex, we examined the midbrain superior colliculus (SC), due to its close relationship with the sensory periphery as well as higher, motor-related brain regions. Using high-density electrophysiology and movement tracking, we discovered that the on-going kinematics of whisker motion and locomotion speed accurately predict the firing rate of mouse SC neurons. Neural activity was best predicted by movements occurring either in the past, present, or future, indicating that the SC population continuously estimates a trajectory of self-motion. A combined representation of slow and fast whisking features predicted absolute whisker angle at high temporal resolution. Sensory reafference played at least a partial role in shaping this feature tuning. Taken together, these data indicate that the SC contains a joint representation of whisking and locomotor features that is potentially useful in guiding complex orienting movements involving the face and limbs.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":"23 4","pages":"e3003087"},"PeriodicalIF":9.8,"publicationDate":"2025-04-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143803459","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":"Priorities for rapid and cost-effective vaccines to improve outbreak responses.","authors":"Sarah C Gilbert","doi":"10.1371/journal.pbio.3003114","DOIUrl":"https://doi.org/10.1371/journal.pbio.3003114","url":null,"abstract":"<p><p>The use of vaccine platform technologies greatly reduces the time and money required to develop a novel vaccine against an infectious disease, but much work is still needed if vaccines are to protect the world from the next pandemic.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":"23 4","pages":"e3003114"},"PeriodicalIF":9.8,"publicationDate":"2025-04-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143804670","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":"Completing the BASEL phage collection to unlock hidden diversity for systematic exploration of phage-host interactions.","authors":"Dorentina Humolli, Damien Piel, Enea Maffei, Yannik Heyer, Elia Agustoni, Aisylu Shaidullina, Luc Willi, Patrick Imwinkelried, Fabienne Estermann, Aline Cuénod, Dominik P Buser, Carola Alampi, Mohamed Chami, Adrian Egli, Sebastian Hiller, Matthew Dunne, Alexander Harms","doi":"10.1371/journal.pbio.3003063","DOIUrl":"https://doi.org/10.1371/journal.pbio.3003063","url":null,"abstract":"<p><p>Research on bacteriophages, the viruses infecting bacteria, has fueled the development of modern molecular biology and inspired their therapeutic application to combat bacterial multidrug resistance. However, most work has so far focused on a few model phages which impedes direct applications of these findings in clinics and suggests that a vast potential of powerful molecular biology has remained untapped. We have therefore recently composed the BASEL collection of Escherichia coli phages (BActeriophage SElection for your Laboratory), which made a relevant diversity of phages infecting the E. coli K-12 laboratory strain accessible to the community. These phages are widely used, but their assorted diversity has remained limited by the E. coli K-12 host. We have therefore now genetically overcome the two major limitations of E. coli K-12, its lack of O-antigen glycans and the presence of resident bacterial immunity. Restoring O-antigen expression resulted in the isolation of diverse additional viral groups like Kagunavirus, Nonanavirus, Gordonclarkvirinae, and Gamaleyavirus, while eliminating all known antiviral defenses of E. coli K-12 additionally enabled us to isolate phages of Wifcevirus genus. Even though some of these viral groups appear to be common in nature, no phages from any of them had previously been isolated using E. coli laboratory strains, and they had thus remained largely understudied. Overall, 37 new phage isolates have been added to complete the BASEL collection. These phages were deeply characterized genomically and phenotypically with regard to host receptors, sensitivity to antiviral defense systems, and host range. These results highlighted dominant roles of the O-antigen barrier for viral host recognition and of restriction-modification systems in bacterial immunity. We anticipate that the completed BASEL collection will propel research on phage-host interactions and their molecular mechanisms, deepening our understanding of viral ecology and fostering innovations in biotechnology and antimicrobial therapy.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":"23 4","pages":"e3003063"},"PeriodicalIF":9.8,"publicationDate":"2025-04-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143804669","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":"The zona incerta negatively regulates the red nucleus during movement cued by sound signals.","authors":"Liang Chen, Xinxing Wang, Hanxiao Liu, Chenzhao He, Allen P F Chen, Lu Chen, Thomas A Kim, Qiaojie Xiong","doi":"10.1371/journal.pbio.3003092","DOIUrl":"https://doi.org/10.1371/journal.pbio.3003092","url":null,"abstract":"<p><p>Auditory signal-cued behaviors rely on a sophisticated neural network. While extensive research has focused on auditory processing and decision-making, the neural circuits governing motor coordination for goal-directed actions remain poorly understood. The red nucleus (RN) is essential for motor coordination, whereas the zona incerta (ZI) plays a key role in modulating sensorimotor circuits. Using tetrode recordings and optogenetics, we investigated the ZI-RN circuit's role in an auditory-cued decision task. RN neurons were preferentially activated when mice moved to the contralateral port for a reward, and optogenetic activation biased choices toward the contralateral side. Notably, parvalbumin-positive ZI neurons projected to the RN and negatively regulated movement coordination. These findings reveal an inhibitory ZI-RN circuit that shapes auditory-cued, goal-directed movement.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":"23 4","pages":"e3003092"},"PeriodicalIF":9.8,"publicationDate":"2025-04-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143803331","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":"The SPFH complex HflK-HflC regulates aerobic respiration in bacteria.","authors":"María Isabel Pérez-López, Paul Lubrano, Georgia Angelidou, Sarah Hoch, Timo Glatter, Nicole Paczia, Hannes Link, Victor Sourjik","doi":"10.1371/journal.pbio.3003077","DOIUrl":"https://doi.org/10.1371/journal.pbio.3003077","url":null,"abstract":"<p><p>The bacterial HflK-HflC membrane complex is a member of the highly conserved family of SPFH proteins, which are present in all domains of life and include eukaryotic stomatins, flotillins, and prohibitins. These proteins organize cell membranes and are involved in various processes. However, the exact physiological functions of most bacterial SPFH proteins remain unclear. Here, we report that the HflK-HflC complex in Escherichia coli is required for growth under high aeration. The absence of this complex causes a growth defect at high oxygen levels due to a reduced abundance of IspG, an essential iron-sulfur cluster enzyme in the isoprenoid biosynthetic pathway. This reduction might be related to lower stability of IspG and several other proteins, including the iron siderophore transporter TonB, in the absence of the HflK-HflC complex. Our results suggest that decreased IspG activity leads to lower levels of ubiquinone and misregulated expression of multiple respiratory enzymes, including cytochrome oxidases, and consequently reduced respiration and lower ATP levels. This impact of the hflK hflC deletion on aerobic respiration resembles the mitochondrial respiratory defects caused by the inactivation of prohibitins in mammalian and yeast cells, indicating functional parallels between these bacterial and eukaryotic SPFH proteins.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":"23 4","pages":"e3003077"},"PeriodicalIF":9.8,"publicationDate":"2025-04-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143804671","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":"Correction: Predation drives complex eco-evolutionary dynamics in sexually selected traits.","authors":"Brian A Lerch, Maria R Servedio","doi":"10.1371/journal.pbio.3003125","DOIUrl":"10.1371/journal.pbio.3003125","url":null,"abstract":"<p><p>[This corrects the article DOI: 10.1371/journal.pbio.3002059.].</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":"23 4","pages":"e3003125"},"PeriodicalIF":9.8,"publicationDate":"2025-04-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11970688/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143784609","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":"Refining the sleep circuits one neuron at a time.","authors":"Giorgio F Gilestro","doi":"10.1371/journal.pbio.3003101","DOIUrl":"10.1371/journal.pbio.3003101","url":null,"abstract":"<p><p>The neural basis of sleep regulation remains elusive. A new study in PLOS Biology refines the key neuronal circuits involved in the regulation of sleep in fruit flies, confirming Drosophila melanogaster as the model of choice for unraveling the systems neuroscience of such a mysterious phenomenon.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":"23 4","pages":"e3003101"},"PeriodicalIF":9.8,"publicationDate":"2025-04-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11970698/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143784610","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}