February 2025

Research articles

    1. Developmental Biology
    2. Genetics and Genomics

    Nup107 is a crucial regulator of torso-mediated metamorphic transition in Drosophila melanogaster

    Jyotsna Kawadkar, Pradyumna Ajit Joshi, Ram Kumar Mishra
    Not revised
    Reviewed Preprint v1
    • Useful
    • Solid
    1. Neuroscience

    Mechanism that regulates the mutual inhibition controls functional switch of UNC-13

    Haowen Liu, Lei Li ... Zhitao Hu
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Biochemistry and Chemical Biology

    Crossover in Aromatic Amino Acid Interaction Strength: Tyrosine vs. Phenylalanine in Biomolecular Condensates

    David De Sancho, Xabier López
    Not revised
    Reviewed Preprint v1
    • Important
    • Solid
    1. Genetics and Genomics
    2. Microbiology and Infectious Disease

    Deletion of the moeA gene in Flavobacterium IR1 drives structural color shift from green to blue and alters polysaccharide metabolism

    Álvaro Escobar Doncel, Constantinos Patinios ... Colin J Ingham
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Neuroscience

    An image-computable model of speeded decision-making

    Paul I Jaffe, Gustavo X Santiago-Reyes ... Russell A Poldrack
    Combining biologically-plausible neural network models of vision with traditional decision-making models enables a detailed characterization of how the visual system extracts representations that guide decisions from raw sensory inputs.
    1. Evolutionary Biology
    2. Microbiology and Infectious Disease

    Secondary structure of the SARS-CoV-2 genome is predictive of nucleotide substitution frequency

    Zach Hensel
    SARS-CoV-2 secondary structure shapes mutation frequencies, constraining viral evolution models predicting fitness can benefit from integrating secondary structure data.
    Version of Record
    Short Report
    • Valuable
    • Convincing
    1. Neuroscience

    Adaptive chunking improves effective working memory capacity in a prefrontal cortex and basal ganglia circuit

    Aneri Soni, Michael J Frank
    This frontostriatal neural network model links the source of working memory capacity limitations to challenges in learning resource management, and mitigates this challenge by learning a 'chunking' strategy.
    1. Neuroscience

    Bridging the 3D geometrical organisation of white matter pathways across anatomical length scales and species

    Hans Martin Kjer, Mariam Andersson ... Tim B Dyrby
    Common principles of white matter microstructure and pathway organisation was revealed using diffusion MRI and x-ray synchrotron imaging across resolutions, and employing diffusion tensor, micro-tensor, multi-fiber, and structure tensor models.
    1. Neuroscience

    Dimorphic Neural Network Architecture Prioritizes Sexual-related Behaviors in Male C. elegans

    Xuebin Wang, Hanzhang Liu ... He Liu
    Not revised
    Reviewed Preprint v1
    • Useful
    • Incomplete
    1. Neuroscience

    In vivo imaging of inferior olive neurons reveals roles of co-activation and cerebellar feedback in olivocerebellar signaling

    Da Guo, Marylka Yoe Uusisaari
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Solid
    1. Computational and Systems Biology

    The Product neutrality function defining genetic interactions emerges from mechanistic models of cell growth

    Lucas Fuentes Valenzuela, Paul Francois, Jan Skotheim
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Incomplete
    1. Developmental Biology

    Transcriptional complexity in the insect central complex: single nuclei RNA-sequencing of adult brain neurons derived from type 2 neuroblasts

    Derek Epiney, Gonzalo N Morales Chaya ... Chris Q Doe
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Neuroscience

    Distinct representational properties of cues and contexts shape fear learning and extinction

    Antoine Bouyeure, Daniel Pacheco ... Nikolai Axmacher
    Not revised
    Reviewed Preprint v1
    • Important
    • Solid
    1. Neuroscience

    Trial-by-trial inter-areal interactions in visual cortex in the presence or absence of visual stimulation

    Dianna Hidalgo, Giorgia Dellaferrera ... Gabriel Kreiman
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Solid
    • Incomplete
    1. Structural Biology and Molecular Biophysics

    The C-terminus of the multi-drug efflux pump EmrE prevents proton leak by gating transport

    Merissa Brousseau, Da Teng ... Katherine A Henzler-Wildman
    Not revised
    Reviewed Preprint v1
    • Fundamental
    • Solid
    • Incomplete
    1. Neuroscience

    Intrinsic dynamic shapes responses to external stimulation in the human brain

    Maximilian Nentwich, Marcin Leszczynski ... Lucas C Parra
    Not revised
    Reviewed Preprint v1
    • Important
    • Solid
    1. Developmental Biology

    Single-nucleus transcriptional and chromatin accessibility analyses of maturing mouse Achilles tendon uncover the molecular landscape of tendon stem/progenitor cells

    Hiroki Tsutsumi, Tomoki Chiba ... Hiroshi Asahara
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Incomplete
    1. Neuroscience

    How the layer-dependent ratio of excitatory to inhibitory cells shapes cortical coding in balanced networks

    Arezoo Alizadeh, Bernhard Englitz, Fleur Zeldenrust
    Not revised
    Reviewed Preprint v1
    • Useful
    • Incomplete
    1. Structural Biology and Molecular Biophysics

    PROTAC-induced protein structural dynamics in targeted protein degradation

    Kingsley Y Wu, Ta I Hung, Chia-en A Chang
    Multi-level molecular modeling reveals how PROTAC-induced protein structural dynamics of degradation machinery complexes promote ubiquitination processes.
    1. Developmental Biology

    Emerging cooperativity between Oct4 and Sox2 governs the pluripotency network in early mouse embryos

    Yanlin Hou, Zhengwen Nie ... Hans R Scholer
    Although Oct4 is expressed earlier than Sox2 in mouse embryos, both of them begin to perform their role in activating pluripotency-related genes in the inner cell mass.
    1. Neuroscience

    Characterization of direct Purkinje cell outputs to the brainstem

    Christopher H Chen, Zhiyi Yao ... Wade G Regehr
    Cerebellar Purkinje cells make direct synapses within the parabrachial, vestibular, pontine central gray, and other brainstem nuclei that exhibit spatial gradients and cell specificity consistent with nuanced influences on diverse behaviors.
    Version of Record
    Short Report
    • Important
    • Convincing
    1. Structural Biology and Molecular Biophysics

    Structural mechanisms of PIP2 activation and SEA0400 inhibition in human cardiac sodium-calcium exchanger NCX1

    Jing Xue, Weizhong Zeng ... Youxing Jiang
    Not revised
    Reviewed Preprint v1
    • Important
    • Incomplete
    1. Neuroscience

    Biophysical network modeling of temporal and stereotyped sequence propagation of neural activity in the premotor nucleus HVC

    Zeina Bou Diab, Marc Chammas, Arij Daou
    Not revised
    Reviewed Preprint v1
    • Useful
    • Incomplete
    1. Microbiology and Infectious Disease

    Oxidative stress drives potent bactericidal activity of pyrazinamide against Mycobacterium tuberculosis

    Nicholas A Dillon, Elise A Lamont ... Anthony D Baughn
    Not revised
    Reviewed Preprint v1
    • Important
    • Solid
    1. Neuroscience

    Alternatives to Friction Coefficient: Fine Touch Perception Relies on Frictional Instabilities

    Maryanne Derkaloustian, Pushpita Bhattacharyya ... Charles B Dhong
    Not revised
    Reviewed Preprint v1
    • Useful
    • Incomplete
    1. Computational and Systems Biology

    Permute-match tests: Detecting significant correlations between time series despite nonstationarity and limited replicates

    Alex E Yuan, Wenying Shou
    Not revised
    Reviewed Preprint v1
    • Important
    • Compelling
    1. Stem Cells and Regenerative Medicine

    Clonal analysis of murine HSC self-renewal and differentiation in native hematopoiesis

    Chenyu You, Zhen Zhang ... Jianlong Sun
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Stem Cells and Regenerative Medicine

    Proteome dynamics reveal Leiomodin 1 as a key regulator of myogenic differentiation

    Ellen Späth, Svenja C Schüler ... Alessandro Ori
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Solid
    1. Neuroscience

    Dichotomy between extracellular signatures of active dendritic chemical synapses and gap junctions

    Richa Sirmaur, Rishikesh Narayanan
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Solid
    • Incomplete
    1. Evolutionary Biology

    Dynamic simulations of feeding and respiration of the early Cambrian periderm-bearing cnidarian polyps

    Yiheng Zhang, Xing Wang ... Xiaoguang Yang
    Dynamic fluid-structure coupling method simulated the feeding and respiration patterns of Quadrapyrgites, revealing the relationship between the ancient medusozoans and modern jellyfish.
    1. Neuroscience

    Omissions of threat trigger subjective relief and prediction error-like signaling in the human reward and salience systems

    Anne L Willems, Lukas Van Oudenhove, Bram Vervliet
    The unexpected absence of danger is experienced as a pleasurable relief and activates reward-related brain regions in humans, highlighting an overlap in the processing of absent danger and rewards.
    1. Neuroscience

    An Intranet of Things approach for adaptable control of behavioral and navigation-based experiments

    John C Bowler, George Zakka ... Attila Losonczy
    behaviorMate provides a flexible, open-source platform for in vivo investigations that relies on a network of devices to enable observation of neural activity during navigation using physical treadmill and VR setups.
    1. Cell Biology

    Control of ciliary transcriptional programs during spermatogenesis by antagonistic transcription factors

    Weihua Wang, Junqiao Xing ... Zhangfeng Hu
    The discovery of X chromosome-associated protein 5 (Xap5)-mediated transcriptional rewiring of ciliary genes in animals reveals that this regulatory mechanism was conserved during evolution.
    1. Cell Biology

    Multi-omics analyses and machine learning prediction of oviductal responses in the presence of gametes and embryos

    Ryan M Finnerty, Daniel J Carulli ... Wipawee Winuthayanon
    The oviduct dynamically adapts its molecular makeup over time and space, responding to sperm and embryos by activating inflammatory and metabolic genes in distinct regions to support reproduction.
    1. Neuroscience

    Error prediction determines the coordinate system used for the representation of novel dynamics

    Raz Leib, David Franklin
    Motor memories represent dynamics in a minimum noise framework such that the execution of forces based on this representation minimizes the force distortion arising from neural noise, explaining the prior inconsistent force generalization results.
    1. Neuroscience

    Neural mechanisms of learned suppression uncovered by probing the hidden attentional priority map

    Changrun Huang, Dirk van Moorselaar ... Jan Theeuwes
    Learned suppression of distractor locations in visual search emerges through reactive mechanisms that involve initial spatial selection prior to suppression.
    1. Neuroscience

    Basal ganglia output (entopeduncular nucleus) coding of contextual kinematics and reward in the freely moving mouse

    Anil K Verma Rodriguez, Josue O Ramírez-Jarquin ... Fatuel Tecuapetla
    The entopeduncular nucleus multiplexes motor and reward signals, with spatio-temporal coding more prominent than kinematic, both shaped by movement goals, challenging prevailing theories of basal ganglia function.
    1. Cell Biology

    Ubiquitin Ligase ITCH Regulates Life Cycle of SARS-CoV-2 Virus

    Qiwang Xiang, Camille Wouters ... Jiou Wang
    Not revised
    Reviewed Preprint v1
    • Useful
    • Incomplete
    1. Microbiology and Infectious Disease

    Applying 3D correlative structured illumination microscopy and X-ray tomography to characterise herpes simplex virus-1 morphogenesis

    Kamal L Nahas, Viv Connor ... Colin M Crump
    Not revised
    Reviewed Preprint v1
    • Fundamental
    • Compelling
    1. Microbiology and Infectious Disease

    Aeromonas hydrophila CobQ is a new type of NAD+- and Zn2+-independent protein lysine deacetylase

    Yuqian Wang, Guibin Wang ... Xiangmin Lin
    AhCobQ, a novel bacterial lysine deacetylase, functions independently of NAD+ and Zn2+, revealing a previously unknown domain and broad implications for metabolic regulation in prokaryotic systems.
    1. Ecology

    Multidimensionality of tree communities structure host-parasitoid networks and their phylogenetic composition

    Ming-Qiang Wang, Shi-Kun Guo ... Chao-Dong Zhu
    Tree diversity and canopy cover shape host-parasitoid communities and network structure through phylogenetic links in a species-rich forest ecosystems.
    1. Neuroscience

    Precision-based causal inference modulates audiovisual temporal recalibration

    Luhe Li, Fangfang Hong ... Michael S Landy
    Audiovisual temporal recalibration relies on the same causal-inference processes that govern cross-modal perception.
    1. Microbiology and Infectious Disease

    A statistical framework for quantifying the nuclear export rate of influenza viral mRNAs

    Michi Miura, Naho Kiuchi ... Mineki Saito
    A model is proposed to estimate the nuclear export rate of mRNAs produced in a transcription burst, using the spatial distribution of mRNAs determined by single-molecule RNA imaging.
    1. Immunology and Inflammation

    A VgrG2b fragment cleaved by caspase-11/4 promotes Pseudomonas aeruginosa infection through suppressing the NLRP3 inflammasome

    Yan Qian, Qiannv Liu ... Pengyan Xia
    It is a new pattern of recognition between bacterial proteins and the host immune system during P. aeruginosa infection, producing a new virulence factor to inhibit the host's immune response.
    1. Evolutionary Biology

    The adaptive landscapes of three global Escherichia coli transcriptional regulators

    Cauã Antunes Westmann, Leander Goldbach, Andreas Wagner
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Convincing
    1. Neuroscience

    Synaptic plasticity in the medial preoptic area of male mice encodes social experiences with female and regulates behavior toward young

    Kazuki Ito, Keiichiro Sato ... Taiju Amano
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Neuroscience

    Early changes in the properties of CA3 engram cells explored with a novel viral tool

    Dario Cupollilo, Noëlle Grosjean ... Christophe Mulle
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Developmental Biology

    Meteorins regulate the formation of the left-right organizer and the establishment of vertebrate body asymmetry

    Fanny Eggeler, Jonathan Boulanger-Weill ... Filippo Del Bene
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Physics of Living Systems

    A thermodynamic framework for nonequilibrium self-assembly and force morphology tradeoffs in branched actin networks

    Elisabeth Rennert, Suriyanarayanan Vaikuntanathan
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Incomplete
    1. Immunology and Inflammation
    2. Medicine

    Altered hepatic metabolism mediates sepsis preventive effects of reduced glucose supply in infected preterm newborns

    Ole Bæk, Tik Muk ... Duc Ninh Nguyen
    Reduced parenteral glucose during neonatal infection redirects hepatic metabolism to oxidative phosphorylation and gluconeogenesis, dampens systemic proinflammatory responses, and significantly enhances survival in preterm newborns.
    1. Microbiology and Infectious Disease

    DNA methylome regulates virulence and metabolism in Pseudomonas syringae

    Jiadai Huang, Fang Chen ... Xin Deng
    Methylation profiling and functional analyses reveal critical roles of DNA methylation in regulating virulence and metabolism of P. syringae.
    1. Neuroscience
    2. Stem Cells and Regenerative Medicine

    Axon-specific microtubule regulation drives asymmetric regeneration of sensory neuron axons

    Ana Catarina Costa, Blanca R Murillo ... Monica M Sousa
    Proteomic analyses reveal a distinct protein signature underlying microtubule organization and regenerative asymmetries in sensory neuron axons, supported by an in vitro system replicating key features of sensory neuron biology.
    1. Biochemistry and Chemical Biology
    2. Neuroscience

    Chronic RNA G-quadruplex accumulation in aging and Alzheimer’s disease

    Lena Kallweit, Eric Daniel Hamlett ... Scott Horowitz
    G-quadruplexes accumulate in the brain with aging and Alzheimer's disease, suggesting a new possible mechanism of neurodegeneration.
    1. Developmental Biology

    Genetic inactivation of the β1 adrenergic receptor prevents cerebral cavernous malformations in zebrafish

    Wenqing Li, Sara McCurdy ... Mark H Ginsberg
    The β1 adrenergic receptor is a key regulator of cerebral cavernous malformation pathogenesis.
    1. Cell Biology

    Endosomal chemokine receptor signalosomes regulate central mechanisms underlying cell migration

    Hyunggu Hahn, Carole Daly ... Alex RB Thomsen
    Cell biological approaches and spatiotemporally resolved proteome profiling demonstrate that the chemokine receptor CCR7 can activate G proteins after being internalized into endosomes, from where it regulates Rac1-dependent chemotaxis.
    1. Genetics and Genomics
    2. Microbiology and Infectious Disease

    Improved base editing and functional screening in Leishmania via co-expression of the AsCas12a ultra variant, a T7 RNA polymerase, and a cytosine base editor

    Nicole Herrmann May, Anh Cao ... Tom Beneke
    An optimized cytosine base editing system for Leishmania species improves editing efficiency, reduces toxicity, and ensures stable guide expression, enabling scalable loss-of-function screening and efficient creation of functional mutants.
    1. Neuroscience

    Scheduled feeding improves behavioral outcomes and reduces inflammation in a mouse model of Fragile X syndrome

    Huei Bin Wang, Natalie E Smale ... Christopher S Colwell
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Solid
    1. Developmental Biology

    ANKRD5: a key component of the axoneme required for sperm motility and male fertility

    Shuntai Yu, Guoliang Yin ... Fengchao Wang
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Incomplete
    1. Structural Biology and Molecular Biophysics

    Structure and Cl- Conductance Properties of the Open State of Human CFTR

    Zhi-Wei Zeng, Christopher E Ing, Régis Pomès
    Not revised
    Reviewed Preprint v1
    • Important
    • Incomplete
    1. Evolutionary Biology

    Iridescent structural coloration in a crested Cretaceous enantiornithine bird from Jehol Biota

    Zhiheng Li, Jinsheng Hu ... Julia A Clarke
    Not revised
    Reviewed Preprint v1
    • Fundamental
    • Incomplete
    1. Cell Biology

    Force transmission through the inner kinetochore is enhanced by centromeric DNA sequences

    Elise Miedlar, Grace E Hamilton ... Trisha N Davis
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Convincing
    1. Plant Biology

    Structure-guided secretome analysis of gall-forming microbes offers insights into effector diversity and evolution

    Soham Mukhopadhyay, Muhammad Asim Javed ... Edel Pérez-López
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Developmental Biology
    2. Neuroscience

    Afadin Sorts Different Retinal Neuron Types into Accurate Cellular Layers

    Matthew R Lum, Sachin H Patel ... Xin Duan
    Not revised
    Reviewed Preprint v1
    • Important
    • Solid
    1. Microbiology and Infectious Disease

    Chalkophore mediated respiratory oxidase flexibility controls M. tuberculosis virulence

    John A Buglino, Yaprak Ozakman ... Michael S Glickman
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Developmental Biology
    2. Chromosomes and Gene Expression

    PRDM16 functions as a co-repressor in the BMP pathway to suppress neural stem cell proliferation

    Li He, Jiayu Wen, Qi Dai
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Solid
    1. Microbiology and Infectious Disease

    Multi-Omics Single-Cell Analysis Reveals Key Regulators of HIV-1 Persistence and Aberrant Host Immune Responses in Early Infection

    Dayeon Lee, Sin Young Choi ... Jihwan Park
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Solid
    1. Chromosomes and Gene Expression
    2. Cancer Biology

    Interplay of YEATS2 and GCDH mediates histone crotonylation and drives EMT in head and neck cancer

    Deepak Pant, Parik Kakani ... Sanjeev Shukla
    Not revised
    Reviewed Preprint v1
    • Useful
    • Incomplete
    1. Genetics and Genomics
    2. Neuroscience

    Impact of liver-specific survival motor neuron (SMN) depletion on central nervous system and peripheral tissue pathology

    Monique Marylin Alves de Almeida, Yves De Repentigny ... Rashmi Kothary
    A liver-specific depletion of the survival motor neuron protein in a mouse model unveils a compelling and intricate connection between liver function and pancreatic abnormalities in spinal muscular atrophy.
    1. Neuroscience

    Robust variability of grid cell properties within individual grid modules enhances encoding of local space

    William T Redman, Santiago Acosta-Mendoza ... Michael J Goard
    Grid cells within an individual module show significantly more variability in grid properties than would be expected by chance, resulting in improved neural representation of animal location in the environment.
    1. Developmental Biology

    Combined forces of hydrostatic pressure and actin polymerization drive endothelial tip cell migration and sprouting angiogenesis

    Igor Kondrychyn, Liqun He ... Li-Kun Phng
    Investigation of Aquaporin water channels unveils water inflow and build-up of hydrostatic pressure in endothelial tip cells as a novel mechanism of endothelial cell migration and blood vessel formation.
    1. Plant Biology

    Systems genomics of salinity stress response in rice

    Sonal Gupta, Simon Niels Groen ... Michael D Purugganan
    Insights into the molecular and genetic landscape underlying adaptive salinity stress responses in rice.
    1. Medicine
    2. Microbiology and Infectious Disease

    Differences in HIV-1 reservoir size, landscape characteristics, and decay dynamics in acute and chronic treated HIV-1 Clade C infection

    Kavidha Reddy, Guinevere Q Lee ... Thumbi Ndung'u
    Extremely early antiretroviral therapy during HIV-1 subtype C infection leads to faster decline in genome-intact viruses, reduced genetic complexity, and immune escape, and may enhance reservoir clearance with additional interventional strategies.
    1. Neuroscience

    Reduced discrimination between signals of danger and safety but not overgeneralization is linked to exposure to childhood adversity in healthy adults

    Maren Klingelhöfer-Jens, Katharina Hutterer ... Tina B Lonsdorf
    Childhood adversity is associated with aberrant threat learning patterns in a large healthy adult sample as evidenced by empirically testing several theories linking childhood adversity to psychopathology.
    1. Neuroscience

    Pupil dilation offers a time-window on prediction error

    Olympia Colizoli, Tessa van Leeuwen ... Harold Bekkering
    Not revised
    Reviewed Preprint v1
    • Important
    • Incomplete
    1. Neuroscience

    A neural network model that generates salt concentration memory-dependent chemotaxis in Caenorhabditis elegans

    Masakatsu Hironaka, Tomonari Sumi
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Solid
    • Incomplete
    1. Microbiology and Infectious Disease

    SATAY-based chemogenomic screening uncovers antifungal resistance mechanisms and key determinants of ATI-2307 and chitosan sensitivity

    Matthew T Karadzas, Agnès H Michel ... Benoît Kornmann
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Developmental Biology

    Vascular mural cells protect the adult brain from haemorrhage but do not control the blood-brain barrier in developing zebrafish

    Oguzhan F Baltaci, Andrea Usseglio Gaudi ... Benjamin M Hogan
    Not revised
    Reviewed Preprint v1
    • Important
    • Solid
    1. Neuroscience

    Cortico-striatal action control inherent of opponent cognitive-motivational styles

    Cassandra Avila, Martin Sarter
    Electrochemical recordings of cortico-striatal glutamatergic signaling, and chemogenetic inhibition of such signaling, revealed an essential role of cortico-striatal input for cued action selection, but not for cued stopping.
    1. Computational and Systems Biology

    AI-enabled alkaline-resistant evolution of protein to apply in mass production

    Liqi Kang, Banghao Wu ... Liang Hong
    The Pro-PRIME model demonstrates the ability to engineer VHH antibody with unprecedented alkali resistance and enhanced affinity, enabling industrial applications under extreme conditions previously unattainable with natural proteins.
    1. Immunology and Inflammation

    Synovial macrophage diversity and activation of M-CSF signaling in post-traumatic osteoarthritis

    Alexander J Knights, Easton C Farrell ... Tristan Maerz
    Joint injury induces rapid and sustained diversification of resident and infiltrating synovial macrophage phenotypes, underpinning osteoarthritis-associated synovitis.
    1. Developmental Biology
    2. Stem Cells and Regenerative Medicine

    SMARCAD1 and TOPBP1 contribute to heterochromatin maintenance at the transition from the 2C-like to the pluripotent state

    Ruben Sebastian-Perez, Shoma Nakagawa ... Maria Pia Cosma
    The chromatin-bound proteome of embryonic stem cells transitioning to 2C-like cells uncovers chromatin regulators involved in heterochromatin formation.
    1. Cell Biology
    2. Physics of Living Systems

    Catalytic growth in a shared enzyme pool ensures robust control of centrosome size

    Deb Sankar Banerjee, Shiladitya Banerjee
    A catalytic growth model in a shared enzyme pool explains robust centrosome size equality and size scaling, offering a unifying model for centrosome maturation dynamics across diverse organisms.
    1. Immunology and Inflammation

    DGKα and ζ Deficiency Causes Regulatory T-Cell Dysregulation, Destabilization, and Conversion to Pathogenic T-Follicular Helper Cells to Trigger IgG1-Predominant Autoimmunity

    Lei Li, Hongxiang Huang ... Xiao-Ping Zhong
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Solid
    1. Neuroscience

    Sexual Failure Decreases Sweet Taste Perception in Male Drosophila via Dopaminergic Signaling

    Gaohang Wang, Wei Qi ... Liming Wang
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Solid
    1. Chromosomes and Gene Expression
    2. Genetics and Genomics

    High-Resolution Genome-Wide Maps Reveal Widespread Presence of Torsional Insulation

    Porter M Hall, Lauren A Mayse ... Michelle D Wang
    Not revised
    Reviewed Preprint v1
    • Fundamental
    • Compelling
    1. Cell Biology

    Mechanisms of PP2A-Ankle2 dependent nuclear reassembly after mitosis

    Jingjing Li, Xinyue Wang ... Vincent Archambault
    Ankle2 functions as a regulatory subunit of PP2A and interacts with the endoplasmic reticulum protein Vap33 to promote the dephosphorylation of BAF as part of nuclear reassembly after mitosis.
    1. Computational and Systems Biology
    2. Genetics and Genomics

    Multiplexed assays of human disease-relevant mutations reveal UTR dinucleotide composition as a major determinant of RNA stability

    Jia-Ying Su, Yun-Lin Wang ... Chien-Ling Lin
    The UA-dinucleotide ratio in UTRs is negatively correlated with RNA stability both in the massively parallel reporter assay and in vivo, and is prevalent in fast-turnover genes.
    1. Structural Biology and Molecular Biophysics

    Wide transition-state ensemble as key component for enzyme catalysis

    Gabriel E Jara, Francesco Pontiggia ... Dorothee Kern
    Computational and experimental evidence shows that the reaction catalyzed by adenylate kinase operates through a broad transition-state ensemble (TSE), utilizing protein conformational diversity to reduce activation entropy.
    1. Immunology and Inflammation
    2. Microbiology and Infectious Disease

    The relationship between gut and nasopharyngeal microbiome composition can predict the severity of COVID-19

    Benita Martin-Castaño, Patricia Diez-Echave ... Julio Galvez
    Biomarkers of COVID-19 severity identified in nasopharyngeal and faecal microbiota could improve prognostic accuracy and treatment strategies for severe cases.
    1. Neuroscience

    Visual homogeneity computations in the brain enable solving property-based visual tasks

    Georgin Jacob, RT Pramod, SP Arun
    Seemingly disparate property-based tasks (oddball search, same-different and symmetry) are solved by computing a novel image property, visual homogeneity, which is localized to the object selective cortex.
    1. Cell Biology
    2. Chromosomes and Gene Expression

    The conserved ATPase PCH-2 controls the number and distribution of crossovers by antagonizing their formation in Caenorhabditis elegans

    Bhumil Patel, Maryke Grobler ... Needhi Bhalla
    By regulating the chromosome axis component and meiotic HORMAD, HIM-3, the conserved AAA-ATPase PCH-2 controls the number and distribution of meiotic recombination events.
    1. Neuroscience

    An adaptable, reusable, and light implant for chronic Neuropixels probes

    Célian Bimbard, Flóra Takács ... Philip Coen
    The Apollo implant, an open-source device tested in eight laboratories, can be used to reversibly implant Neuropixels probes and track the activity of populations of neurons across days.
    1. Immunology and Inflammation
    2. Evolutionary Biology

    Newly discovered and conserved role of IgM against viral infection in an early vertebrate

    Weiguang Kong, Xinyou Wang ... Zhen Xu
    Not revised
    Reviewed Preprint v1
    • Important
    • Incomplete
    1. Neuroscience

    Differential roles of NaV1.2 and NaV1.6 in neocortical pyramidal cell excitability

    Joshua D Garcia, Chenyu Wang ... Kevin J Bender
    Not revised
    Reviewed Preprint v1
    • Important
    • Compelling
    1. Neuroscience

    Neurons in the medial prefrontal cortex that are not modulated by hippocampal sharp-wave ripples are involved in spatial tuning and signaling upcoming choice

    Hanna den Bakker, Fabian Kloosterman
    Not revised
    Reviewed Preprint v1
    • Useful
    • Incomplete
    1. Ecology
    2. Evolutionary Biology

    Old age variably impacts chimpanzee engagement and efficiency in stone tool use

    Elliot Howard-Spink, Tetsuro Matsuzawa ... Dora Biro
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Incomplete
    1. Cell Biology
    2. Cancer Biology

    PRMT1-Mediated Metabolic Reprogramming Promotes Leukemogenesis

    Hairui Su, Yong Sun ... Xinyang Zhao
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Neuroscience

    Human Brain-Wide Activation of Sleep Rhythms

    Haiteng Wang, Qihong Zou ... Yunzhe Liu
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Incomplete
    1. Neuroscience

    Parkinson’s disease-associated Pink1 loss disrupts vesicle trafficking in Ensheathing glia causing dopaminergic neuron synapse loss

    Lorenzo Ghezzi, Ulrike Pech ... Patrik Verstreken
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Incomplete
    1. Physics of Living Systems

    Stability vs flexibility: reshaping archaeal membranes in silico

    Miguel Amaral, Felix Frey ... Anđela Šarić
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Cell Biology

    A Commander-independent function of COMMD3 in endosomal trafficking

    Galen T Squiers, Chun Wan ... Jingshi Shen
    Not revised
    Reviewed Preprint v1
    • Important
    • Solid
    1. Neuroscience
    2. Computational and Systems Biology

    Computational modelling identifies key determinants of subregion-specific dopamine dynamics in the striatum

    Aske L Ejdrup, Jakob K Dreyer ... Ulrik Gether
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Incomplete
    1. Cell Biology

    Negative regulation of miRNAs sorting in EVs: the RNA-binding protein PCBP2 impairs SYNCRIP-mediated miRNAs EVs loading

    Francesco Marocco, Sabrina Garbo ... Marco Tripodi
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Solid
    1. Cell Biology
    2. Immunology and Inflammation

    Clathrin-independent endocytosis and retrograde transport in cancer cells promote cytotoxic CD8 T cell activation

    Shiqiang Xu, Alix Buridant ... Henri-François Renard
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Convincing
    • Incomplete
    1. Cell Biology

    The RAB27A effector SYTL5 regulates mitophagy and mitochondrial metabolism

    Ana Lapao, Lauren Sophie Johnson ... Anne Simonsen
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Incomplete
    1. Neuroscience

    Statistical learning beyond words in human neonates

    Ana Fló, Lucas Benjamin ... Ghislaine Dehaene-Lambertz
    Human neonates process regularities in speech's phonetic and voice content in parallel, but only phonetic regularities evoke a specific ERP component in a post-learning phase.
    1. Cancer Biology
    2. Chromosomes and Gene Expression

    Identification of nonsense-mediated decay inhibitors that alter the tumor immune landscape

    Ashley L Cook, Surojit Sur ... Nicolas Wyhs
    Inhibition of nonsense-mediated decay turns immunologically cold tumors hot by increasing the amount of mutant RNA leading to an increase in T-cell-targetable neoantigens on the cell surface.
    1. Microbiology and Infectious Disease

    Maintenance of cell wall remodeling and vesicle production are connected in Mycobacterium tuberculosis

    Vivian C Salgueiro-Toledo, Jorge Bertol ... Rafael Prados-Rosales
    Genetic, ultrastructural, multi-omics, and biochemical tools reveal VirR as a central scaffold in Mycobacterium tuberculosis cell envelope remodelling, critical for extracellular vesicle production.
    1. Epidemiology and Global Health
    2. Microbiology and Infectious Disease

    Protection afforded by post-infection SARS-CoV-2 vaccine doses: A cohort study in Shanghai

    Bo Zheng, Bronner P Gonçalves ... Caoyi Xue
    The observation that an additional vaccine dose provides protection against Omicron variant reinfection in previously vaccinated and infected individuals will help guide future COVID-19 vaccination policies in China and globally.
    1. Neuroscience

    Behavioural pharmacology predicts disrupted signalling pathways and candidate therapeutics from zebrafish mutants of Alzheimer’s disease risk genes

    François Kroll, Joshua Donnelly ... Jason Rihel
    Predictive pharmacology based on behavioural fingerprinting can identify druggable pathways that are altered or renormalized in zebrafish larvae that harbor mutations in early and late-onset Alzheimer's disease risk genes.
    1. Cell Biology
    2. Physics of Living Systems

    De novo identification of universal cell mechanics gene signatures

    Marta Urbanska, Yan Ge ... Jochen Guck
    A computational systems biology approach identifies a gene network module associated with single-cell mechanical phenotype changes across diverse mouse and human systems, with implications for on-demand engineering of cell stiffness.
    1. Cancer Biology
    2. Medicine

    Development and assessment of a sustainable PhD internship program supporting diverse biomedical career outcomes

    Patrick Brandt, Dawayne Whittington ... Rebekah L Layton
    Internship programs for PhD and postdoctoral trainees are challenging to develop and sustain, but the benefits to interns and other stakeholders are significant and worth the effort and expense.
    1. Biochemistry and Chemical Biology

    Mapping kinase domain resistance mechanisms for the MET receptor tyrosine kinase via deep mutational scanning

    Gabriella O Estevam, Edmond Linossi ... James S Fraser
    A deep mutational scan of MET kinase domain variants reveals resistance and sensitizing mutations for 11 inhibitors, providing a mutation-specific reference for precision therapies and drug development.
    1. Genetics and Genomics
    2. Neuroscience

    Oxytocin receptor controls promiscuity and development in prairie voles

    Ruchira Sharma, Kristen M Berendzen ... Devanand S Manoli
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Solid
    1. Chromosomes and Gene Expression
    2. Immunology and Inflammation

    Genome Restructuring around Innate Immune Genes in Monocytes in Alcohol-associated Hepatitis

    Adam Kim, Megan R McMullen ... Srinivasan Dasarathy
    Not revised
    Reviewed Preprint v1
    • Incomplete
    1. Neuroscience

    Brain-Cognitive Gaps in relation to Dopamine and Health-related Factors: Insights from AI-Driven Functional Connectome Predictions

    Morteza Esmaeili, Erin Beate Bjørkeli ... Alireza Salami
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Incomplete
    1. Neuroscience

    Novel and optimized mouse behavior enabled by fully autonomous HABITS: Home-cage Assisted Behavioral Innovation and Testing System

    Bowen Yu, Penghai Li ... Yaoyao Hao
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Neuroscience

    Afadin-deficient retinas exhibit severe neuronal lamination defects but preserve visual functions

    Akiko Ueno, Konan Sakuta ... Chieko Koike
    Not revised
    Reviewed Preprint v1
    • Useful
    • Solid
    1. Neuroscience

    A contextual fear conditioning paradigm in head-fixed mice exploring virtual reality

    Seetha Krishnan, Can Dong ... Mark Sheffield
    Not revised
    Reviewed Preprint v1
    • Useful
    • Incomplete
    1. Ecology
    2. Evolutionary Biology

    Rapid riparian ecosystem recovery in low-latitudinal North China following the end-Permian mass extinction

    Wenwei Guo, Li Tian ... Jinnan Tong
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Neuroscience

    Sleep need driven oscillation of glutamate synaptic phenotype

    Kaspar E Vogt, Ashwinikumar Kulkarni ... Robert W Greene
    Sleep's role to down-scale glutamate, excitatory, frontal cortical synapses is extended to include an up-scaling of metaplastic LTP potential, in recovery from prolonged waking induced saturation of this LTP potential.
    1. Microbiology and Infectious Disease

    Late killing of Plasmodium berghei sporozoites in the liver by an anti-circumsporozoite protein antibody

    Manuela C Aguirre-Botero, Olga Pacios ... Rogerio Amino
    A late-neutralizing monoclonal antibody targeting the major surface antigen of plasmodial sporozoites impairs the fitness of intracellular parasites, offering mechanistic insights to guide the development of potent anti-malaria antibodies.
    1. Immunology and Inflammation
    2. Microbiology and Infectious Disease

    T3SS translocon induces pyroptosis by direct interaction with NLRC4/NAIP inflammasome

    Yan Zhao, Hanshuo Zhu ... Li Sun
    T3SS translocon induces NLRC4-mediated cell death via a conserved C-terminal region shared by many T3SS-positive bacterial pathogens.
    1. Neuroscience

    Specific presynaptic functions require distinct Drosophila Cav2 splice isoforms

    Christopher Bell, Lukas Kilo ... Stefanie Ryglewski
    Mutually exclusive splicing of two exon pairs of the only Drosophila Cav2 homolog cacophony mediates functional diversity of Cav2 channels in Drosophila.
    1. Genetics and Genomics

    fmo-4 promotes longevity and stress resistance via ER to mitochondria calcium regulation in C. elegans

    Angela M Tuckowski, Safa Beydoun ... Scott F Leiser
    fmo-4 slows aging downstream of dietary restriction and mTOR and regulates calcium-mediated signaling in the hypodermis.
    1. Neuroscience

    Dual transcranial electromagnetic stimulation of the precuneus-hippocampus network boosts human long-term memory

    Ilaria Borghi, Lucia Mencarelli ... Giacomo Koch
    Not revised
    Reviewed Preprint v1
    • Important
    • Incomplete
    1. Neuroscience

    A stochastic explanation for observed local-to-global foraging states in Caenorhabditis elegans

    Andrew Margolis, Andrew Gordus
    Not revised
    Reviewed Preprint v1
    • Useful
    • Inadequate
    1. Developmental Biology

    The Drosophila EGF domain protein Uninflatable sets the switch between wrapping glia growth and axon wrapping instructed by Notch

    Marie Baldenius, Steffen Kautzmann ... Christian Klämbt
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Epidemiology and Global Health

    Global risk mapping of highly pathogenic avian influenza H5N1 and H5Nx in the light of epidemic episodes occurring from 2020 onward

    Marie-Cécile Dupas, Maria F Vincenti-Gonzalez ... Simon Dellicour
    Not revised
    Reviewed Preprint v1
    • Useful
    • Incomplete
    1. Physics of Living Systems
    2. Evolutionary Biology

    Magnetotactic Bacteria Optimally Navigate Natural Pore Networks

    Alexander P Petroff, Vladislav Kelin, Nina Radchenko-Hannafin
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Convincing
    1. Neuroscience

    From histology to macroscale function in the human amygdala

    Hans Auer, Donna Gift Cabalo ... Jessica Royer
    A data-driven exploration of amygdala microstructure captures this region's subnuclear structure and dissociates its cortical functional connectivity profiles.
    1. Microbiology and Infectious Disease

    A within-host infection model to explore tolerance and resistance

    David Duneau, Pierre DM Lafont ... Jean-Baptiste Ferdy
    1. Evolutionary Biology

    The population genetics of convergent adaptation in maize and teosinte is not locally restricted

    Silas Tittes, Anne Lorant ... Jeffrey Ross-Ibarra
    Adaptation of domesticated maize and its wild relative teosinte has been facilitated by the geographically widespread exchange of beneficial alleles between them.
    1. Neuroscience
    2. Structural Biology and Molecular Biophysics

    CryoEM structures of Kv1.2 potassium channels, conducting and non-conducting

    Yangyu Wu, Yangyang Yan ... Fred J Sigworth
    The well-studied Kv1.2 potassium ion channel is observed in a variety of states and conditions, to understand mechanisms of ion permeation, gating and block.
    1. Microbiology and Infectious Disease

    Quantification of Salmonella enterica serovar Typhimurium population dynamics in murine infection using a highly diverse barcoded library

    Julia A Hotinger, Ian W Campbell ... Matthew K Waldor
    Microbial lineage tracing during murine systemic infection with Salmonella uncovered the bottlenecks that restrict colonization and the hidden routes of interorgan dissemination that drive heterogeneity in infection outcomes.
    1. Structural Biology and Molecular Biophysics

    Mechanism of dimer selectivity and binding cooperativity of BRAF inhibitors

    Joseph Clayton, Aarion Romany ... Jana Shen
    BRAF inhibitors achieve monomer or dimer selectivity through their ability to modulate dimerization and allosteric communication.
    1. Neuroscience

    Probing the role of synaptic adhesion molecule RTN4RL2 in setting up cochlear connectivity

    Nare Karagulyan, Maja Überegger ... Christine Bandtlow
    Not revised
    Reviewed Preprint v1
    • Important
    • Solid
    1. Cell Biology
    2. Chromosomes and Gene Expression

    Enalapril mitigates aging by targeting antioxidative genes via phosphorylated Smad1/5/9

    Wencong Lyu, Haochen Wang ... Wei Tao
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Incomplete
    1. Biochemistry and Chemical Biology
    2. Genetics and Genomics

    Tissue-specific responses to TFAM and mtDNA copy number manipulation in prematurely ageing mice

    Laura S Kremer, Guanbin Gao ... Nils-Göran Larsson
    Not revised
    Reviewed Preprint v1
    • Important
    • Solid
    1. Biochemistry and Chemical Biology
    2. Cancer Biology

    Synthetic gene circuits that selectively target RAS-driven cancers

    Gabriel Senn, Leon Nissen, Yaakov Benenson
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Ecology
    2. Evolutionary Biology

    Interpreting prediction intervals and distributions for decoding biological generality in meta-analyses

    Yefeng Yang, Daniel WA Noble ... Shinichi Nakagawa
    Not revised
    Reviewed Preprint v1
    • Useful
    • Solid
    • Incomplete
    1. Neuroscience

    Stereotype of mouse social competency and status revealed by a novel competition paradigm in combination with available paradigms

    Meiqiu Liu, Yue Chen, Rongqing Chen
    Not revised
    Reviewed Preprint v1
    • Useful
    • Solid
    • Incomplete
    1. Cell Biology
    2. Physics of Living Systems

    Bridging the Gap in Cancer Cell Behavior Against Matrix Stiffening: Insights from a Trizonal Model

    Mohammad E Torki, Fan Liu ... Zi Chen
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Solid
    1. Structural Biology and Molecular Biophysics
    2. Computational and Systems Biology

    Compound Mutations in the Abl1 Kinase Cause Inhibitor Resistance by Shifting DFG Flip Mechanisms and Relative State Populations

    Gabriel Monteiro da Silva, Kyle Lam ... Brenda M Rubenstein
    Not revised
    Reviewed Preprint v1
    • Useful
    • Incomplete
    1. Cancer Biology

    Non-destructive in situ monitoring of structural changes of 3D tumor spheroids during the formation, migration, and fusion process

    Ke Ning, Yuanyuan Xie ... Ling Yu
    A piece of first-surface mirror for side-view observation enables non-destructive in situ monitoring of structural changes of 3D tumor spheroids during the formation, migration, and fusion process.
    1. Cell Biology

    Pharmacologic activation of integrated stress response kinases inhibits pathologic mitochondrial fragmentation

    Kelsey R Baron, Samantha Oviedo ... R Luke Wiseman
    Compounds that activate integrated stress response kinases inhibit mitochondrial fragmentation induced by chemical or genetic insults, indicating that targeting this pathway offers opportunities to mitigate mitochondrial fragmentation in diverse diseases.
    1. Physics of Living Systems

    Decoding phase separation of prion-like domains through data-driven scaling laws

    M Julia Maristany, Anne Aguirre Gonzalez ... Jerelle A Joseph
    Phase diagrams for 140 variants of prion-like low-complexity domains are computed to establish scaling laws that quantify the impact of amino acid mutations on the thermodynamic stability of condensates.
    1. Neuroscience

    Cyclin-dependent kinase 5 (Cdk5) activity is modulated by light and gates rapid phase shifts of the circadian clock

    Andrea Brenna, Micaela Borsa ... Urs Albrecht
    The light-modulated protein kinase CDK5 is important for phase shifts of the circadian clock, impacting phase delays through calcium influx and signaling pathways, crucial for adapting to jet lag.
    1. Neuroscience

    Brain areas for reversible symbolic reference, a potential singularity of the human brain

    Timo van Kerkoerle, Louise Pape ... Ghislaine Dehaene-Lambertz
    Humans spontaneously reverse learned associations while macaque monkeys do not, providing a minimal test of a distinctive human capacity for symbolic representations.
    1. Biochemistry and Chemical Biology
    2. Genetics and Genomics

    SERBP1 interacts with PARP1 and is present in PARylation-dependent protein complexes regulating splicing, cell division, and ribosome biogenesis

    Kira Breunig, Xuifen Lei ... Luiz O Penalva
    SERBP1 is associate with protein complexes regulating splicing, cell division, and ribosomal biogenesis that likely depend on G quadruplex (G4) binding and polyADP-ribosylation (PARylation) for their assembly and function.
    1. Cell Biology

    Ezrin defines TSC complex activation at endosomal compartments through EGFR–AKT signaling

    Giuliana Giamundo, Daniela Intartaglia ... Ivan Conte
    Ezrin controls endo-lysosomal signaling by maintaining TSC inhibition through EGFR signaling, activating mTORC1, and inhibiting lysosomal function, unveiling a critical endosome–lysosome network essential for autophagy and cellular homeostasis.
    1. Genetics and Genomics

    A molecular proximity sensor based on an engineered, dual-component guide RNA

    Junhong Choi, Wei Chen ... Jay Shendure
    In P3 editing, molecular interactions are sensed and converted directly into genome editing events, which may be useful for biological recording and synthetic molecular circuits deployed in living cells.
    1. Cell Biology

    Glucokinase activity controls peripherally located subpopulations of β-cells that lead islet Ca2+ oscillations

    Erli Jin, Jennifer K Briggs ... Matthew J Merrins
    3D light-sheet imaging identifies the location and metabolic sensitivity of β-cell subpopulations that lead and coordinate islet Ca2+ oscillations.
    1. Immunology and Inflammation
    2. Microbiology and Infectious Disease

    Interleukin-1 prevents SARS-CoV-2-induced membrane fusion to restrict viral transmission via induction of actin bundles

    Xu Zheng, Shi Yu ... Guangxun Meng
    Interleukin-1 activates RhoA/ROCK signaling, which drives the enrichment of actin bundles at the cell-cell junctions, preventing SARS-CoV-2 spreading via syncytia formation.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    Structure of METTL3-METTL14 with an m6A nucleotide reveals insights into m6A conversion and sensing

    Shan Qi, Abhay Kumar ... Yogesh K Gupta
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Solid
    1. Stem Cells and Regenerative Medicine

    Identification of a sub-population of synovial mesenchymal stem cells with enhanced treatment efficacy in a rat model of Osteoarthritis

    Nedaa Al-Jezani, Asmaa Affan ... Roman J Krawetz
    Not revised
    Reviewed Preprint v1
    • Important
    • Solid
    1. Cell Biology
    2. Cancer Biology

    A single cysteine residue in vimentin regulates long non-coding RNA XIST to suppress epithelial-mesenchymal transition and stemness in breast cancer

    Saima Usman, W Andrew Yeudall ... Ahmad Waseem
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Solid
    1. Biochemistry and Chemical Biology

    Alzheimer-mutant γ-secretase complexes stall amyloid β-peptide production

    Parnian Arafi, Sujan Devkota ... Michael S Wolfe
    Further evidence in support of a new amyloid-independent hypothesis for the pathogenesis of Alzheimer's disease is provided, with an expanded set of Alzheimer-causing mutations in the protease that produces amyloid.
    Version of Record
    Research Article
    • Fundamental
    • Compelling
    • Convincing
    1. Developmental Biology

    Mechanical forces pattern endocardial Notch activation via mTORC2-PKC pathway

    Yunfei Mu, Shijia Hu ... Hongjun Shi
    A ligand independent mechanical sensitive mTORC2-PKC pathway activates Notch in the endocardium of the valve forming area.
    1. Computational and Systems Biology
    2. Medicine

    Multi-tissue network analysis reveals the effect of JNK inhibition on dietary sucrose-induced metabolic dysfunction in rats

    Hong Yang, Cheng Zhang ... Adil Mardinoglu
    Inhibiting c-Jun N-terminal kinase exerts a cross-tissue therapeutic effect on metabolic dysfunction induced by sucrose overconsumption in rats.
    1. Cancer Biology

    NPRL2 gene therapy induces effective antitumor immunity in KRAS/STK11 mutant anti-PD1 resistant metastatic non-small cell lung cancer (NSCLC) in a humanized mouse model

    Ismail M Meraz, Mourad Majidi ... Jack A Roth
    NPRL2 gene therapy induces robust antitumor immunity and overcome anti-PD1 resistance through augmenting antigen-presentation and cytotoxic T cells activation in KRAS/STK11 mutant NSCLC in humanized mouse model.
    1. Microbiology and Infectious Disease

    Immunogenicity and safety of a live-attenuated SARS-CoV-2 vaccine candidate based on multiple attenuation mechanisms

    Mie Suzuki Okutani, Shinya Okamura ... Hirotaka Ebina
    The novel live-attenuated SARS-CoV-2 nasal vaccine candidate is highly safe, induces robust cellular and mucosal immunity, and generates long-lasting neutralizing antibody titers.
    1. Medicine
    2. Stem Cells and Regenerative Medicine

    R-Spondin Mimetic, SZN-043, Induced Proliferation and Wnt Activity, Two Features Deficient in Human Alcohol-Associated Liver Disease

    Trevor Fisher, Mehaben Patel ... Helene Baribault
    Not revised
    Reviewed Preprint v1
    • Important
    • Solid
    • Incomplete
    1. Cell Biology

    Megakaryocytes assemble a three-dimensional cage of extracellular matrix that controls their maturation and anchoring to the vascular niche

    Claire Masson, Cyril Scandola ... Anita Eckly
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Solid
    1. Neuroscience

    Combined transcriptomic, connectivity, and activity profiling of the medial amygdala using highly amplified multiplexed in situ hybridization (hamFISH)

    Mathew D Edwards, Ziwei Yin ... Yoh Isogai
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Neuroscience

    Acute aerobic exercise does not modulate pain potentially due to differences in fitness levels and sex effects – results from a pharmacological fMRI study

    Janne I Nold, Tahmine Fadai, Christian Büchel
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Incomplete
    1. Neuroscience

    Strikingly different neurotransmitter release strategies in dopaminergic subclasses

    Ana Dorrego-Rivas, Darren J Byrne ... Matthew S Grubb
    Not revised
    Reviewed Preprint v1
    • Important
    • Solid
    • Incomplete
    1. Genetics and Genomics

    Maturation and detoxification of synphilin-1 inclusion bodies regulated by sphingolipids

    Xiuling Cao, Xiang Wu ... Beidong Liu
    Membrane lipids are involved in the maturation and cytotoxicity of Parkinson's synphilin-1 inclusion bodies.
    1. Neuroscience

    Decoding the physics of observed actions in the human brain

    Moritz F Wurm, Doruk Yiğit Erigüç
    Inferior parietal and lateral occipitotemporal cortex encode the effects of actions at an abstract level of representation, independently of the body movements that induce them.
    1. Neuroscience

    Multimodal mismatch responses in mouse auditory cortex

    Magdalena Solyga, Georg B Keller
    Audiomotor mismatch responses in auditory cortex are amplified by concurrent visuomotor mismatches, highlighting non-hierarchical and multimodal processing of prediction errors.
    1. Structural Biology and Molecular Biophysics

    Flexibility in PAM recognition expands DNA targeting in xCas9

    Kazi A Hossain, Lukasz Nierzwicki ... Giulia Palermo
    xCas9's ability to recognise diverse DNA sequences stems from structural flexibility in the protospacer adjacent motif (PAM)-interacting cleft and adaptability to PAM-induced conformational changes, paving the way for advanced genome editing tools.
    1. Biochemistry and Chemical Biology
    2. Chromosomes and Gene Expression

    Mediator kinase inhibition suppresses hyperactive interferon signaling in Down syndrome

    Kira A Cozzolino, Lynn Sanford ... Dylan J Taatjes
    The Mediator-associated kinases CDK8 and CDK19 help drive inflammatory responses to interferon, and it is discovered that kinase-dependent transcriptional responses manifest in part through splicing changes and lipid metabolites.
    1. Physics of Living Systems

    Impacts of Structural Properties of Myosin II Filaments on Force Generation

    Shihang Ding, Pei-En Chou ... Taeyoon Kim
    Not revised
    Reviewed Preprint v1
    • Useful
    • Convincing
    1. Neuroscience

    Interleukin-4 induces CD11c+ microglia leading to amelioration of neuropathic pain in mice

    Keita Kohno, Ryoji Shirasaka ... Makoto Tsuda
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Cell Biology
    2. Cancer Biology

    Intrinsic bioenergetic adaptations compensate for reduced mitochondrial content in HER2-driven mammary tumors

    Sara M Frangos, Henver S Brunetta ... Graham P Holloway
    Not revised
    Reviewed Preprint v1
    • Useful
    • Solid
    • Incomplete
    1. Neuroscience

    Orexin population activity precisely reflects net body movement across behavioral and metabolic states

    Alexander L Tesmer, Paulius Viskaitis ... Denis Burdakov
    Not revised
    Reviewed Preprint v1
    • Important
    • Incomplete
    1. Structural Biology and Molecular Biophysics

    Interpretable Protein-DNA Interactions Captured by Structure-Sequence Optimization

    Yafan Zhang, Irene Silvernail ... Xingcheng Lin
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Incomplete
    1. Neuroscience

    Mesoscale functional architecture in medial posterior parietal cortex

    Riichiro Hira, Leah B Townsend ... Spencer LaVere Smith
    Not revised
    Reviewed Preprint v1
    • Important
    • Compelling
    1. Cell Biology

    A ‘torn bag mechanism’ of small extracellular vesicle release via limiting membrane rupture of en bloc released amphisomes (amphiectosomes)

    Tamás Visnovitz, Dorina Lenzinger ... Edit I Buzas
    A novel 'torn bag mechanism' is described for the release of LC3 positive and negative small extracellular vesicles (exosomes) from amphiectosomes.
    Version of Record
    Short Report
    • Important
    • Compelling
    1. Stem Cells and Regenerative Medicine

    Il-6 signaling exacerbates hallmarks of chronic tendon disease by stimulating reparative fibroblasts

    Tino Stauber, Greta Moschini ... Jess G Snedeker
    IL-6 signaling drives fibroblast activation in tendinopathy, emerging as a promising therapeutic target for these increasingly prevalent and costly tendon conditions.
    1. Cell Biology

    Artesunate, EDTA, and colistin work synergistically against MCR-negative and -positive colistin-resistant Salmonella

    Yajun Zhai, Peiyi Liu ... Gongzheng Hu
    The combination therapy of colistin, artesunate, and EDTA could serve as a promising approach to combat colistin-resistant Salmonella infections by disrupting bacterial membranes, collapsing proton motive force, and increasing reactive oxygen species levels.
    1. Structural Biology and Molecular Biophysics

    Conformational changes, excess area, and elasticity of the Piezo protein-membrane nanodome from coarse-grained and atomistic simulations

    Sneha Dixit, Frank Noé, Thomas R Weikl
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    • Incomplete
    1. Cell Biology
    2. Stem Cells and Regenerative Medicine

    Spatial confinement induces reciprocating migration of epidermal keratinocytes and forms triphasic epithelia

    Takuma Nohara, Junichi Kumamoto ... Ken Natsuga
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Solid
    1. Cell Biology
    2. Microbiology and Infectious Disease

    Scrutinized lipid utilization disrupts Amphotericin-B responsiveness in clinical isolates of Leishmania donovani

    Supratim Pradhan, Dhruba Dhar ... Budhaditya Mukherjee
    Not revised
    Reviewed Preprint v1
    • Important
    • Incomplete
    1. Microbiology and Infectious Disease

    Multi-omics investigation of spontaneous T2DM macaque reveals gut microbiota promote T2DM by up-regulating the absorption of excess palmitic acid

    Xu Liu, Shengzhi Yang ... Jing Li
    Not revised
    Reviewed Preprint v1
    • Important
    • Incomplete
    1. Microbiology and Infectious Disease

    The Mycobacterium ulcerans toxin mycolactone causes destructive Sec61-dependent loss of the endothelial glycocalyx and vessel basement membrane to drive skin necrosis

    Louise Tzung-Harn Hsieh, Belinda S Hall ... Rachel E Simmonds
    The secreted toxin mycolactone has severe effects on the cells lining blood vessels that will play a critical role in the development of swelling in Buruli ulcer disease.
    1. Microbiology and Infectious Disease

    Akkermansia muciniphila identified as key strain to alleviate gut barrier injury through Wnt signaling pathway

    Xin Ma, Meng Li ... Xinyan Han
    FMT alleviated the intestinal barrier damage caused by enterotoxigenic Escherichia coli infection in antibiotic-induced microbiome-disordered model through increasing the relative abundance of A. muciniphila in the intestine.
    1. Structural Biology and Molecular Biophysics

    Molecular determinants of Neu5Ac binding to a tripartite ATP independent periplasmic (TRAP) transporter

    Parveen Goyal, KanagaVijayan Dhanabalan ... Subramanian Ramaswamy
    The first structure of a Neu5Ac bound Tripartite ATP-independent Periplasmic transporter (TRAP) reveals the presence of three ion binding sites.
    1. Microbiology and Infectious Disease

    Transcriptional antitermination integrates the expression of loci of diverse phage origin in the chimeric Bartonella Gene Transfer Agent BaGTA

    Aleksandr Korotaev, Quirin Niggli, Christoph Dehio
    Not revised
    Reviewed Preprint v1
    • Important
    • Solid
    1. Microbiology and Infectious Disease

    Complex system modelling reveals oxalate homeostasis is driven by diverse oxalate-degrading bacteria

    Sromona D Mukherjee, Carlos A Batagello ... Aaron W Miller
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Solid
    1. Medicine
    2. Microbiology and Infectious Disease

    HERV activation segregates ME/CFS from fibromyalgia while defining a novel nosologic entity

    Karen Giménez-Orenga, Eva Martín-Martínez ... Elisa Oltra
    Not revised
    Reviewed Preprint v1
    • Important
    • Compelling
    1. Microbiology and Infectious Disease

    Serial ‘deep-sampling’ PCR of fragmented DNA reveals the wide range of Trypanosoma cruzi burden among chronically infected hosts and allows accurate monitoring of parasite load following treatment

    Brooke E White, Carolyn L Hodo ... Rick L Tarleton
    Not revised
    Reviewed Preprint v1
    • Important
    • Solid
    1. Neuroscience

    Increased reluctant vesicles underlie synaptic depression by GPR55 in axon terminals of cerebellar Purkinje cells

    Takuma Inoshita, Shin-ya Kawaguchi
    Not revised
    Reviewed Preprint v1
    • Important
    • Compelling
    1. Cancer Biology

    Targeting SLC7A11-mediated cysteine metabolism for the treatment of trastuzumab resistant HER2 positive breast cancer

    Yijia Hua, Ningjun Duan ... Yongmei Yin
    Not revised
    Reviewed Preprint v1
    • Useful
    • Solid
    1. Neuroscience

    Cortical tracking of hierarchical rhythms orchestrates the multisensory processing of biological motion

    Li Shen, Shuo Li ... Yi Jiang
    Cortical tracking of multi-scale temporal structures supports audiovisual integration of human motion via distinct modes, with superadditive integration at higher-order timescale linked to biological motion processing and autistic traits.
    1. Genetics and Genomics

    Deterministic genetic barcoding for multiplexed behavioral and single-cell transcriptomic studies

    Jorge Blanco Mendana, Margaret Donovan ... Daryl M Gohl
    A method for genetically barcoding Drosophila is developed and used to tag defined cell populations in vivo for single-cell transcriptomics experiments and to enable multiplexed behavioral analysis.
    1. Immunology and Inflammation

    Microbiota from young mice counteracts susceptibility to age-related gout through modulating butyric acid levels in aged mice

    Ning Song, Hang Gao ... Wenlong Zhang
    Gut microbiota from young mice can alleviate gout and hyperuricemia in aged mice, further revealing that the metabolic product butyrate derived from the gut microbiota exerts similar therapeutic effects.
    1. Computational and Systems Biology

    A model-based factorization method for scRNA data unveils bifurcating transcriptional modules underlying cell fate determination

    Jun Ren, Ying Zhou ... Qiyuan Li
    A novel method for factorizing complex cellular trajectories into interpretable bifurcation processes enhances the understanding of cell fate determination through the identification of key biological determinants in scRNA-seq data.
    1. Neuroscience

    Early-life stress induces persistent astrocyte dysfunction associated with fear generalisation

    Mathias Guayasamin, Lewis R Depaauw-Holt ... Ciaran Murphy-Royal
    Amygdala astrocytes play a critical role in mediating the effects of stress during infancy on neuronal excitability, synaptic plasticity, and memory.
    1. Neuroscience

    Disruption of the CRF1 receptor eliminates morphine-induced sociability deficits and firing of oxytocinergic neurons in male mice

    Alessandro Piccin, Anne-Emilie Allain ... Angelo Contarino
    Both genetic and pharmacological studies reveal an essential role for the CRF1 receptor in social behavior deficits induced by a single morphine administration in male, but not in female, mice.
    1. Microbiology and Infectious Disease
    2. Epidemiology and Global Health

    Timely vaccine strain selection and genomic surveillance improves evolutionary forecast accuracy of seasonal influenza A/H3N2

    John Huddleston, Trevor Bedford
    Not revised
    Reviewed Preprint v1
    • Important
    • Solid
    1. Computational and Systems Biology
    2. Cancer Biology

    Drug combination prediction for cancer treatment using disease-specific drug response profiles and single-cell transcriptional signatures

    Daniel Osorio, Parastoo Shahrouzi ... Marieke L Kuijjer
    Not revised
    Reviewed Preprint v1
    • Important
    • Solid
    1. Cell Biology
    2. Genetics and Genomics

    The PRC2.1 subcomplex opposes G1 progression through regulation of CCND1 and CCND2

    Adam D Longhurst, Kyle Wang ... David P Toczyski
    An MTF2-containing subcomplex of Polycomb Repressive Complex 2 promotes cell cycle progression through repression of D-type cyclin expression in certain cellular contexts.
    1. Genetics and Genomics

    Intergenerational transport of double-stranded RNA in C. elegans can limit heritable epigenetic changes

    Nathan M Shugarts Devanapally, Aishwarya Sathya ... Antony M Jose
    Transport of double-stranded RNA from parental circulation to progeny using the transmembrane protein SID-1 can occur through multiple routes during C. elegans development and buffer heritable changes in gene expression.
    1. Immunology and Inflammation

    Re-programming of GM-CSF-dependent alveolar macrophages through GSK3 activity modulation

    Israel Ríos, Cristina Herrero ... Ángel L Corbí
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Developmental Biology
    2. Cancer Biology

    Dissecting infant leukemia developmental origins with a hemogenic gastruloid model

    Denise Ragusa, Chun-Wai Suen ... Cristina Pina
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Inadequate
    1. Neuroscience

    Biophysically inspired mean-field model of neuronal populations driven by ion exchange mechanisms

    Giovanni Rabuffo, Abhirup Bandyopadhyay ... Viktor K Jirsa
    Not revised
    Reviewed Preprint v1
    • Useful
    • Incomplete
    1. Evolutionary Biology

    Variations and predictability of epistasis on an intragenic fitness landscape

    Sarvesh Baheti, Namratha Raj, Supreet Saini
    Not revised
    Reviewed Preprint v1
    • Important
    • Inadequate
    1. Neuroscience

    A tight relationship between BOLD fMRI activation/deactivation and increase/decrease in single neuron responses in human association cortex

    Marie-Alphée Laurent, Corentin Jacques ... Bruno Rossion
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Compelling
    • Incomplete
    1. Neuroscience

    Blood pressure variability compromises vascular function in middle-aged mice

    Perenkita J Mendiola, Philip O’Herron ... Jessica A Filosa
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Neuroscience

    Mapping the topographic organization of the human zona incerta using diffusion MRI

    Roy AM Haast, Jason Kai ... Jonathan C Lau
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Neuroscience

    How relevant is the prior? Bayesian causal inference for dynamic perception in volatile environments

    David Meijer, Roberto Barumerli, Robert Baumgartner
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Solid
    1. Cell Biology

    DNA/polysome phase separation and cell width confinement couple nucleoid segregation to cell growth in Escherichia coli

    Alexandros Papagiannakis, Qiwei Yu ... Christine Jacobs-Wagner
    Not revised
    Reviewed Preprint v1
    • Important
    • Compelling
    1. Developmental Biology
    2. Evolutionary Biology

    Single-cell sequencing provides clues about the developmental genetic basis of evolutionary adaptations in syngnathid fishes

    Hope M Healey, Hayden B Penn ... William A Cresko
    The production of a single-cell atlas for developing syngnathid fish permits study of their unique traits.
    1. Developmental Biology
    2. Neuroscience

    Volumetric trans-scale imaging of massive quantity of heterogeneous cell populations in centimeter-wide tissue and embryo

    Taro Ichimura, Taishi Kakizuka ... Takeharu Nagai
    Volumetric trans-scale imaging with a subcellular resolution across a wide field-of-view of 1.5 × 1.0 cm2 has been realized, facilitating the analysis of cellular dynamics during embryogenesis and brain function.
    1. Neuroscience

    Dendritic growth and synaptic organization from activity-independent cues and local activity-dependent plasticity

    Jan H Kirchner, Lucas Euler ... Julijana Gjorgjieva
    A mechanistic model based on the interaction of activity-independent cues from potential synaptic partners and local activity-dependent synaptic plasticity generates growing dendritic morphologies and non-random synaptic organization during development.
    1. Evolutionary Biology
    2. Genetics and Genomics

    Template switching during DNA replication is a prevalent source of adaptive gene amplification

    Julie N Chuong, Nadav Ben Nun ... David Gresham
    Template switching during DNA replication is a frequent source of adaptive gene amplification.
    1. Neuroscience

    An emerging view of neural geometry in motor cortex supports high-performance decoding

    Sean M Perkins, Elom A Amematsro ... Mark M Churchland
    Neural activity in motor cortex displays unexpected properties, making it possible to accurately decode behavior using a straightforward and interpretable approach.
    1. Neuroscience

    Live imaging of excitable axonal microdomains in ankyrin-G-GFP mice

    Christian Thome, Jan Maximilian Janssen ... Maren Engelhardt
    With the new Ankyrin-G-GFP reporter line, researchers can visualize and study neuronal compartments critical for signal transduction without affecting neuronal activity and subcellular integrity of the cells under investigation.

Magazine

  1. Episode 97: February 2025

    1. Biochemistry and Chemical Biology
    2. Neuroscience

    Neurodegeneration: A role for RNA knots in Alzheimer’s disease

    Silvia Galli, Marco Di Antonio
    1. Developmental Biology

    Morphogenesis: Fluid transport comes to the fore

    Yufei Wu, Sean X Sun
    1. Developmental Biology
    2. Neuroscience

    Axon Guidance: Watching axons on the move

    Maria I Lazaro-Pena, Carlos A Diaz-Balzac
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    Drug Discovery: How to exploit the recycling system of a cell

    Sasha L Evans, Bethany A Haynes ... Rivka L Isaacson

  6. Point of View: To be, or not to be, part-time in academia

    Sinead English, M Emília Santos ... Nina F Ockendon-Powell
    1. Cell Biology

    Beta Cells: Opportunity makes a hub or a leader

    Marjan Slak Rupnik
    1. Evolutionary Biology
    2. Neuroscience

    Vision: The inner workings of a miniature eye

    Gregor Belušič