August 2024

Cover articles

    1. Developmental Biology
    2. Neuroscience

    Impacts of mild head trauma

    Changtian Ye, Ryan Ho ... James Q Zheng
    1. Cancer Biology

    Autophagy, KRAS signalling and lung cancer

    Phaedra C Ghazi, Kayla T O'Toole ... Martin McMahon
    1. Cell Biology
    2. Neuroscience

    Closing in on ultrastructure

    Georg Kislinger, Gunar Fabig ... Martina Schifferer
    1. Immunology and Inflammation
    2. Microbiology and Infectious Disease

    How bacterial ATP shapes sepsis

    Daniel Spari, Annina Schmid ... Guido Beldi

Highlights controls:

Research articles

    1. Ecology
    2. Evolutionary Biology

    An illusion of a macroecological law, abundance-occupancy relationships

    Shinichi Nakagawa, William K Cornwell, Corey T Callaghan
    Not revised
    Reviewed Preprint v1
    1. Computational and Systems Biology
    2. Structural Biology and Molecular Biophysics

    MDverse, shedding light on the dark matter of molecular dynamics simulations

    Johanna KS Tiemann, Magdalena Szczuka ... Pierre Poulain
    Identifying, indexing, and annotating molecular dynamics simulations open data is essential to ensure their proper reuse.
    1. Cancer Biology

    Inhibition of ULK1/2 and KRASG12C controls tumor growth in preclinical models of lung cancer

    Phaedra C Ghazi, Kayla T O'Toole ... Martin McMahon
    Inhibiting KRASG12C and ULK-mediated autophagy is a novel treatment strategy to control the growth of KRASG12C-driven lung cancer in preclinical models of lung cancer.
    1. Developmental Biology
    2. Neuroscience

    Adverse impact of female reproductive signaling on age-dependent neurodegeneration after mild head trauma in Drosophila

    Changtian Ye, Ryan Ho ... James Q Zheng
    A head concussion model in fruit flies reveals that early-life exposure to mild concussions significantly increases the risk of late-life neurodegeneration, with females especially vulnerable due to reproductive factors.
    1. Immunology and Inflammation

    Defining cell type-specific immune responses in a mouse model of allergic contact dermatitis by single-cell transcriptomics

    Youxi Liu, Meimei Yin ... Ling-juan Zhang
    Dermal preadipocytes produce T cell chemokines in response to IFNγ, driving the recruitment and activation of type 1 effector T cells in allergic contact dermatitis.
    1. Neuroscience

    Quantitative modeling of the emergence of macroscopic grid-like representations

    Ikhwan Bin Khalid, Eric T Reifenstein ... Richard Kempter
    A computational study quantifies how macroscopic grid-like representations may emerge in the human brain using different hypotheses and navigation patterns, indicating the need to further characterize properties of grid cells.
    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
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Glia control experience-dependent plasticity in an olfactory critical period

    Hans C Leier, Alexander J Foden ... Heather T Broihier
    Not revised
    Reviewed Preprint v1
    1. Physics of Living Systems

    Escape problem of magnetotactic bacteria - physiological magnetic field strength help magnetotactic bacteria navigate in simulated sediments

    Agnese Codutti, Mohammad A Charsooghi ... Stefan Klumpp
    Not revised
    Reviewed Preprint v1
    1. Microbiology and Infectious Disease
    2. Epidemiology and Global Health

    Persistent cross-species transmission systems dominate Shiga toxin-producing Escherichia coli O157:H7 epidemiology in a high incidence region: a genomic epidemiology study

    Gillian AM Tarr, Linda Chui ... Tim A McAllister
    Not revised
    Reviewed Preprint v1
    1. Biochemistry and Chemical Biology
    2. Neuroscience

    Biochemical and neurophysiological effects of deficiency of the mitochondrial import protein TIMM50

    Eyal Paz, Sahil Jain ... Abdussalam Azem
    Revised
    Reviewed Preprint v2
    1. Microbiology and Infectious Disease
    2. Physics of Living Systems

    Long-distance electron transport in multicellular freshwater cable bacteria

    Tingting Yang, Marko S Chavez ... Mohamed Y El-Naggar
    A biophysical approach sheds light on the electron transport physics and electric metabolism of centimeter-long filamentous freshwater cable bacteria.
    1. Microbiology and Infectious Disease

    Divergent downstream biosynthetic pathways are supported by L-cysteine synthases of Mycobacterium tuberculosis

    Mehak Zahoor Khan, Debbie M Hunt ... Vinay Kumar Nandicoori
    CysM and CysK2 play complementary and overlapping roles in Mtb's adaptation to environmental stress that are crucial for survival.
    1. Medicine

    PKR activation-induced mitochondrial dysfunction in HIV-transgenic mice with nephropathy

    Teruhiko Yoshida, Khun Zaw Latt ... Jeffrey B Kopp
    Single-nuclear transcriptomic profiling and functional assays identified PKR activation and mitochondrial dysfunction in HIV-associated nephropathy mice kidneys.
    1. Cell Biology

    Damage-induced basal epithelial cell migration modulates the spatial organization of redox signaling and sensory neuron regeneration

    Alexandra M Fister, Adam Horn ... Anna Huttenlocher
    Isotonic treatment limits keratinocyte movement, spatially restricts reactive oxygen species production, and rescues sensory neuron function after thermal injury.
    1. Neuroscience

    Opposing actions of co-released GABA and neurotensin on the activity of preoptic neurons and on body temperature

    Iustin V Tabarean
    Preoptic neurotensinergic neurons co-release GABA and neurotensin, triggering a rapid initial inhibition followed by a sustained excitation, and mice lacking GABA release from these neurons exhibit altered thermoregulation.
    1. Cell Biology

    TRIP13 localizes to synapsed chromosomes and functions as a dosage-sensitive regulator of meiosis

    Jessica Y Chotiner, N Adrian Leu ... P Jeremy Wang
    Mouse TRIP13 localizes to synapsed chromosomal axes and thus exhibits mutually exclusive localization with HORMAD1/HORMAD2, providing a cell biological explanation for dissociation of HORMAD1/2 from chromosomal axes upon synapsis.
    1. Cell Biology

    Detection of TurboID fusion proteins by fluorescent streptavidin outcompetes antibody signals and visualises targets not accessible to antibodies

    Johanna Odenwald, Bernardo Gabiatti ... Susanne Kramer
    Proteins that are low abundant and/or poorly accessible to antibodies can be readily localised with fluorescent streptavidin, when expressed fused to a biotin ligase.
    1. Microbiology and Infectious Disease

    Polysaccharides induce deep-sea Lentisphaerae strains to release chronic bacteriophages

    Chong Wang, Rikuan Zheng ... Chaomin Sun
    Chronic bacteriophages are induced by the supplement of polysaccharide in the deep-sea Lentisphaerae strains, and these bacteriophages potentially reprogram host polysaccharide metabolism through the auxiliary metabolic genes.
    1. Neuroscience

    The inevitability and superfluousness of cell types in spatial cognition

    Xiaoliang Luo, Robert M Mok, Bradley C Love
    Not revised
    Reviewed Preprint v1
    1. Stem Cells and Regenerative Medicine

    Müller glia cell cycle re-activation by simultaneous cyclin D1 overexpression and p27kip1 knockdown promotes retinal regeneration in mice

    Zhifei Wu, Baoshan Liao ... Wenjun Xiong
    Not revised
    Reviewed Preprint v1
    1. Cell Biology
    2. Neuroscience

    Glutamine catabolism supports amino acid biosynthesis and suppresses the integrated stress response to promote photoreceptor survival

    Moloy T Goswami, Eric Weh ... Thomas J Wubben
    Not revised
    Reviewed Preprint v1
    1. Epidemiology and Global Health
    2. Evolutionary Biology

    Recent evolutionary origin and localized diversity hotspots of mammalian coronaviruses

    Renan Maestri, Benoît Perez-Lamarque ... Hélène Morlon
    The common ancestor of extant mammalian coronaviruses originated recently in a bat species and their diversification occurred via preferential host switches rather than through codiversification with mammals.
    1. Structural Biology and Molecular Biophysics

    On the pH-dependence of α-synuclein amyloid polymorphism and the role of secondary nucleation in seed-based amyloid propagation

    Lukas Frey, Dhiman Ghosh ... Jason Greenwald
    The amyloid polymorph selection that occurs during α-synuclein aggregation is dictated by environmental conditions, in particular pH, with the largest variety of structures being observed near neutral pH.
    1. Neuroscience

    Sex-dependent, lateralized engagement of anterior insular cortex inputs to the dorsolateral striatum in binge alcohol drinking

    David L Haggerty, Brady K Atwood
    Engagement of anterior insular cortex projections to the dorsolateral striatum underpins sex-differences in binge alcohol consumption behaviors.
    1. Biochemistry and Chemical Biology

    Senescent cells inhibit mouse myoblast differentiation via the SASP-lipid 15d-PGJ2 mediated modification and control of HRas

    Swarang Sachin Pundlik, Alok Barik ... Arvind Ramanathan
    Senescent cells release an arachidonic acid-derived electrophilic oxylipin that inhibits myoblast differentiation by covalent modification and activation of HRas.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    Structure of the human heparan-α-glucosaminide N-acetyltransferase (HGSNAT)

    Vikas Navratna, Arvind Kumar ... Shyamal Mosalaganti
    First high-resolution structure of HGSNAT-acetyl-CoA complex, that describes the architecture of a novel transmembrane N-acetyltransferase fold and provides a molecular basis for MPS IIIC causing mutation induced destabilization of HGSNAT.
    1. Neuroscience

    Dynamic control of sequential retrieval speed in networks with heterogeneous learning rules

    Maxwell Gillett, Nicolas Brunel
    Low-dimensional external inputs are sufficient to control the speed of sequential activity, and to transition between persistent activity, in a network of neurons with both temporally symmetric and asymmetric learning.
    1. Cancer Biology
    2. Medicine

    Insights into metabolic heterogeneity of colorectal cancer gained from fluorescence lifetime imaging

    Anastasia D Komarova, Snezhana D Sinyushkina ... Marina V Shirmanova
    The level of heterogeneity of cellular energy metabolism increases with model complexity and is the highest in patients' tumors, which can be observed and quantified using FLIM of NAD(P)H.
    1. Neuroscience

    Differential increase of hippocampal subfield volume after socio-affective mental training relates to reductions in diurnal cortisol

    Sofie Louise Valk, Veronika Engert ... Tania Singer
    Socio-emotional behavioral intervention links to changes in the structure and function of hippocampal subfields, in particular CA1-3, and reductions in cortisol levels in healthy adults.
    1. Neuroscience

    Feedback inhibition by a descending GABAergic neuron regulates timing of escape behavior in Drosophila larvae

    Jiayi Zhu, Jean-Christophe Boivin ... Tomoko Ohyama
    Connectomic, optogenetic, and high-throughput behavioral analyses identify a descending neuron in the fruit fly larval brain that modifies the timing of nociception-induced rolling.
    1. Cell Biology

    Botulinum toxin intoxication requires retrograde transport and membrane translocation at the ER in RenVM neurons

    Jeremy C Yeo, Felicia P Tay ... Frederic Bard
    BoNT intoxication of neurons is revisited using a genome-wide siRNA screen and organelle-specific reporters, suggesting a mechanism of translocation to the cytosol fundamentally different than previously proposed.
    1. Immunology and Inflammation
    2. Microbiology and Infectious Disease

    CCL28 modulates neutrophil responses during infection with mucosal pathogens

    Gregory T Walker, Araceli Perez-Lopez ... Manuela Raffatellu
    Chemokine CCL28 plays a key role in shaping neutrophil responses during intestinal Salmonella infection and lung Acinetobacter infection.
    1. Genetics and Genomics
    2. Computational and Systems Biology

    Massively Parallel Polyribosome Profiling Reveals Translation Defects of Human Disease-Relevant UTR Mutations

    Wei-Ping Li, Jia-Ying Su ... Chien-Ling Lin
    Not revised
    Reviewed Preprint v1
    1. Neuroscience
    2. Stem Cells and Regenerative Medicine

    Directed differentiation of functional corticospinal-like neurons from endogenous SOX6+/NG2+ cortical progenitors

    Abdulkadir Ozkan, Hari K Padmanabhan ... Jeffrey D Macklis
    Not revised
    Reviewed Preprint v1
    1. Medicine

    Different treatment durations of loperamide in preventing pyrotinib-induced diarrhea: A randomized, parallel-group sub-study of the phase II PHAEDRA trial

    Changjun Wang, Yan Lin ... Qiang Sun
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Spatiotemporal brain complexity quantifies consciousness outside of perturbation paradigms

    Martin Breyton, Jan Fousek ... Viktor Jirsa
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Neural dynamics of visual working memory representation during sensory distraction

    Jonas Karolis Degutis, Simon Weber ... John-Dylan Haynes
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Spatial localization of hippocampal replay requires dopamine signaling

    Matthew R Kleinman, David J Foster
    Not revised
    Reviewed Preprint v1
    1. Neuroscience
    2. Computational and Systems Biology

    Sensorimotor delays constrain robust locomotion in a 3D kinematic model of fly walking

    Lili Karashchuk, Jing Shuang (Lisa) Li ... Bingni W Brunton
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Micro-Scale Control of Oligodendrocyte Morphology and Myelination by the Intellectual Disability-Linked Protein Acyltransferase ZDHHC9

    Hey-Kyeong Jeong, Estibaliz Gonzalez-Fernandez ... Gareth M Thomas
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Structure transfer and consolidation in visual implicit learning

    Dominik Garber, József Fiser
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Aberrant Auditory Prediction Patterns Robustly Characterize Tinnitus

    Lisa Reisinger, Gianpaolo Demarchi ... Nathan Weisz
    Not revised
    Reviewed Preprint v1
    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
    Not revised
    Reviewed Preprint v1
    1. Genetics and Genomics

    Deficiency in a special dynein DNAH12 causes male infertility by impairing DNAH1 and DNALI1 recruitment in humans and mice

    Menglei Yang, Hafiz Muhammad Jafar Hussain ... Baolu Shi
    Not revised
    Reviewed Preprint v1
    1. Developmental Biology
    2. Stem Cells and Regenerative Medicine

    The Drosophila hematopoietic niche assembles through collective cell migration controlled by neighbor tissues and Slit-Robo signaling

    Kara A Nelson, Kari F Lenhart ... Stephen DiNardo
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    A peptide-neurotensin conjugate that crosses the blood-brain barrier induces pharmacological hypothermia associated with anticonvulsant, neuroprotective and anti-inflammatory properties following status epilepticus in mice

    Lotfi Ferhat, Rabia Soussi ... Michel Khrestchatisky
    Revised
    Reviewed Preprint v3
    1. Biochemistry and Chemical Biology
    2. Microbiology and Infectious Disease

    Malaria parasites require a divergent heme oxygenase for apicoplast gene expression and biogenesis

    Amanda Mixon Blackwell, Yasaman Jami-Alahmadi ... Paul A Sigala
    Revised
    Reviewed Preprint v2
    1. Genetics and Genomics
    2. Microbiology and Infectious Disease

    Transposon mutagenesis screen in Klebsiella pneumoniae identifies genetic determinants required for growth in human urine and serum

    Jessica Gray, Von Vergel L Torres ... Ian R Henderson
    Klebsiella pneumoniae has specific repertoires of genes required for growth in urine and serum, highlighting new targets for antimicrobial treatments of this important pathogen.
    1. Neuroscience

    Auditory confounds can drive online effects of transcranial ultrasonic stimulation in humans

    Benjamin R Kop, Yazan Shamli Oghli ... Lennart Verhagen
    Realizing the clinical and neuroscientific potential of transcranial ultrasonic stimulation (TUS) requires careful control of the peripheral auditory confounds that underlie previously reported online motor inhibitory effects.
    1. Medicine
    2. Neuroscience

    Interrogating basal ganglia circuit function in people with Parkinson’s disease and dystonia

    Srdjan Sumarac, Kiah A Spencer ... Luka Milosevic
    The hypo- versus hyperkinetic nature of Parkinson’s disease and dystonia, respectively, may be reflected by differences in disease-specific spiketrain dynamics and striato-pallidal synaptic plasticity.
    1. Medicine

    Serum proteomic profiling of physical activity reveals CD300LG as a novel exerkine with a potential causal link to glucose homeostasis

    Sindre Lee-Ødegård, Marit Hjorth ... Kåre Inge Birkeland
    Long-term physical exercise had a substantial effect on the plasma proteome, identifying novel exerkines and suggesting CD300LG as a potential link to insulin sensitivity.
    1. Stem Cells and Regenerative Medicine

    Epigenetic insights into GABAergic development in Dravet Syndrome iPSC and therapeutic implications

    Jens Schuster, Xi Lu ... Xingqi Chen
    Analyses of epigenetic profiles using ATAC-seq provide a comprehensive investigation of the chromatin landscape in hampered GABAergic differentiation in a DS-patient iPSC-derived disease model.
    1. Genetics and Genomics
    2. Microbiology and Infectious Disease

    A single-cell atlas of the miracidium larva of Schistosoma mansoni reveals cell types, developmental pathways, and tissue architecture

    Teresa Attenborough, Kate A Rawlinson ... Matthew Berriman
    A comprehensive description of gene expression and organisation in the cells that constitute the blood fluke larvae responsible for finding and invading its intermediate host.
    1. Microbiology and Infectious Disease

    Hosts manipulate lifestyle switch and pathogenicity heterogeneity of opportunistic pathogens in the single-cell resolution

    Ziguang Wang, Shuai Li ... Wei Liu
    The host acts as an important factor to control the phenotypic heterogeneity of individual symbionts.
    1. Cell Biology
    2. Structural Biology and Molecular Biophysics

    Insulator-based dielectrophoresis-assisted separation of insulin secretory vesicles

    Mahta Barekatain, Yameng Liu ... Mark A Hayes
    An unbiased separation method reveals distinct subpopulations of insulin secretory vesicles that undergo dynamic remodeling upon glucose stimulation.
    1. Cancer Biology
    2. Epidemiology and Global Health

    Disentangling the relationship between cancer mortality and COVID-19 in the US

    Chelsea L Hansen, Cécile Viboud, Lone Simonsen
    The competing mortality risk from cancer itself overshadows any increase in COVID-19 mortality risk due to cancer.
    1. Developmental Biology
    2. Stem Cells and Regenerative Medicine

    Single-cell RNA sequencing of the holothurian regenerating intestine reveals the pluripotency of the coelomic epithelium

    Joshua G Medina-Feliciano, Griselle Valentín-Tirado ... José E García-Arrarás
    Not revised
    Reviewed Preprint v1
    1. Neuroscience
    2. Stem Cells and Regenerative Medicine

    Endothelin B receptor inhibition rescues aging-dependent neuronal regenerative decline

    Rui Feng, Sarah F Rosen ... Valeria Cavalli
    Not revised
    Reviewed Preprint v1
    1. Cancer Biology
    2. Chromosomes and Gene Expression

    Association with TFIIIC limits MYCN localisation in hubs of active promoters and chromatin accumulation of non-phosphorylated RNA polymerase II

    Raphael Vidal, Eoin Leen ... Gabriele Büchel
    MYCN and TFIIIC exert a censoring function during early transcription, limiting the accumulation of inactive RNAPII at the promoter and facilitating promoter-proximal degradation of nascent RNA.
    1. Developmental Biology
    2. Genetics and Genomics

    The role of heterochronic gene expression and regulatory architecture in early developmental divergence

    Nathan D Harry, Christina Zakas
    Changes in the amount and timing of gene expression during early development contribute to evolutionary divergence and life-history changes, even within a species.
    1. Medicine

    Drosophila model to clarify the pathological significance of OPA1 in autosomal dominant optic atrophy

    Yohei Nitta, Jiro Osaka ... Atsushi Sugie
    Dominant optic atrophy (DOA) and DOA plus mutations' effects on optic nerve degeneration distinguished in a novel Drosophila model.
    1. Microbiology and Infectious Disease

    Inhibitors of the small membrane (M) protein viroporin prevent Zika virus infection

    Emma Brown, Gemma Swinscoe ... Stephen Griffin
    A new way to treat Zika virus infections could be achieved following the definition of an ion channel function for the M protein within virus particles.
    1. Developmental Biology

    Redistribution of fragmented mitochondria ensure symmetric organelle partitioning and faithful chromosome segregation in mitotic mouse zygotes

    Haruna Gekko, Ruri Nomura ... Takuya Wakai
    Not revised
    Reviewed Preprint v1
    1. Developmental Biology

    Impaired yolk sac NAD metabolism disrupts murine embryogenesis with relevance to human birth defects

    Kayleigh Bozon, Hartmut Cuny ... Sally L Dunwoodie
    Not revised
    Reviewed Preprint v1
    1. Medicine
    2. Neuroscience

    The effect of transcutaneous auricular vagus nerve stimulation on cardiovascular function in subarachnoid hemorrhage patients: a safety study

    Gansheng Tan, Anna L Huguenard ... Eric C Leuthardt
    Not revised
    Reviewed Preprint v1
    1. Cell Biology
    2. Neuroscience

    Zebrafish live imaging reveals only around 2% rather than 50% of motor neurons die through apoptosis during development

    Hao Jia, Hongmei Yang, Kathy Qian Luo
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Activity-dependent lateral inhibition enables ensemble synchronization of odor-activated neurons in the olfactory bulb

    Tal Dalal, Rafi Haddad
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    μGUIDE: a framework for quantitative imaging via generalized uncertainty-driven inference using deep learning

    Maeliss Jallais, Marco Palombo
    Revised
    Reviewed Preprint v2
    1. Microbiology and Infectious Disease

    Telomerase RNA component knockout exacerbates S. aureus pneumonia by extensive inflammation and dysfunction of T cells

    Yasmina Reisser, Franziska Hornung ... Stefanie Deinhardt-Emmer
    Revised
    Reviewed Preprint v2
    1. Genetics and Genomics
    2. Cancer Biology

    Recurrent disruption of tumour suppressor genes in cancer by somatic mutations in cleavage and polyadenylation signals

    Yaroslav Kainov, Fursham Hamid, Eugene V Makeyev
    Revised
    Reviewed Preprint v2
    1. Neuroscience

    A ‘double-edged’ role for type-5 metabotropic glutamate receptors in pain disclosed by light-sensitive drugs

    Serena Notartomaso, Nico Antenucci ... Volker Neugebauer
    Photopharmacological manipulations of mGlu5 receptors with light-sensitive negative allosteric modulators show brain region-specific roles in pain modulation and suggest that blockade of mGlu5 receptors in the amygdala may limit the overall analgesic activity of mGlu5 receptor antagonists.
    1. Neuroscience

    Task-specific invariant representation in auditory cortex

    Charles R Heller, Gregory R Hamersky, Stephen V David
    Engagement in auditory detection task leads to selective enhancement of task relevant information by neural populations in higher order auditory cortex.
    1. Epidemiology and Global Health

    Associations of age at diagnosis of breast cancer with incident myocardial infarction and heart failure: A prospective cohort study

    Jie Liang, Yang Pan ... Fanfan Zheng
    Younger age at diagnosis of breast cancer was associated with higher risks of incident myocardial infarction and heart failure.
    1. Developmental Biology
    2. Genetics and Genomics

    sisterless A is required for activation of Sex lethal in the Drosophila germline

    Raghav Goyal, Ellen Baxter, Mark Van Doren
    Not revised
    Reviewed Preprint v1
    1. Cell Biology

    SARS-CoV-2 NSP13 interacts with TEAD to suppress Hippo-YAP signaling

    Fansen Meng, Jong Hwan Kim ... James F Martin
    Not revised
    Reviewed Preprint v1
    1. Genetics and Genomics

    Irreproducibility of transgenerational learned pathogen-aversion response in C. elegans

    D Patrick Gainey, Andrey V Shubin, Craig P Hunter
    Not revised
    Reviewed Preprint v1
    1. Cell Biology
    2. Developmental Biology

    H2A.Z deposition at meiotic prophase I underlies homologous recombination and pachytene genome activation during male meiosis

    Shenfei Sun, Yamei Jiang ... Xinhua Lin
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Brain-wide arousal signals are segregated from movement planning in the superior colliculus

    Richard Johnston, Matthew A Smith
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Bridging verbal coordination and neural dynamics

    Isaïh Schwab-Mohamed, Manuel R Mercier ... Daniele Schön
    Not revised
    Reviewed Preprint v1
    1. Developmental Biology

    The evolutionary modifications of a GoLoco motif in the AGS protein facilitate micromere formation in the sea urchin embryo

    Natsuko Emura, Florence DM Wavreil ... Mamiko Yajima
    Not revised
    Reviewed Preprint v1
    1. Computational and Systems Biology

    MGPfactXMBD: A Model-Based Factorization Method for scRNA Data Unveils Bifurcating Transcriptional Modules Underlying Cell Fate Determination

    Jun Ren, Ying Zhou ... Qiyuan Li
    Not revised
    Reviewed Preprint v1
    1. Structural Biology and Molecular Biophysics

    Distinct Activation Mechanisms of CXCR4 and ACKR3 Revealed by Single-Molecule Analysis of their Conformational Landscapes

    Christopher T Schafer, Raymond F Pauszek ... David P Millar
    Not revised
    Reviewed Preprint v1
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    Allosteric inhibition of trypanosomatid pyruvate kinases by a camelid single-domain antibody

    Joar Esteban Pinto Torres, Mathieu Claes ... Yann G.-J Sterckx
    Not revised
    Reviewed Preprint v1
    1. Cancer Biology

    Deuterium Metabolic Imaging Phenotypes Mouse Glioblastoma Heterogeneity Through Glucose Turnover Kinetics

    Rui V Simões, Rafael N Henriques ... Noam Shemesh
    Not revised
    Reviewed Preprint v1
    1. Microbiology and Infectious Disease

    Spatial integration of sensory input and motor output in Pseudomonas aeruginosa chemotaxis through colocalized distribution

    Zhengyu Wu, Maojin Tian ... Junhua Yuan
    Not revised
    Reviewed Preprint v1
    1. Ecology

    Near infrared radiation-driven oxygenic photosynthesis contributes substantially to primary production in biofilms harboring chlorophyll f-containing cyanobacteria

    Maria Mosshammer, Erik CL Trampe ... Michael Kühl
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Re-focusing visual working memory during expected and unexpected memory tests

    Sisi Wang, Freek van Ede
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    An applicable and efficient retrograde monosynaptic circuit mapping tool for larval zebrafish

    Tian-Lun Chen, Qiu-Sui Deng ... Xu-Fei Du
    Not revised
    Reviewed Preprint v1
    1. Computational and Systems Biology

    Pseudo-grading of tumor subpopulations from single-cell transcriptomic data using Phenotype Algebra

    Namrata Bhattacharya, Anja Rockstroh ... Debarka Sengupta
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Cone bipolar cell synapses generate transient versus sustained signals in parallel ON pathways of the mouse retina

    Sidney P Kuo, Wan-Qing Yu ... Fred Rieke
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Accelerated spike-triggered non-negative matrix factorization reveals coordinated ganglion cell subunit mosaics in the primate retina

    Sören J Zapp, Mohammad H Khani ... Tim Gollisch
    Not revised
    Reviewed Preprint v1
    1. Genetics and Genomics
    2. Evolutionary Biology

    The paradox of extremely fast evolution driven by genetic drift in multi-copy gene systems

    Xiaopei Wang, Yongsen Ruan ... Haijun Wen
    Revised
    Reviewed Preprint v2
    1. Chromosomes and Gene Expression

    Target-specific requirements for RNA interference can arise through restricted RNA amplification despite the lack of specialized pathways

    Daphne R Knudsen-Palmer, Pravrutha Raman ... Antony M Jose
    Experimental results and computational modeling reveal many factors that influence if a gene can be efficiently silenced using RNA interference.
    1. Neuroscience
    2. Stem Cells and Regenerative Medicine

    Circulating platelets modulate oligodendrocyte progenitor cell differentiation during remyelination

    Amber R Philp, Carolina R Reyes ... Francisco J Rivera
    Transient platelet accumulation supports oligodendrocyte progenitor cell differentiation during myelin repair, while sustained exposure to elevated platelet numbers hampers the generation of remyelinating cells.
    1. Biochemistry and Chemical Biology

    Discovery of the 1-naphthylamine biodegradation pathway reveals a broad-substrate-spectrum enzyme catalyzing 1-naphthylamine glutamylation

    Shu-Ting Zhang, Shi-Kai Deng ... Ning-Yi Zhou
    Elucidating the 1-naphthylamine degradation pathway in Pseudomonas sp. strain JS3066 and analyzing the catalytic mechanism of the 1-naphthylamine glutamine synthetase deepens the understanding of microbial degradation of polycyclic aromatic amines.
    1. Developmental Biology

    FBXO24 deletion causes abnormal accumulation of membraneless electron-dense granules in sperm flagella and male infertility

    Yuki Kaneda, Haruhiko Miyata ... Masahito Ikawa
    FBXO24, a testis-enriched E3 ubiquitin ligase, is essential for sperm flagellum formation and male fertility in mice.
    1. Computational and Systems Biology
    2. Neuroscience

    Neural population dynamics underlying evidence accumulation in multiple rat brain regions

    Brian DePasquale, Carlos D Brody, Jonathan W Pillow
    1. Immunology and Inflammation
    2. Microbiology and Infectious Disease

    Released bacterial ATP shapes local and systemic inflammation during abdominal sepsis

    Daniel Spari, Annina Schmid ... Guido Beldi
    Bacteria release ATP as part of their attack in sepsis.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    Genetic code expansion, click chemistry, and light-activated PI3K reveal details of membrane protein trafficking downstream of receptor tyrosine kinases

    Duk-Su Koh, Anastasiia Stratiievska ... Sharona E Gordon
    The generation of phosphoinositide 3,4,5-trisphosphate causes an increase in the number of TRPV1 ion channels and insulin receptors in the plasma membrane.
    1. Cell Biology
    2. Physics of Living Systems

    Stochastic tug-of-war among sarcomeres mediates cardiomyocyte response to environmental stiffness

    Daniel Haertter, Lara Hauke ... Christoph F Schmidt
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Neural basis of cognitive control signals in anterior cingulate cortex during delay discounting

    Jeremy K Seamans, Shelby White ... Christopher C Lapish
    Not revised
    Reviewed Preprint v1
    1. Plant Biology

    Systems genomics of salinity stress response in rice

    Sonal Gupta, Simon C Groen ... Michael D Purugganan
    Not revised
    Reviewed Preprint v1
    1. Immunology and Inflammation

    RAG suppresses group 2 innate lymphoid cells

    Aaron M Ver Heul, Madison Mack ... Brian S Kim
    Not revised
    Reviewed Preprint v1
    1. Genetics and Genomics

    Genome-wide analysis of Smad and Schnurri transcription factors in C. elegans demonstrates widespread interaction and a function in collagen secretion

    Mehul Vora, Jonathan Dietz ... Cathy Savage-Dunn
    Not revised
    Reviewed Preprint v1
    1. Developmental Biology
    2. Neuroscience

    A human forebrain organoid model reveals the essential function of GTF2IRD1-TTR-ERK axis for the neurodevelopmental deficits of Williams Syndrome

    Xingsen Zhao, Qihang Sun ... Xuekun Li
    Not revised
    Reviewed Preprint v1
    1. Chromosomes and Gene Expression

    Artificially inserted strong promoter containing multiple G-quadruplexes induces long-range chromatin modification

    Shuvra Shekhar Roy, Sulochana Bagri ... Shantanu Chowdhury
    Non-duplex DNA structures induce distant chromatin-chromatin interactions and gene activation over long distances.
    1. Immunology and Inflammation

    Fam49b dampens TCR signal strength to regulate survival of positively selected thymocytes and peripheral T cells

    Chan-Su Park, Jian Guan ... Scheherazade Sadegh-Nasseri
    Fam49b is a critical regulator of selection process to ensure normal thymocyte development and peripheral T cells survival.
    1. Cell Biology
    2. Neuroscience

    Iron-sulfur cluster loss in mitochondrial CISD1 mediates PINK1 loss-of-function phenotypes

    Sara Bitar, Timo Baumann ... Axel Methner
    PINK1 deficiency in Parkinson's disease models causes toxic oxidized and iron-depleted CISD1 yet CISD1 removal benefits PINK1 mutant Drosophila indicating its potential as a therapeutic target for mitochondrial dysfunction and neurodegeneration.
    1. Structural Biology and Molecular Biophysics

    Decoupling of the onset of anharmonicity between a protein and its surface water around 200 K

    Lirong Zheng, Bingxin Zhou ... Liang Hong
    The dynamical transition between a protein and its surface water is decoupled.
    1. Developmental Biology
    2. Neuroscience

    Multiple guidance mechanisms control axon growth to generate precise T-shaped bifurcation during dorsal funiculus development in the spinal cord

    Bridget M Curran, Kelsey R Nickerson ... Le Ma
    Formation of dorsal axonal tracts in the spinal cord depends on multiple guidance mechanisms that control growth direction of bifurcating axons in the dorsal root entry zone.
    1. Evolutionary Biology

    Beyond Haldane’s rule: Sex-biased hybrid dysfunction for all modes of sex determination

    Asher D Cutter
    A broad and inclusive view of sex biases in hybrid dysfunction, irrespective of sexual system, expands the reach of Haldane's rule to help characterize the underlying forces and mechanisms responsible for predictable sex biases in evolutionary divergence and speciation.
    1. Immunology and Inflammation

    IL-2 enhances effector function but suppresses follicular localization of CD8+ T cells in chronic infection

    Yaping Chen, Pengcheng Zhou ... Di Yu
    Not revised
    Reviewed Preprint v1
    1. Genetics and Genomics
    2. Evolutionary Biology

    Fast evolutionary turnover and overlapping variances of sex-biased gene expression patterns defy a simple binary classification of sexes

    Chen Xie, Sven Künzel, Diethard Tautz
    Not revised
    Reviewed Preprint v1
    1. Evolutionary Biology

    Biocalcification in porcelaneous foraminifera

    Zofia Dubicka, Jarosław Tyszka ... Ulf Bickmeyer
    Porcelaneous foraminifera, marine calcifiers, reveal their biomineralization secrets.
    1. Biochemistry and Chemical Biology
    2. Microbiology and Infectious Disease

    Hyperglycemia induced cathepsin L maturation linked to diabetic comorbidities and COVID-19 mortality

    Qiong He, Miao-Miao Zhao ... Jin-Kui Yang
    High glucose levels promote CTSL maturation and translocation from the endoplasmic reticulum to the lysosome via the ER-Golgi-lysosome axis.
    1. Structural Biology and Molecular Biophysics

    Membrane curvature sensing and symmetry breaking of the M2 proton channel from Influenza A

    James Lincoff, Cole VM Helsell ... Michael Grabe
    Using a combination of all-atom molecular simulation and continuum membrane mechanics, M2 channels from influenza are shown to be stabilized in negative Gaussian curvature regions, such as the neck of budding viral particles, only in C2-symmetric conformations.
    1. Cell Biology
    2. Medicine

    AARS2 ameliorates myocardial ischemia via fine-tuning PKM2-mediated metabolism

    Zongwang Zhang, Lixia Zheng ... Jing-Wei Xiong
    Not revised
    Reviewed Preprint v1
    1. Cancer Biology

    Exploring the role of the immune microenvironment in hepatocellular carcinoma: Implications for immunotherapy and drug resistance

    Yumin Fu, Xinyu Guo ... Lianxin Liu
    The immune microenvironment has a pivotal role in hepatocellular carcinoma (HCC) progression and immune therapy resistance, and targeting this complex milieu holds great promise for improving therapeutic outcomes and patient prognoses in HCC management.
    1. Computational and Systems Biology
    2. Ecology

    A rapid phylogeny-based method for accurate community profiling of large-scale metabarcoding datasets

    Lenore Pipes, Rasmus Nielsen
    Tronko provides a scalable solution for accurate taxonomic assignment for large-scale metabarcoding datasets by overcoming the speed and memory limitations of previous phylogenetic placement methods.
    1. Neuroscience

    A dynamic generative model can extract interpretable oscillatory components from multichannel neurophysiological recordings

    Proloy Das, Mingjian He, Patrick L Purdon
    Oscillation component analysis enables cognitive neuroscientists to summarize millisecond-precision high-dimensional neurophysiological recordings into a smaller set of oscillatory components through biophysically inspired generative modeling of neural oscillations.
    1. Chromosomes and Gene Expression
    2. Structural Biology and Molecular Biophysics

    OpenNucleome for high-resolution nuclear structural and dynamical modeling

    Zhuohan Lao, Kartik D Kamat ... Bin Zhang
    An open-source tool for computational simulations of the human genome has been introduced, enabling the characterization of complex nuclear environments and the interpretation of experimental observations.
    1. Cell Biology
    2. Neuroscience

    Plasticity-induced actin polymerization in the dendritic shaft regulates intracellular AMPA receptor trafficking

    Victor C Wong, Patrick R Houlihan ... Erin K O'Shea
    Glutamate receptor-containing vesicles are positioned in the dendritic shaft near sites of synaptic activity by F-actin.
    1. Biochemistry and Chemical Biology

    Probing PAC1 receptor activation across species with an engineered sensor

    Reto B Cola, Salome N Niethammer ... Tommaso Patriarchi
    A new genetically encoded sensor robustly detects exogenously applied PAC1R ligands in vitro, ex vivo, and in vivo (in zebrafishes and mice) serving as a useful resource for probing PAC1R functions.
    1. Cancer Biology

    RGS10 deficiency facilitates distant metastasis by inducing epithelial–mesenchymal transition in breast cancer

    Yang Liu, Yi Jiang ... Xi Gu
    The novel action of RGS10 in epithelial–mesenchymal transition in breast cancer is dependent on LNC2 and miR-539-5p, which is identified as a prognostic biomarker for early distant metastasis in breast cancer.
    1. Developmental Biology
    2. Evolutionary Biology

    Differences in size and number of embryonic type-II neuroblast lineages are associated with divergent timing of central complex development between beetle and fly

    Simon Rethemeier, Sonja Fritzsche ... Vera S Hunnekuhl
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Semantic plasticity across timescales in the human brain

    Sarah H Solomon, Kendrick Kay, Anna C Schapiro
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Specific presynaptic functions require distinct Drosophila Cav2 splice isoforms

    Christopher Bell, Lukas Kilo ... Stefanie Ryglewski
    Not revised
    Reviewed Preprint v1
    1. Cell Biology

    Endosomal Chemokine Receptor Signalosomes Regulate Central Mechanisms Underlying Cell Migration

    Hyunggu Hahn, Carole Daly ... Alex Rojas Bie Thomsen
    Not revised
    Reviewed Preprint v1
    1. Immunology and Inflammation
    2. Microbiology and Infectious Disease

    CXCL9, granzyme B and TNF-α orchestrate protective in vitro granulomatous responses across Mycobacterium tuberculosis complex lineages

    Ainhoa Arbués, Sarah Schmidiger ... Damien Portevin
    Not revised
    Reviewed Preprint v1
    1. Biochemistry and Chemical Biology
    2. Chromosomes and Gene Expression

    Mediator kinase inhibition suppresses hyperactive interferon signaling in Down syndrome

    Kira Cozzolino, Lynn Sanford ... Dylan J Taatjes
    Not revised
    Reviewed Preprint v1
    1. Genetics and Genomics

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

    Junhong Choi, Wei Chen ... Jay Shendure
    Revised
    Reviewed Preprint v2
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    Observing one-divalent-metal-ion-dependent and histidine-promoted His-Me family I-PpoI nuclease catalysis in crystallo

    Caleb Chang, Grace Zhou, Yang Gao
    In crystallo observation of HNH family I-PpoI nuclease cleaving DNA suggests that one divalent metal ion and a histidine are required for catalysis.
    1. Epidemiology and Global Health
    2. Genetics and Genomics

    Maternal smoking DNA methylation risk score associated with health outcomes in offspring of European and South Asian ancestry

    Wei Q Deng, Nathan Cawte ... Sonia S Anand
    Epigenetic signature of maternal smoking contributes to smaller body size and lower birth weight in newborns of European and South Asian ancestry.
    1. Cell Biology

    Oxidized low-density lipoprotein potentiates angiotensin II-induced Gq activation through the AT1-LOX1 receptor complex: Implications for renal dysfunction

    Jittoku Ihara, Yibin Huang ... Koichi Yamamoto
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    The GnRH pulse generator activity in mouse models of polycystic ovary syndrome

    Ziyue Zhou, Su Young Han ... Allan E Herbison
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    The novel role of Kallistatin in linking metabolic syndromes and cognitive memory deterioration by inducing amyloid-β plaques accumulation and tau protein hyperphosphorylation

    Weiwei Qi, Yanlan Long ... Guoquan Gao
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Acquisition of auditory discrimination mediated by different processes through two distinct circuits linked to the lateral striatum

    Susumu Setogawa, Takashi Okauchi ... Kazuto Kobayashi
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Stimulus-specificity of surround-induced responses in primary visual cortex

    Nisa Cuevas, Boris Sotomayor-Gómez ... Martin Vinck
    Not revised
    Reviewed Preprint v1
    1. Structural Biology and Molecular Biophysics
    2. Computational and Systems Biology

    Discovery of a Heparan-Sulfate Binding Domain in Monkeypox Virus H3 Protein as a New Anti-poxviral Drug Target

    Bin Zheng, Meimei Duan ... Peng Zheng
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    A scene with an invisible wall - navigational experience shapes visual scene representation

    Shi Pui Donald Li, Jiayu Shao ... Soojin Park
    Not revised
    Reviewed Preprint v1
    1. Developmental Biology
    2. Neuroscience

    UNC-6/Netrin promotes both adhesion and directed growth within a single axon

    Ev L Nichols, Joo Lee, Kang Shen
    Not revised
    Reviewed Preprint v1
    1. Microbiology and Infectious Disease

    Magnesium modulates phospholipid metabolism to promote bacterial phenotypic resistance to antibiotics

    Hui Li, Jun Yang ... Bo Peng
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Modeling and Simulation of Neocortical Micro- and Mesocircuitry. Part I: Anatomy

    Michael W Reimann, Sirio Bolanõs-Puchet ... Srikanth Ramaswamy
    Not revised
    Reviewed Preprint v1
    1. Developmental Biology

    Maternal obesity may disrupt offspring metabolism by inducing oocyte genome hyper-methylation via increased DNMTs

    Shuo Chao, Jun Lu ... Zhao-Jia Ge
    Revised
    Reviewed Preprint v2
    1. Immunology and Inflammation

    A hepatocyte-specific transcriptional program driven by Rela and Stat3 exacerbates experimental colitis in mice by modulating bile synthesis

    Jyotsna, Binayak Sarkar ... Rajesh S Gokhale
    Studies in murine model identify hepatic Rela-Stat3 network as a potential driver of gut inflammation and a novel therapeutic target for inflammatory bowel disease, offering new insights into liver-gut crosstalk.
    1. Biochemistry and Chemical Biology

    Prominin 1 and Tweety Homology 1 both induce extracellular vesicle formation

    Tristan A Bell, Bridget E Luce ... Luke H Chao
    1. Plant Biology

    Xanthomonas citri subsp. citri type III effector PthA4 directs the dynamical expression of a putative citrus carbohydrate-binding protein gene for canker formation

    Xinyu Chen, Huasong Zou ... Xiaojing Fan
    The putative carbohydrate-binding protein gene Cs9g12620 by PthA4-mediated induction of CsLOB1 during Xcc infection.
    1. Biochemistry and Chemical Biology

    Prominin 1 and Tweety Homology 1 both induce extracellular vesicle formation

    Tristan A Bell, Bridget E Luce ... Luke H Chao
    Prominin 1 and Tweety Homology 1, two proteins that regulate membrane shape in neural and neuroepithelial cells, have shared evolutionary history and both cause cells to secrete extracellular vesicles.
    1. Microbiology and Infectious Disease

    SPARK regulates AGC kinases central to the Toxoplasma gondii asexual cycle

    Alice L Herneisen, Michelle L Peters ... Sebastian Lourido
    Genetic and proteomic analyses reveal that the SPARK kinase, which is a regulator of key life-cycle transitions in the parasite Toxoplasma gondii, complexes with an elongin-like protein to regulate several important AGC-family kinases.
    1. Stem Cells and Regenerative Medicine

    Human myogenic progenitor cells display tenogenic differentiation potential and facilitate tendon regeneration

    Xiexiang Shao, Xingzuan Lin ... Ping Hu
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Decoding the physics of observed actions in the human brain

    Moritz F Wurm, Doruk Yiğit Erigüç
    Not revised
    Reviewed Preprint v1
    1. Cell Biology

    Constitutively active receptor ADGRA3 signaling induces adipose thermogenesis

    Zewei Zhao, Longyun Hu ... Zhonghan Yang
    Revised
    Reviewed Preprint v2
    1. Developmental Biology
    2. Neuroscience

    Semaphorin7A patterns neural circuitry in the lateral line of the zebrafish

    Agnik Dasgupta, Caleb C Reagor ... AJ Hudspeth
    Semaphorin7A sculpts the collective arbor architecture of the lateral line nerve and facilitates neural contacts with the hair cells for synaptogenesis during neuromast development in the zebrafish.
    1. Immunology and Inflammation

    Prdm1 positively regulates liver Group 1 ILCs cancer immune surveillance and preserves functional heterogeneity

    Jitian He, Le Gao ... Youwei Wang
    Prdm1 (BLIMP1) promotes liver Group 1 ILCs cancer surveillance and preserves functional heterogeneity.
    1. Neuroscience

    Periaqueductal gray activates antipredatory neural responses in the amygdala of foraging rats

    Eun Joo Kim, Mi-Seon Kong ... Jeansok John Kim
    Electrophysiological recordings and optogenetics reveal how the dorsal periaqueductal gray and basolateral amygdala interact in antipredatory responses, with a potential intermediary role for the midline thalamus.
    1. Computational and Systems Biology

    Pathway activation model for personalized prediction of drug synergy

    Quang Thinh Trac, Yue Huang ... Trung Nghia Vu
    Not revised
    Reviewed Preprint v1
    1. Immunology and Inflammation

    Endocannabinoids and their receptors modulate endometriosis pathogenesis and immune response

    Harshavardhan Lingegowda, Katherine B Zutautas ... Chandrakant Tayade
    Cannabinoid receptors CNR1 and CNR2 play distinct roles in endometriosis pathogenesis, potentially contributing to disease initiation and progression through differential modulation of T cell function and the lesion microenvironment.
    1. Cancer Biology
    2. Genetics and Genomics

    Circulating small extracellular vesicle RNA profiling for the detection of T1a stage colorectal cancer and precancerous advanced adenoma

    Li Min, Fanqin Bu ... Shutian Zhang
    Whole-transcriptomic profiling of circulating small extracellular vesicle RNA facilitates the detection of T1a stage colorectal cancer and precancerous advanced adenoma.
    1. Neuroscience

    Revealing unexpected complex encoding but simple decoding mechanisms in motor cortex via separating behaviorally relevant neural signals

    Yangang Li, Xinyun Zhu ... Yueming Wang
    Separating behaviorally relevant signals from irrelevant signals reveals that neural signals previously considered to contain little information encode rich information and suggests that linear readout may be performed in motor cortex.
    1. Chromosomes and Gene Expression
    2. Developmental Biology

    The transcriptional landscape underlying larval development and metamorphosis in the Malabar grouper (Epinephelus malabaricus)

    Roger Huerlimann, Natacha Roux ... Timothy Ravasi
    Transcriptomic analyses of Malabar grouper show pathways known to be involved in metamorphosis are also upregulated at an early stage of larval development, suggesting an additional function during early development.
    1. Computational and Systems Biology
    2. Physics of Living Systems

    Combining mutation and recombination statistics to infer clonal families in antibody repertoires

    Natanael Spisak, Gabriel Athènes ... Aleksandra M Walczak
    HILARy is a new algorithm for grouping B-cell receptor sequences into distinct lineages, a crucial task to analyze immune response and memory through repertoire sequencing.
    1. Biochemistry and Chemical Biology
    2. Microbiology and Infectious Disease

    The glycoprotein quality control factor Malectin promotes coronavirus replication and viral protein biogenesis

    Jonathan P Davies, Lars Plate
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

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

    Aneri Soni, Michael J Frank
    Not revised
    Reviewed Preprint v1
    1. Cell Biology

    Ezrin defines TSC1 activation at endosomal compartments through EGFR-AKT signaling

    Giuliana Giamundo, Daniela Intartaglia ... Ivan Conte
    Not revised
    Reviewed Preprint v1
    1. Medicine
    2. Immunology and Inflammation

    JAK inhibition decreases the autoimmune burden in Down syndrome

    Angela L Rachubinski, Elizabeth Wallace ... Joaquin M Espinosa
    Not revised
    Reviewed Preprint v1
    1. Physics of Living Systems

    Growth consequences of the inhomogeneous organization of the bacterial cytoplasm

    Johan H van Heerden, Alicia Berkvens ... Frank J Bruggeman
    Not revised
    Reviewed Preprint v1
    1. Chromosomes and Gene Expression
    2. Genetics and Genomics

    BRCA1/BRC-1 and SMC-5/6 regulate DNA repair pathway engagement during Caenorhabditis elegans meiosis

    Erik Toraason, Alina Salagean ... Diana E Libuda
    To maintain genomic integrity during oocyte development, the tumor suppressor BRCA1/BRC-1 and the SMC-5/6 complex both repress intersister crossover recombination events while BRCA1/BRC-1 also specifically inhibits error prone repair of DNA breaks during meiotic prophase I.
    1. Structural Biology and Molecular Biophysics

    Differential conformational dynamics in two type-A RNA-binding domains drive the double-stranded RNA recognition and binding

    Firdousi Parvez, Devika Sangpal ... Jeetender Chugh
    The differential conformational space accessible to the two domains of TRBP, even though they both adopt a canonical dsRBD fold, affect how they interact with target RNAs.
    1. Ecology

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

    Ming-Qiang Wang, Shi-Kun Guo ... Chao-Dong Zhu
    Not revised
    Reviewed Preprint v1
    1. Biochemistry and Chemical Biology

    Brown Adipose Tissue and Skeletal Muscle Coordinately Contribute to Thermogenesis in Mice

    Yuna Izumi-Mishima, Rie Tsutsumi ... Hiroshi Sakaue
    Not revised
    Reviewed Preprint v1
    1. Cell Biology

    Disruption of WSB2-mediated NOXA Degradation Induces Synthetic Lethality to Anti-apoptotic BCL-2 Family Protein Inhibitors

    Dongyue Jiao, Kun Chang ... Chenji Wang
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Chemogenetic stimulation of phrenic motor output and diaphragm activity

    Ethan S Benevides, Prajwal P Thakre ... David D Fuller
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Predictive learning rules generate a cortical-like replay of probabilistic sensory experiences

    Toshitake Asabuki, Tomoki Fukai
    Revised
    Reviewed Preprint v2
    1. Neuroscience

    Ventral tegmental area interneurons revisited: GABA and glutamate projection neurons make local synapses

    Lucie Oriol, Melody Chao ... Thomas S Hnasko
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Sigh generation in preBötzinger Complex

    Yan Cui, Evgeny Bondarenko ... Jack L Feldman
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Neural Geometry from Mixed Sensorimotor Selectivity for Predictive Sensorimotor Control

    Yiheng Zhang, Yun Chen ... He Cui
    Not revised
    Reviewed Preprint v1
    1. Cancer Biology

    CPT1A Mediates Radiation Sensitivity in Colorectal Cancer

    Zhenhui Chen, Lu Yu ... Yi Ding
    Revised
    Reviewed Preprint v2
    1. Biochemistry and Chemical Biology

    Syntaxin-6 delays prion protein fibril formation and prolongs the presence of toxic aggregation intermediates

    Daljit Sangar, Elizabeth Hill ... Jan Bieschke
    A new native prion protein aggregation assay shows that syntaxin-6, a risk factor for sporadic Creutzfeldt–Jakob disease, delays prion protein fibril formation and prolongs the presence of toxic aggregation intermediates.
    1. Chromosomes and Gene Expression

    Chromosome structure in Drosophila is determined by boundary pairing not loop extrusion

    Xinyang Bing, Wenfan Ke ... James B Jaynes
    Boundary:boundary pairing interactions drive TAD formation in Drosophila.
    1. Immunology and Inflammation
    2. Neuroscience

    Enkephalin-mediated modulation of basal somatic sensitivity by regulatory T cells in mice

    Nicolas Aubert, Madeleine Purcarea ... Gilles Marodon
    Regulatory T cells produce analgesic opioid peptides that limit heat sensitivity in mice, revealing a novel pain regulation mechanism independent of inflammation control.
    1. Chromosomes and Gene Expression

    Stem-loop and circle-loop TADs generated by directional pairing of boundary elements have distinct physical and regulatory properties

    Wenfan Ke, Miki Fujioka ... James B Jaynes
    Boundary:boundary pairing generates either stem-loop or circle-loop TADs, and these loop topologies differ in how they impact chromosome structure and genetic activities.
    1. Evolutionary Biology
    2. Genetics and Genomics

    Insights into early animal evolution from the genome of the xenacoelomorph worm Xenoturbella bocki

    Philipp H Schiffer, Paschalis Natsidis ... Maximilian J Telford
    A genome analysis of Xenoturbella bocki provides insights into the biology of this enigmatic marine worm and enhances our understanding of early bilaterian evolution.
    1. Cancer Biology
    2. Cell Biology

    Actin networks modulate heterogeneous NF-κB dynamics in response to TNFα

    Francesca Butera, Julia E Sero ... Chris Bakal
    A live imaging and computational approach reveals feedback loops involving F-actin dynamics that regulate the NF-κB transcription factor RELA.
    1. Genetics and Genomics
    2. Microbiology and Infectious Disease

    Rtf1 HMD domain facilitates global histone H2B monoubiquitination and regulates morphogenesis and virulence in the meningitis-causing pathogen Cryptococcus neoformans

    Yixuan Jiang, Fujie Zhao ... Youbao Zhao
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Early-life stress induces persistent astrocyte dysfunction resulting in fear generalisation

    Mathias Guayasamin, Lewis R Depaauw-Holt ... Ciaran Murphy-Royal
    Not revised
    Reviewed Preprint v1
    1. Epidemiology and Global Health

    Forecasting the spatial spread of an Ebola epidemic in real-time: comparing predictions of mathematical models and experts

    James D Munday, Alicia Rosello ... Sebastian Funk
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    Bursts from the past: Intrinsic properties link a network model to zebra finch song

    Nelson D Medina, Daniel Margoliash
    Not revised
    Reviewed Preprint v1
    1. Biochemistry and Chemical Biology
    2. Cell Biology

    The ORP9-ORP11 dimer promotes sphingomyelin synthesis

    Birol Cabukusta, Shalom Borst Pauwels ... Jacques Neefjes
    Lipid transfer proteins at the ER-Golgi interface synchronize intracellular lipid flows through the secretory pathway, ensuring the asymmetric lipid composition of the plasma membrane.
    1. Neuroscience

    Signatures of Bayesian inference emerge from energy-efficient synapses

    James Malkin, Cian O'Donnell ... Laurence Aitchison
    The parallels between Bayesian synapses and energy-efficient synapses are highlighted.
    1. Immunology and Inflammation

    MicroRNA-26b protects against MASH development and can be efficiently targeted with lipid nanoparticles

    Linsey JF Peters, Leonida Rakateli ... Emiel PC van der Vorst
    Not revised
    Reviewed Preprint v1
    1. Genetics and Genomics

    3D genomic features across >50 diverse cell types reveal insights into the genomic architecture of childhood obesity

    Khanh B Trang, Matthew C Pahl ... Struan FA Grant
    Not revised
    Reviewed Preprint v1
    1. Computational and Systems Biology

    Alleviating cell-free DNA sequencing biases with optimal transport

    Antoine Passemiers, Tatjana Jatsenko ... Yves Moreau
    Not revised
    Reviewed Preprint v1
    1. Genetics and Genomics

    IDH1 regulates human erythropoiesis by eliciting chromatin state reprogramming in a metabolic enzyme independent manner

    Mengjia Li, Hengchao Zhang ... Lixiang Chen
    Not revised
    Reviewed Preprint v1
    1. Neuroscience
    2. Ecology

    Individual recognition in a jumping spider (Phidippus regius)

    Christoph D Dahl, Yaling Cheng
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    A multiscale model of striatum microcircuit dynamics

    Federico Tesler, Alexander Kozlov ... Alain Destexhe
    Not revised
    Reviewed Preprint v1
    1. Ecology

    Deciphering deep-sea chemosynthetic symbiosis by single-nucleus RNA-sequencing

    Hao Wang, Kai He ... Chaolun Li
    A cellular map of a deep-sea mussel gill unveils how distinct cell types collaborate to cultivate intracellular symbiotic bacteria, providing insights into host–symbiont interactions and environmental adaptation in bivalves.
    1. Neuroscience

    Disparity in temporal and spatial relationships between resting-state electrophysiological and fMRI signals

    Wenyu Tu, Samuel R Cramer, Nanyin Zhang
    There is a disparity in temporal and spatial relationships between resting-state electrophysiological and functional magnetic resonance imaging (fMRI) signals, suggesting the electrophysiological signal alone cannot fully explain the effects observed in the resting-state fMRI signal.
    1. Cell Biology
    2. Neuroscience

    Combining array tomography with electron tomography provides insights into leakiness of the blood-brain barrier in mouse cortex

    Georg Kislinger, Gunar Fabig ... Martina Schifferer
    An array tomography and electron tomography hybrid approach based on coated plastic tape as support advances ultrastructural analysis of biological phenomena that require cell- and tissue-level contextualization of the finest subcellular textures.
    1. Genetics and Genomics
    2. Evolutionary Biology

    DNA replication errors are a major source of adaptive gene amplification

    Julie N Chuong, Nadav Ben Nun ... David Gresham
    Not revised
    Reviewed Preprint v1
    1. Plant Biology

    Subcellular visualization of the distribution of atmospheric dinitrogen fixed by Gluconacetobacter diazotrophicus bacteria in maize

    Greg McMahon, Stephanie Rey ... Edward Cocking
    Not revised
    Reviewed Preprint v1
    1. Computational and Systems Biology

    ASBAR: an Animal Skeleton-Based Action Recognition framework. Recognizing great ape behaviors in the wild using pose estimation with domain adaptation

    Michael Fuchs, Emilie Genty ... Paul Cotofrei
    Not revised
    Reviewed Preprint v1
    1. Medicine
    2. Immunology and Inflammation

    Kynurenine monooxygenase blockade reduces endometriosis-like lesions, improves visceral hyperalgesia, and rescues mice from a negative behavioural phenotype in experimental endometriosis

    Ben Higgins, Ioannis Simitsidellis ... Damian J Mole
    Revised
    Reviewed Preprint v2
    1. Ecology
    2. Evolutionary Biology

    Passive accumulation of alkaloids in inconspicuously colored frogs refines the evolutionary paradigm of acquired chemical defenses

    Rebecca D Tarvin, Jeffrey L Coleman ... Richard Fitch
    Revised
    Reviewed Preprint v2
    1. Microbiology and Infectious Disease

    Metabolic disruption impairs ribosomal protein levels, resulting in enhanced aminoglycoside tolerance

    Rauf Shiraliyev, Mehmet A Orman
    Aminoglycoside tolerance in tricarboxylic acid cycle and electron transport chain mutants does not result from impaired proton motive force and altered drug uptake, but rather from the downregulation of ribosomal proteins, which are primary targets of this drug class.
    1. Cell Biology

    Spindle assembly checkpoint-dependent mitotic delay is required for cell division in absence of centrosomes

    KC Farrell, Jennifer T Wang, Tim Stearns
    Centrosomes in mammalian cells are required for timely completion of mitosis and in their absence the spindle assembly checkpoint is required to delay mitosis and allow assembly of a functional spindle.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    Deciphering the actin structure-dependent preferential cooperative binding of cofilin

    Kien Xuan Ngo, Huong T Vu ... Taro Uyeda
    HS-AFM and Principal Component Analysis provide experimental evidence to substantiate the 'proof of principle' regarding the flexible helical twists of actin filaments that regulate the functions of actin-binding proteins.
    1. Cancer Biology

    Dual targeting of histone deacetylases and MYC as potential treatment strategy for H3-K27M pediatric gliomas

    Danielle Algranati, Roni Oren ... Efrat Shema
    Combined inhibition of oncogenic and epigenetic pathways results in a substantial decrease in the viability and growth of H3-K27M pediatric glioma models.
    1. Biochemistry and Chemical Biology
    2. Microbiology and Infectious Disease

    Oxydifficidin, a potent Neisseria gonorrhoeae antibiotic due to DedA assisted uptake and ribosomal protein RplL sensitivity

    Jingbo Kan, Adrian Morales ... Sean F Brady
    Not revised
    Reviewed Preprint v1
    1. Cell Biology
    2. Neuroscience

    Endopiriform neurons projecting to ventral CA1 are a critical node for recognition memory

    Naoki Yamawaki, Hande Login ... Asami Tanimura
    Not revised
    Reviewed Preprint v1
    1. Neuroscience

    A novel monomeric amyloid β-activated signaling pathway regulates brain development via inhibition of microglia

    Hyo Jun Kwon, Devi Santhosh, Zhen Huang
    Revised
    Reviewed Preprint v2
    1. Neuroscience

    Determinantal point process attention over grid cell code supports out of distribution generalization

    Shanka Subhra Mondal, Steven Frankland ... Jonathan D Cohen
    Strong out of distribution generalization using an attentional mechanism over grid cell code inspired by determinantal point processes.
    1. Structural Biology and Molecular Biophysics

    Modulation of α-synuclein aggregation amid diverse environmental perturbation

    Abdul Wasim, Sneha Menon, Jagannath Mondal
    A comprehensive exploration of α-synuclein (αS) aggregation dynamics from both macroscopic and microscopic perspectives uncovers the intricate mechanisms underlying crowder and salt-induced intensification of αS self-aggregation.
    1. Neuroscience

    Fundamental processes in sensorimotor learning: Reasoning, refinement, and retrieval

    Jonathan S Tsay, Hyosub E Kim ... Richard B Ivry
    The 3R framework outlines three fundamental processes in motor learning and provides a novel perspective on understanding how we acquire, adapt, and retain complex motor skills.
    1. Neuroscience

    Bidirectional fear modulation by discrete anterior insular circuits in male mice

    Sanggeon Park, Yeowool Huh ... Jeiwon Cho
    Behavioral electrophysiology and optogenetics studies reveal that projections from the anterior insula to the medial thalamus mitigate fear, while projections to the amygdala promote fear.
    1. Biochemistry and Chemical Biology

    Impact of protein and small molecule interactions on kinase conformations

    Valentina Kugler, Selina Schwaighofer ... Eduard Stefan
    Kinase conformation reporters reveal how protein kinase activity conformations are influenced by regulatory protein interactions, patient mutations, and cellular drug binding, aiding in systematically anticipating treatment efficacy and designing patient-tailored therapies.

Magazine

    1. Plant Biology

    Seed Germination: Coping with salt stress

    Xiaoyan Liang, Caifu Jiang
    1. Neuroscience

    Locomotion: The rhythm is going to get you

    Mohini Sengupta
    1. Cell Biology

    Sensory Neurons: Addressing burning questions on axon regeneration

    Diána Kaszás, Balázs Enyedi
    1. Cell Biology
    2. Developmental Biology

    Fertilization: Switching on lysosomes

    Deepak Adhikari, John Carroll
    1. Structural Biology and Molecular Biophysics

    Nuclear Receptors: A new mode of inhibition

    Andrew D Huber, Taosheng Chen
    1. Cell Biology
    2. Immunology and Inflammation

    Science Forum: Antibody characterization is critical to enhance reproducibility in biomedical research

    Richard A Kahn, Harvinder Virk ... Skye Longworth
    1. Neuroscience

    Serial Dependence: Connecting past and present

    Sihan Yang, Anastasia Kiyonaga
    1. Immunology and Inflammation
    2. Microbiology and Infectious Disease

    Vaccines: How do adjuvants enhance immune responses?

    Rekha R Rapaka