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Wu, M.

Publications and source records attributed to Wu, M..

At least 55 records · Page 3Linked to original sources

Spatially resolved translational dysregulation in Grin2a+/- mouse model of schizophrenia

Loss-of-function (LoF) mutations of GRIN2A, encoding the GluN2A subunit of N-methyl-D-aspartate receptor (NMDAR), confer a high risk for schizophrenia (SCZ)1-3, yet how they affect diverse brain cell types remains poorly understood. Here, we combined subcellular-resolution spatial omics technologies, STARmap4 and RIBOmap5, to jointly resolve single-cell transcriptomes and translatomes for 3,447 genes in the brains of Grin2a+/- mice and their wild-type littermates across 538,188 cells. Translational dysregulation was markedly more prominent than transcriptional changes in neurons. Across neuronal subtypes, a set of genes including Camk2a, Arc, Egr1, Egr3, Chmp2b, and Pja2 exhibited translational reduction in a Grin2a gene dose-dependent fashion, suggesting a connection between NMDAR hypofunction and reduced protein synthesis of downstream synaptic plasticity effectors. In interneurons (particularly parvalbumin interneurons), a strong reduction of Gad2 translation implies loss of inhibitory function in cortical microcircuits, which has long been hypothesized for SCZ pathophysiology. Non-neuronal cell types including astrocytes, oligodendrocytes, and vascular cells also exhibited region-specific translational changes in neurotransmitter transport, lipid synthesis, myelination, and stress response pathways, some of which co-varied with regional neuron state. Together, our study reveals brain-wide translation dysregulation as a critical mechanism underlying SCZ pathophysiology.

neuroscience↗

Human heart organoids reveal a regenerative strategy for mitochondrial disease

The human heart is among the most complex tissues to replicate in vitro, with vascular, neuronal, and immune elements shaping its development and function. Here we describe cardiomorphs, self-organising human cardiac organoids that recapitulate the cellular diversity, structural organisation, vascularisation, and innervation of the myocardium and mature along a developmental trajectory from early cardiogenesis to adult tissue. Using patient-derived cardiomorphs, we establish the first three-dimensional human tissue model of Kearns-Sayre syndrome (KSS), a rare mitochondrial disorder characterised by large-scale mtDNA deletions. KSS-cardiomorphs faithfully reproduce disease-associated metabolic, contractile, and ultrastructural hallmarks. Leveraging this platform, we identify Betaxolol, an FDA-approved selective {beta}1-adrenergic antagonist, as a modulator of mitochondrial quality control. Betaxolol increases intracellular oxygenation, selectively eliminates dysfunctional mitochondria via mitophagy, and promotes biogenesis of functional organelles, restoring contractility in KSS tissues. This dual-action, mutation-agnostic mechanism suggests a therapeutic principle with broad relevance to mitochondrial disease, cardiac pathology, and age-associated decline.

cell biology↗

AI recognizes convergent somatic hypermutation signatures to allow the discovery of variant-resilient broadly neutralizing antibodies

Elucidating the mechanisms by which broadly neutralizing antibodies (bnAbs) develop to confer durable immunity in humans is pivotal for the rational design of next-generation vaccines and therapeutics. VH3-53/3-66-encoded public antibodies are widely elicited in the population after the COVID-19 pandemic. Here, we isolated 15 VH3-53/3-66-encoded bnAbs from elite neutralizers who experienced sequential SARS-CoV-2 Omicron breakthrough infections. These bnAbs exhibit exceptional potency and breadth against circulating variants and, as members of a long-lived public antibody lineage, likely contribute to durable humoral protection. Genetic analysis of VH3-53/3-66-encoded bnAbs reveals a convergent somatic hypermutation pattern at seven positions in and around the CDR loops that emerges with repeated viral exposures and distinguishes them from non-bnAbs. Grafting these combined mutations onto clinically escaped antibodies broadens their breadth and restores neutralization activity. Structural analysis shows that these convergent mutations cooperatively remodel CDRs to bind and tolerate virus receptor-binding domain mutations. Using an AI-based antibody language model trained on data linking somatic hypermutations to binding affinity and neutralization, the model is able to identify mutational patterns predictive of breadth, enabling the discovery of a rare bnAb with protective activity against the latest variants from early-pandemic antibody repertoires. This demonstrates the feasibility of establishing an AI-empowered pipeline to identify mutation-tolerant bnAbs from early-pandemic antibody repertoires to fight fast-evolving newly introduced viruses.

immunology↗

Robust brain complexity measurement using T2* informed multivariate sample entropy from multi-echo BOLD fMRI

Sample entropy is a useful tool to analyze resting-state fMRI data and evaluate the complexity of neural activity. However, sample entropy computed from conventional BOLD signals is not highly resistant to artifacts. In contrast, T2* may be more sensitive to certain neural-related changes, and directly incorporating T2* information enables the detection of features that are often lost in BOLD-only sample entropy due to noise influences. To further improve the robustness and reliability of complexity estimation, we introduce a multivariate sample entropy approach that incorporates T2* signals derived from multi-echo BOLD signal. We applied this method to compare a cohort of 23 elder adults and 12 younger adults, and observed significant group differences in several brain regions. Notably, the proposed method yielded more pronounced group differences than conventional sample entropy computed without T2* information. Moreover, in regions with reduced neural activity due to ischemia, as well as in ventricular areas, our approach demonstrated superior performance. These results indicate that the proposed method enhances the ability to characterize the complexity of neural activity.

biophysics↗

SCAPE: An AI-Driven Platform for Comprehensive Single-Cell Data Analysis

Single-cell RNA sequencing (scRNA-seq) has transformed the study of cellular heterogeneity, but downstream analysis remains fragmented and technically demanding. Current pipelines often lack analytical diversity, require programming expertise, and offer limited integration of advanced methods. To address these challenges, we developed SCAPE, an AI-driven automated and interactive platform that unifies multi-omics, multi-resource, and multi-modal single-cell data analysis. SCAPE provides platform-independent installation, customizable workflows, and integration of R- and Python-based tools. Beyond Seurat and Scanpy, it incorporates modules for transcription factor and pathway inference, pseudotime trajectory reconstruction, spatial transcriptomics deconvolution, and cell-cell communication analysis. To demonstrate SCAPE, we curated a unified atlas of lung cancer progression in human patients and mouse models, spanning primary tumors and metastatic sites. The platform enabled harmonized integration, regulatory program inference, and spatial mapping, revealing conserved epithelial programs that promote metastatic seeding and organ-specific adaptations driven by microenvironments. Collectively, SCAPE offers an accessible and comprehensive framework for single-cell analysis, providing new insights into cancer progression and broad utility across biological systems.

cancer biology↗

Missense Mutation ADNP p.C687R Disrupts Chromatin Regulation and GABAergic Differentiation in HVDAS

Activity-dependent neuroprotective protein (ADNP) is a key regulator of neurodevelopment and a high-risk gene for autism spectrum disorder (ASD). Most pathogenic variants cause loss-of-function in Helsmoortel-Van der Aa syndrome (HVDAS), yet the impact of missense mutations remains unclear. Here, we characterized a ADNP missense mutation (p.C687R) identified from a HVDAS patient, predicted to disrupt its ninth zinc finger domain. Overexpression of p.C687R altered subnuclear localization and affected wild-type ADNP distribution. In utero electroporation revealed impaired neuronal migration and cortical branching. CUT&Tag profiling showed mutant- specific chromatin binding, preferentially targeting histone modification genes through both direct and distal interactions. Patient-derived iPSCs carrying p.C687R exhibited upregulated bivalent histone marks (H3K4me3 and H3K27me3) on neurodevelopmental genes, including regulators of GABAergic differentiation, which became transcriptionally activated in neural progenitors. These findings reveal a gain-of-function mechanism by which ADNP p.C687R perturbs chromatin regulation and disrupts GABAergic lineage specification, expanding the molecular framework of ADNP pathogenesis. The Paper Explained ProblemMutations in the gene ADNP cause Helsmoortel-Van der Aa syndrome (HVDAS), a severe neurodevelopmental disorder, and also increase the risk for autism spectrum disorder (ASD). While most known ADNP mutations lead to loss of protein function, many missense mutations that alter a single amino acid remain poorly understood regarding their effects on brain development and disease contribution. ResultsWe characterized a specific missense mutation, ADNP p.C687R, from a patient diagnosed with HVDAS, and found that it does not simply inactivate the protein but instead confers a disruptive new function. Across multiple models, from cells to mice, the p.C687R mutant exhibits abnormal chromatin binding, altered subnuclear localization, and impaired neuronal migration and differentiation. Importantly, in patient-derived iPSCs, it marks distinct neurodevelopmental genes with bivalent histone modifications, which become aberrantly activated during differentiation into GABAergic neural progenitor cells. ImpactThese findings confirm the pathogenicity of the missense mutation ADNP p.C687R in HVDAS, reveal a gain-of-function mechanism whereby the mutant disrupts chromatin regulation and GABAergic lineage specification, and advance our understanding of ADNP-related neurodevelopmental disorders.

neuroscience↗

Integrated multi-modal data analysis for computational modeling of healthy and location-dependent myocardial infarction conditions in porcine hearts

Porcine hearts are widely used for preclinical cardiac evaluation. Computational models, by effectively integrating comprehensive experimental data, often reinforce this preclinical assessment. Using extensive multi-modal data, we developed swine ventricular digital twins for healthy and chronic myocardial infarction (MI) conditions to investigate the roles of the cardiac conduction system (CS), spatial repolarization heterogeneities, cardiomyocyte orientation, cell-to-cell coupling, and MI characteristics on ventricular function. We analyzed cardiac magnetic resonance (CMR) images, electrocardiograms (ECGs), and optical (OM) and electroanatomical mapping from 5 healthy and 10 MI pigs. CS architectures were built from OM and ECG recordings. Myocardial fiber orientation, action potential characteristics, and cell-to-cell conductivity in MI tissue were defined from OM and CMR data. Simulated ECGs for healthy and MI models of left anterior descending and left circumflex occlusions were compared to experimental ECGs and used to assess MI-induced changes. Personalized fiber orientation minimally affected electrophysiology, with conduction velocity (CV) and action potential duration (APD) changing less than 3.6% with respect to standard orientation. Accurate CS and repolarization heterogeneities reproduced depolarization (0.76 QRS similarity) and repolarization (0.74 T-wave similarity) patterns. Incorporating experimentally guided MI-induced alterations enabled replication of MI depolarization and repolarization features (relative errors: 0.5% CV, 2.9% APD), yielded realistic T-wave morphologies (0.63 similarity), and revealed ECG patterns specific to vessel-dependent occlusions. Thus, by integrating extensive multi-modal data, we advance porcine cardiac digital twins and demonstrate the influence of key structural and electrophysiological parameters on healthy and MI heart function, providing a robust computational framework for mechanistic and translational applications. Author summaryPigs are commonly used as preclinical models for cardiac evaluation due to their close resemblance to the human heart. Computational cardiac electrophysiology often supports and extends this preclinical assessment. However, the reliability of these in silico representations depends on the effective integration of comprehensive experimental data. Using extensive multi-modal data, we developed swine ventricular digital twins under healthy and chronic myocardial infarction conditions. These models allowed us to investigate the influence of the cardiac conduction system, spatial repolarization heterogeneities, cardiomyocyte orientation, cell-to-cell coupling, and vessel-specific infarction characteristics on ventricular function. Our results show that cardiomyocyte orientation exerts only a minor effect on electrophysiology, with average conduction velocity showing a slight decrease and action potential duration remaining unchanged when comparing standard versus personalized orientations. Accurate representation of conduction system architecture and repolarization heterogeneities enabled closed reproduction of experimental depolarization and repolarization patterns. Furthermore, by integrating experimentally guided reductions in cell-to-cell coupling and inward rectifier potassium current, along with personalized post-infarction activation alterations and a novel porcine cellular model, we were able to faithfully replicate infarction-specific depolarization-repolarization features. These refinements produced realistic T-wave morphologies and revealed electrocardiographic signatures associated with vessel-dependent infarctions, underscoring the translational potential of our approach.

bioengineering↗

A newly identified Duck orbivirus as the etiological agent of egg-production decline in Chinese breeder ducks

The genus Orbivirus comprises double-stranded RNA viruses, many of which are transmitted by arthropods and cause febrile, hemorrhagic, or reproductive diseases in animals. In recent years, unexplained outbreaks characterized by marked egg-production decline have occurred in breeder duck flocks in China. To identify the causative agent, samples were collected from affected farms in multiple regions across China between 2022 and 2025. Representative samples were analyzed by high-throughput sequencing, followed by phylogenetic analysis, transmission electron microscopy, host cell infection assays, and animal challenge experiments. A previously unreported Orbivirus, designated Duck orbivirus (DORV), was identified. Epidemiological investigation indicated that outbreaks mainly affected breeder ducks during the peak laying period (21-55 weeks of age), with higher incidence in summer and autumn. The DORV genome contains ten double-stranded RNA segments encoding seven structural and five nonstructural proteins. Phylogenetic analysis showed that DORV is closely related to Parrys Lagoon virus (PLV) and Corriparta virus (CORV). Electron microscopy revealed icosahedral particles 30-40 nm in diameter. DORV replicated efficiently in DEF, DEL and C6/36 cells but not in MDCK and LMH cells, suggesting a restricted host range with potential arthropod-borne features. Infection of breeder ducks with DORV-SD01 reduced egg production by 30-40% and caused lesions in the ovary, liver, and spleen. This study describes a novel duck-origin Orbivirus linked to egg-production decline, offering new etiological insights and extending the host spectrum of Orbivirus. The results provide a foundation for future surveillance and prevention of emerging waterfowl diseases.

microbiology↗

Axially swept dithered light-sheet microscope to reveal cardiac morphology

Understanding cardiac microstructure and vascular networks in their entirety is critical for assessing cardiovascular development, disease progression, and therapeutic interventions. Light-sheet microscopy combined with tissue clearing enables high-resolution volumetric imaging of intact organs but faces limitations in trabeculated myocardium due to trade-offs among light-sheet thickness, effective range, and frame rate. We exploit temporal dynamics that govern illumination-detection interplay to maintain uniform resolution across specimens. Building on this, we implemented high-speed dithered light-sheet (DiLS) illumination, extending the confocal region by over 40% and enhancing the space-bandwidth product while preserving optical sectioning. Integration of DiLS with a sweeping approach establishes the axially swept dithered light-sheet (AS-DiLS), which enhances imaging throughput while preserving axial resolution and enables uniform illumination up to 12.5-millimeter range. AS-DiLS delivers near-isotropic resolution (~2.5 m) for investigating intricate ventricular trabeculae, vasculature, and extracellular matrix, providing a scalable platform for comprehensive cardiovascular morphology and topology assessment from embryos to adults. TeaserVolumetric imaging reveals microstructure and vascular networks in their entirety with near-isotropic resolution.

bioengineering↗

Patterns of Brain Activation and Hippocampal Functional Connectivity Supporting Verbal Memory in Midlife Women

Women show declines in verbal memory across the menopause transition that may persist into the postmenopause. The goal of the present study was to characterize the patterns of brain activity and hippocampal functional connectivity that support verbal memory performance in midlife postmenopausal women. The study sample included 171 midlife postmenopausal women from the MsBrain I study (mean age = 59.3 years, mean education= 15.7 years, 87.7% white). All participants were cognitively normal, native English speakers, not taking menopausal hormone therapy. Participants completed neuropsychological (California Verbal Learning Test [CVLT]) and neuroimaging assessments, including an fMRI task of verbal encoding and recognition. Findings indicated that during verbal encoding, greater activation of bilateral prefrontal and medial temporal regions, as well as the precuneus, cuneus, caudate, and cerebellar regions, was associated with better performance on CVLT measures, including learning, short- and long-delay recall, and semantic clustering. Functional connectivity from both hippocampi to primarily right prefrontal regions during verbal encoding associated with better CVLT performance. In-scanner word recognition accuracy was more strongly associated with activation of parietal and occipital regions, and with functional connectivity between the right hippocampus and bilateral parietal and temporal regions. Our findings characterize the patterns underlying verbal memory abilities in midlife postmenopausal women. The patterns identified here may act as a foundation for better interpreting the effects of hormonal changes and menopausal symptoms on cognition at midlife, and for identifying neural targets for pharmacological and lifestyle interventions aimed at sustaining womens memory function.

neuroscience↗

A correlative quantitative phase contrast and fluorescence super-resolution microscope for imaging molecules in their cellular context

Fluorescence microscopy has been widely used to reveal the spatial distribution of specifically labeled molecules, but it is blind to cellular context. Quantitative phase contrast microscopy (QPC) provides such complementary information. Here we have developed a platform that combines the QPC technique of correlative orientation-independent differential interference contrast (OI-DIC) microscopy with single-molecule super-resolution fluorescence microscopy. We demonstrate a detection sensitivity of 0.05 nm optical path difference, sufficient to detect single microtubules, and show its capability of 3D super-resolution fluorescence imaging in the cellular context. Additionally, we report deep-learning enabled digital staining, identifying nuclei, mitochondria and lipid droplets from OI-DIC data and demonstrate the potential of this approach for long-term live-cell imaging of organelles of interest without the need for fluorescence. OI-DIC can be easily integrated into most fluorescence microscopes and is readily adoptable by microscopy labs. ONE-SENTENCE TEASERA highly sensitive technique to visualize sub-cellular structures, dynamics, and molecules in their cellular context.

cell biology↗

Closed-loop beta stimulation enhances beta activity and motor behaviour

Movement-related beta event-related synchronization (ERS) has been linked to motor control and learning, showing potential as a therapeutic target for those with movement deficits, such as stroke survivors. However, whether directly modulating beta ERS can causally influence motor performance remains unclear, largely due to the lack of methods designed to specifically target this neural activity. To address this gap, we developed a novel behaviourally-driven, closed-loop transcranial alternating current stimulation (tACS) approach to target movement-related beta ERS during a visuomotor adaptation task. We found that the behaviourally-driven, closed-loop beta-tACS specifically enhances beta ERS without affecting beta event-related desynchronization (ERD). Critically, this targeted enhancement significantly improves retention of motor adaptation. These findings establish a causal relationship between beta ERS and motor behaviour and highlight the potential of behaviourally-driven beta-tACS as a therapeutic approach for improving motor function in clinical populations characterized by impaired beta activity.

neuroscience↗

A microfluidic rheometer for tumor mechanics and invasion studies

Clinically, the feel, touch, and shape of a solid tumor are important diagnostic methods for determining the malignant state of the disease. However, there are limited tools for quantifying the mechanics and the malignancy of the tumor in a physiologically realistic setting. Here, we developed a microfluidic rheometer - termed the microrheometer - that enables simultaneous measurements of tumor spheroid mechanics and their invasiveness into a 3D extracellular matrix (ECM). The microrheometer consists of a pneumatic pressure control unit for applying controlled static or cyclic compression to tumor spheroids, and a sample chamber for containing spheroid embedded ECM. The innovation here lies in the integration of a polyacrylamide membrane force sensor within the sample chamber, enabling a direct force measurement in a physiologically relevant setting. We found that both tumor stiffness and the viscoelastic properties of the tumor are closely correlated with tumor invasiveness. The microrheometer allowed us to measure tumor mechanics in a short time (less than a minute) and has the potential to be used clinically in the future. We note that the microrheometer here can be easily extended to studies of mechanics of single cell, nucleus, as well as other cell/tissue types.

bioengineering↗

Deletion of Cd248 in Postn positive myofibroblast Fails to Attenuate Cardiac Remodeling and Fibrosis in a Murine Model of Pressure-Overload Cardiomyopathy

BackgroundCardiac fibrosis, driven by activated Periostin (Postn)-expressing myofibroblasts, is a key pathophysiological feature of heart failure induced by pressure overload. The clinic trial tested tumor vascular regulator CD248 has been validated as a potential anti-fibrotic target in ischemic heart injury. We therefore tested the hypothesis that targeting Cd248 specifically in Postn+ myofibroblasts ameliorates pressure-overload cardiomyopathy. MethodsSingle-cell RNA-sequencing data from murine hearts subjected to transverse aortic constriction (TAC) were analyzed to quantify the Cd248+/Postn+ fibroblast population. Subsequently, Postn+ myofibroblast-specific inducible Cd248 knockout mice were subjected to TAC. Gene deletion was induced with tamoxifen from the day of surgery. Cardiac remodeling and function were analyzed 8 weeks after TAC. ResultsAnalysis of scRNAseq data confirmed that about 1/3 of the fibroblasts in the 14-day TAC heart are Cd248+Postn+ fibroblasts. However, comprehensive echocardiographic analysis revealed no significant differences in key parameters of cardiac function or dimensions, including left ventricular ejection fraction, ventricular volumes, wall thickness and global muscle strain between PostnMCM+/-;Cd248fl/fl and PostnMCM+/- controls. Histological analysis at 8 weeks also showed no significant alteration in the extent of interstitial or perivascular fibrosis, myocardial vessel density, or cardiomyocyte hypertrophy. ConclusionThe specific deletion of Cd248 in Postn-expressing myofibroblasts does not mitigate pathological remodeling or fibrosis in response to chronic pressure overload. These findings suggest the role of Cd248 in this cell lineage is not a primary driver of pressure-overload pathology. Therefore, a better understanding of the context-dependent functions of CD248 is critical to successfully guide the clinical translation of CD248-based anti-fibrotic therapies.

pathology↗

Combinatorial protein barcodes enable self-correcting neuron tracing with nanoscale molecular context

Mapping nanoscale neuronal morphology with molecular annotations is critical for understanding healthy and dysfunctional brain circuits. Current methods are constrained by image segmentation errors and by sample defects (e.g., signal gaps, section loss). Genetic strategies promise to overcome these challenges by using easily distinguishable cell identity labels. However, multicolor approaches are spectrally limited in diversity, whereas nucleic acid barcoding lacks a cellfilling morphology signal for segmentation. Here, we introduce PRISM (Protein-barcode Reconstruction via Iterative Staining with Molecular annotations), a platform that integrates combinatorial delivery of antigenically distinct, cell-filling proteins with tissue expansion, multi-cycle imaging, barcode-augmented reconstruction, and molecular annotation. Protein barcodes increase label diversity by >750-fold over multicolor labeling and enable morphology reconstruction with intrinsic error correction. We acquired a [~]10 million {micro}m3 volume of mouse hippocampal area CA2/3, multiplexed across 23 barcode antigen and synaptic marker channels. By combining barcodes with shape information, we achieve an 8x increase in automatic tracing accuracy of genetically labelled neurons. We demonstrate PRISM supports automatic proofreading across micron-scale spatial gaps and reconnects neurites across discontinuities spanning hundreds of microns. Using PRISMs molecular annotation capability, we map the distribution of synapses onto traced neural morphology, characterizing challenging synaptic structures such as thorny excrescences (TEs), and discovering a size correlation among spatially proximal TEs on the same dendrite. PRISM thus supports selfcorrecting neuron reconstruction with molecular context.

neuroscience↗

Cardiomyocyte-expressed TGFβ signals to fibroblasts to program early heart maturation and adult myocyte identity

Transforming growth factor {beta} (TGF{beta}) is a secreted growth factor that is sequestered to the extracellular matrix (ECM) as a latent complex. In adult disease TGF{beta} release in the heart transforms fibroblasts into a differentiated state that synthesizes more ECM. However, it is not known how TGF{beta} functions in the early developing heart to impact resident fibroblasts. Here, we observe that deletion of the Tgfb1, Tgfb2, and Tgfb3 genes (TGF{beta} ligands) from cardiomyocytes in the early developing heart results in cardiac dysfunction by 6 weeks of age with altered fibroblast activity and altered ECM content. Early postnatal hearts from Tgfb1/2/3 cardiomyocyte-deleted mice are dysmorphic and cardiac fibroblasts have incorrect activity and produce inappropriate ECM with reduced stiffness. Gene expression profiling of hearts from myocyte-specific Tgfb1/2/3 deleted mice reveal defects in both cardiomyocyte and fibroblast maturation with ectopic expression of multiple skeletal muscle-specific genes beginning at embryonic day 17.5 and progressing with age. However, cardiomyocyte-specific deletion of TGF{beta} receptors I/II encoding genes (Tgfbr1/2) or Smad2/3 encoding genes (Smad2/3) do not recapitulate this phenotype suggesting that TGF{beta} directly programs early heart fibroblast development that in turn specifies cardiomyocyte maturation. Importantly, Col1a2-/-;Col6a2-/- mice with defective cardiac ECM stiffness, mice lacking cardiomyocyte Itgb1 with reduced ECM load sensing, and Tcf21-/- embryos at E17.5 lacking cardiac fibroblasts each fail to generate the same pathologic ECM program with ectopic cardiomyocyte differentiation observed with Tgfb1/2/3 myocyte-specific deletion. These and additional results indicate that TGF{beta} generated by cardiomyocytes in the embryonic heart mediates fibroblast differentiation that co-evolves the ECM environment that in turn programs cardiomyocyte maturation to establish their identity.

developmental biology↗

A surface morphology-based inference method for the cell wall elasticity profile in tip-growing cells

Plant development and adaptation are highly dependent on cell morphology and growth. High turgor pressure in plants causes stress on the cell wall, followed by cell extension. In tip-growing cells, the localization of vesicles and cytoskeleton components has been well studied. However, there has been a lack of attention to the spatial profile of mechanical properties, specifically the cell wall elasticity. In this study, we introduce a new surface morphology-based method to measure the elasticity of the cell wall in tip-growing cells. Previous work is based on measurements from the wall meridional outline, a technique that cannot track the elastic deformation of the cell wall experimentally. Instead, we developed a way to infer the bulk modulus distribution from the cell surface by triangulating experimental marker points coming from fluorescent labeling. To justify the use of our protocol in tip-growing cells from the moss Physcomitrium patens, we replicated the experimental noise and moss morphology in simulated cells. In practice, we found that a larger triangulation improved robustness against noise, which agreed with our theoretical study. With multiple cell sampling, we determined that 10 cells were sufficient to recover the elasticity distribution with noise, but only when the elastic stretches were high enough. We then created a dimensionless map of inference error to verify a spatial change of P. patens bulk modulus within two folds. This technique will open the field to more comprehensive measurements of cell wall elasticity, providing a key step in understanding tip cell growth and morphogenesis. Author summaryTip-growing cells can be characterized by their fast growth concentrated at the cells apex. Their growth and morphogenesis are tightly regulated processes involving cell wall addition and rearrangement while the cell wall is under stress originating from the cells internal turgor pressure. We start by studying the cell walls elastic properties, one aspect of the cell growth process. We use a method of marker point tracking across the surface of the tip-growing cell to measure the walls elasticity profile. In this work, we present a parameter sensitivity study of this method on synthetic cells and report our results on experimental moss tip-growing cells. Our results suggest that this inference method can reliably measure a cell wall elasticity gradient under combined geometric and mechanical conditions that create elastic strains within 5% at the tip.

plant biology↗

The Eukaryotic homology search complex distorts donor DNA structure to probe for homology

Homologous recombination (HR) is a DNA double-strand break repair pathway that facilitates genetic exchange and protects damaged replication forks during DNA synthesis. As a template-based repair process, the successful repair of a double-strand break depends on locating suitable homology from a donor DNA sequence elsewhere in the genome. In eukaryotes, Rad51 catalyzes the homology search in coordination with the ATP-dependent motor protein Rad54. The mechanism by which these two proteins regulate forces on dsDNA substrates during homology search remains unknown. Here, we have utilized single-molecule magnetic tweezers and optical trapping methods to monitor remodeling of the DNA template during the homology search. We find that the activity of Rad51 and Rad54 remodels the donor DNA substrate to control the association and dissociation of Rad51-ssDNA filaments in the absence of DNA homology. This mechanism occurs through the application of both linear (tension) and rotational (torsion) forces on the donor DNA. Finally, failure of Rad54 to act processively disrupts target selection in vivo. This study provides a basic understanding of how motorized homology search manipulates the donor DNA during the search for a suitable repair template. Significance StatementHomologous recombination (HR) is a double-strand DNA break repair pathway that utilizes a template-based target search process to locate a suitable homologous DNA sequence in the genome, thereby initiating DNA repair. Called the homology search, in eukaryotes, this process is carried out by the RecA family member Rad51. During the homology search, Rad51 collaborates with the motor protein Rad54 to identify and interrogate homologous DNA sequences within the genome. In this study, we have measured the forces applied by the combination of Rad51 and Rad54 to the donor DNA duplex. These measurements reveal a coordinated effort by these motor proteins to remodel donor DNA to probe for homology, shedding new light on how template-based homology searches interrogate the DNA strands.

biochemistry↗