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Klein, I.

Publications and source records attributed to Klein, I..

7 recordsLinked to original sources

Symmetry-Based Center and Rotation Refinement for Fiber Diffraction Patterns

X-ray fiber diffraction patterns exhibit four-fold symmetry that can be exploited, through folding and averaging, to improve signal-to-noise ratio. Accurate folding requires a precise sub-pixel estimate of the symmetry center and precise orientation of the meridional pattern axis to the fiber axis: small center or angular errors blur diffraction features, reduce layer-line sharpness, and introduce errors in spacing measurements. A pixel-level estimate is often too imprecise for this purpose, and detector gaps further complicate the alignment objective. We formulate the masked quadrant-folding problem, define a four-quadrant symmetry loss that consistently excludes invalid pixels, and evaluate several refinement strategies: hierarchical coarse-to-fine grid search; ECC-based rigid registration with global center/orientation correction fitting; ECC registration followed by local gradient refinement; and a hybrid that appends a local grid search on a cropped pattern. Direct gradient optimization from the rough QF alignment was found to be unreliable. Grid search provides a robust, interpretable baseline that directly minimizes the folding objective but is substantially slower than registration; ECC gives a fast near-correct alignment, and the hybrid closes the accuracy gap to brute-force search at a fraction of its runtime. On real datasets with calibration data, applying a calibration center with optimized rotation is effectively optimal. The hybrid center-refinement method has been integrated into the MuscleX package.

biophysics↗

Membrane Tension Integrates Physical and Signaling Cues to Gate Cell Fate Transitions

Physical forces shape cell behavior, yet how they integrate with signaling to control fate and disease remains unclear. The alveolar epithelium is patterned by FGF signaling and mechanical stretch, but how these cues specify AT1 and AT2 cells is poorly understood. Here we show that cell membrane tension (CMT) is a conserved regulator of epithelial fate in mouse and human lungs. CMT drops before differentiation and is spatially patterned, defining where bipotent progenitors acquire AT1 or AT2 identity. Lower CMT enhances FGFR2 endocytosis and ERK signaling to drive AT2 differentiation and permits architectural remodeling that enables stretch-mediated YAP/TAZ nuclear entry for AT1 maturation. {beta}-catenin elevates CMT cell-intrinsically independent of its role in canonical WNT transcription, while embedding, osmotic compression, or fibroblast wrapping elevate CMT extrinsically. Combined intrinsic and extrinsic tension traps alveolar epithelial cells in a KRT8 transitional state seen in fibrotic lungs. Membrane tension thus integrates physical and molecular cues linking morphogenesis to fibrosis. Graphical Abstract O_FIG O_LINKSMALLFIG WIDTH=160 HEIGHT=200 SRC="FIGDIR/small/708749v1_ufig1.gif" ALT="Figure 1"> View larger version (52K): org.highwire.dtl.DTLVardef@1a9c04forg.highwire.dtl.DTLVardef@190bee2org.highwire.dtl.DTLVardef@1e41664org.highwire.dtl.DTLVardef@17a3ec7_HPS_FORMAT_FIGEXP M_FIG C_FIG In BriefWe identify a conserved drop in cell membrane tension (CMT) that gates epithelial fate transitions across mouse and human lungs. In bipotent progenitors, reduced CMT promotes Alveolar Type 2 (AT2) fate via FGFR2 endocytosis and ERK signaling, as well as Alveolar Type 1 (AT1) fate by enabling architectural remodeling required for YAP/TAZ nuclear entry. We further show that intrinsic {beta}-catenin and extrinsic confinement cues, including mesenchymal contact, converge to elevate CMT, restricting differentiation and--in adult AT2s--inducing a KRT8 transitional state associated with fibrosis. HighlightsO_LICell membrane tension drops before differentiation and is required for AT1 and AT2 fate acquisition. C_LIO_LIReduced tension enhances FGFR2 endocytosis and ERK signaling to drive AT2 specification. C_LIO_LIReduced tension permits architectural remodeling and YAP/TAZ nuclear entry required for AT1 maturation. C_LIO_LIIntrinsic {beta}-catenin and extrinsic confinement elevate CMT to restrict differentiation and together strongly induce a KRT8 transitional state associated with fibrosis. C_LI

cell biology↗

The transcriptomic landscape of spinal V1 interneurons reveals a role for En1 in specific elements of motor output

Neural circuits in the spinal cord are composed of diverse sets of interneurons that play crucial roles in shaping motor output. Despite progress in revealing the cellular architecture of the spinal cord, the extent of cell type heterogeneity within interneuron populations remains unclear. Here, we present a single-nucleus transcriptomic atlas of spinal V1 interneurons across postnatal development. We find that the core molecular taxonomy distinguishing neonatal V1 interneurons perdures into adulthood, suggesting conservation of function across development. Moreover, we identify a key role for En1, a transcription factor that marks the V1 population, in specifying one unique subset of V1Pou6f2 interneurons. Loss of En1 selectively disrupts the frequency of rhythmic locomotor output but does not disrupt flexion/extension limb movement. Beyond serving as a molecular resource for this neuronal population, our study highlights how deep neuronal profiling provides an entry point for functional studies of specialized cell types in motor output.

neuroscience↗

Endocytic adaptor AP-2 maintains Purkinje cell function by balancing cerebellar parallel and climbing fiber synapses

The selective loss of cerebellar Purkinje cells is a hallmark of various neurodegenerative movement disorders, yet the precise mechanism driving their degeneration remains enigmatic. Here, we show that the endocytic adaptor protein complex 2 (AP-2) is essential for the survival of Purkinje cells. Employing a multidisciplinary approach encompassing mouse genetics, viral tracing, ex vivo calcium imaging, and kinematic analysis, we demonstrate that mice lacking the {micro}-subunit of AP-2 in cerebellar Purkinje cells exhibit early-onset ataxia associated with progressive Purkinje cell degeneration. Importantly, we uncover that synaptic input dysfunctions, characterized by a predominance of parallel fiber (PF) over climbing fiber (CF) synapses, precede Purkinje cell loss. Mechanistically, we find that AP-2 localizes to Purkinje cell dendrites, where it interacts with the PF synapse-enriched protein GRID2IP. The loss of AP-2 results in proteasome-dependent degradation of GRID2IP and accumulation of the glutamate {delta}2 receptor (GLUR{delta}2) in distal Purkinje cell dendrites, leading to an excess of PF synapses while CF synapses are drastically reduced. The overrepresentation of PF synaptic input induces Purkinje cell hyperexcitation, which can be alleviated by enhancing synaptic glutamate clearance using the antibiotic ceftriaxone. Our findings demonstrate the critical role of AP-2 in preventing motor gait dysfunctions by regulating GRID2IP levels in Purkinje cells, thereby preserving the equilibrium of PF and CF synaptic inputs in a cell-autonomous manner.

neuroscience↗

AutoGaitA - Automated Gait Analysis in Python

Individual behaviours require the nervous system to execute specialised motor programs, each characterised by unique patterns of coordinated movements across body parts. Deep learning approaches for body-posture tracking have facilitated the analysis of such motor programs. However, translating the resulting time-stamped coordinate datasets into meaningful kinematic representations of motor programs remains a long-standing challenge. We developed the versatile quantitative framework AutoGaitA (Automated Gait Analysis), a Python toolbox that enables comparisons of motor programs at multiple levels of granularity and across tracking methods, species and behaviours. AutoGaitA allowed us to demonstrate that flies, mice, and humans, despite divergent biomechanics, converge on the age-dependent loss of propulsive strength, and that, in mice, locomotor programs adapt as an integrated function of both age and task difficulty. AutoGaitA represents a truly universal framework for robust analyses of motor programs and changes thereof in health and disease, and across species and behaviours.

animal behavior and cognition↗

Autophagy regulator ATG5 preserves cerebellar function by safeguarding its glycolytic activity

Dysfunctions in autophagy, a highly conserved cellular mechanism responsible for the degradation of intracellular components within lysosomes, often result in neurodegeneration. The neuroprotective effect of autophagy varies across neuronal subtypes, and the mechanisms of selective vulnerability of neurons to autophagy dysfunction are currently unknown. Utilizing a mouse model of ATG5 deficiency in inhibitory neurons and a comprehensive approach, including PET imaging, metabolomics, stable-isotope labeling studies, and live cell imaging, we establish that autophagy contributes to the survival of cerebellar Purkinje cells (PCs) by safeguarding their glycolytic activity. We show that the core autophagy protein ATG5 downregulates the levels of the glucose transporter 2 (GLUT2) during brain maturation. Autophagy-deficient PCs exhibit increased glucose uptake, along with elevated levels of glycolytic intermediates and methylglyoxal-modified proteins. We propose lysophosphatidic acid and serine as glycolytic intermediates inducing PC death and demonstrate that deletion of GLUT2 in ATG5-deficient mice mitigates PC neurodegeneration and restores their ataxic gait. Taken together, this study reveals a novel neuroprotective role of autophagy in preventing excessive glycolytic metabolism in the brain.

neuroscience↗

Improving vaccine efficacy based on non-covalent photoinactivation of microorganisms - sources vaccine antigens (MSVA)

One of the most promising methods for non-covalent inactivation of vaccine-producing microorganisms is the use of photoinactivation using riboflavin derivatives. The study used a dynamic combinatorial derivative of riboflavin - succinyl-maleinyl riboflavin. Corpuscular vaccines are divided into the following groups: from 2AB to 5AB - bacteria were inactivated by riboflavin derivative and blue light, and groups from 6AB to 9AB were inactivated by formalin (0.1% formalin in 9 log CFU was kept for 2 weeks in an thermostat and then sterility was determined - bacterial growth was not observed). A dynamic derivative of riboflavin at a final concentration of 0.02% can photo inactivate 6 time more bacteria P. Aeruginosa and E. coli than riboflavin. The minimum effective blue light emitter power (450 nm) for the photodynamic inactivation of both P. aeruginosa and E. coli is 1024.2 mW / cm2. In groups of mice pre-vaccinated intraperitoneally with corpuscular photo inactivated vaccines based on suspensions of and E. coli at doses of 0.5-1.0 ml 4 log (CFU) / mL, 100% survival of all animals was observed, whereas in control group with the same type of vaccines but formalin-treated vaccines, it failed to achieve a 100% protective effect.

microbiology↗