Biology subjects

Bayly, P. V.

Publications and source records attributed to Bayly, P. V..

10 recordsLinked to original sources

bioRxiv2025

Characterization of mechanical tissue properties in post-mortem human brain using magnetic resonance elastography

Traumatic brain injury (TBI) is a serious health condition that can cause neurological dysfunction to varying degrees depending on the nature of the mechanical insult. In biomechanical studies of TBI under high loading conditions, post-mortem human subjects (PMHS) are often used since ethical concerns prohibit such experiments in living human subjects. Because PMHS brains undergo significant changes following death, it is important to understand the relationship between the mechanical properties of PMHS brain tissue and living tissue. In this study, we performed magnetic resonance elastography (MRE) on three PMHS specimens to estimate the material properties of the cadaveric brain, namely the storage modulus and the loss modulus, as well as the resulting shear stiffness and damping ratio. We also performed longitudinal MRE scans on one of the PMHS over the span of two months to investigate the evolution of tissue properties with post-mortem degradation. In comparison to in vivo subjects of age range 70-75 years, a substantially higher stiffness (mean: 5.96kPa) and lower damping ratio (mean: 0.09) were found in PMHS models. This study also revealed an initial increase in shear stiffness up to the seventh day post-mortem, followed by a steady decrease by the fifty-eighth day. However, the damping ratio displayed an opposite trend to that of shear stiffness. These changes were heterogeneous across brain regions. The collected measurements and analysis elucidate the changes in mechanical properties in post-mortem subjects, and can be used to build and validate computational models of TBI.

neuroscience↗

bioRxiv2025

Measurement of residual stress in the brain

Mechanical stress in brain tissue is an important feature of the brain, likely to play key roles in brain development and brain injury. Here, we characterize residual stresses in grey matter and white matter from the deformed shape of tissue cylinders extracted from the brain using a biopsy needle and imaged with high-resolution magnetic resonance imaging (MRI). We use finite element simulations to reconstruct the stress state of tissue sections in the intact brain from images of corresponding sections of the deformed excised tissue. In both adult mouse and Yucatan minipig brains, cortical grey matter exhibited predominantly compressive stresses, while white matter exhibited strongly anisotropic tensile stresses. The direction of maximum tension in white matter generally aligns with axon orientation as observed with diffusion MRI in the minipig. These stress patterns (compressive in cortical grey matter, tensile along axons) are consistent with constrained cortical expansion and tension-induced axonal growth during brain development. These findings offer new insights into the biomechanical factors underlying brain morphogenesis, with implications for understanding neurodevelopmental disorders, brain injuries, and neurosurgical interventions.

bioengineering↗

bioRxiv2024

Cilia dysfunction in the lateral ventricles after neonatal intraventricular hemorrhage does not lead to functional changes in cilia-based CSF flow networks

Intraventricular hemorrhage (IVH) has long been thought to lead to motile cilia dysfunction whereby intraventricular blood breakdown products damage and slough cilia from the ependymal wall. However, specifically how IVH may affect cilia development, structure, and transcriptional activation is not well-understood. Moreover, the impact of blood breakdown product-mediated cilia damage on the functional organization of cilia-based CSF flow networks is unknown. Here, we show hemoglobin exposure affects the number of ciliated ependymal cells in the lateral ventricle (LV) but does not impact in vitro beat frequency of the remaining cilia. Ultrastructurally, IVH decreases the total number of ciliary tufts without impacting axoneme structure. IVH does not result in changes in the expression of cilia-related genes and instead leads to downregulation of neurogenesis markers in parallel with innate immune upregulation. Functionally, we identify three previously uncharacterized cilia-mediated CSF flow domains in the LV lateral wall and show that IVH does not result in widespread disruption of their functional organization. These data de-emphasize cilia as a major contributor to global CSF dysfunction after IVH, and instead call attention to preserving the neurodevelopmental environment and preventing runaway innate immune system activation, as considerations to developing treatment strategies to prevent posthemorrhagic hydrocephalus and other neurodevelopmental sequelae.

neuroscience↗

bioRxiv2024

Mechanical Properties of White Matter Tracts in Aging Assessed via Anisotropic MR Elastography

Magnetic resonance elastography (MRE) is a promising neuroimaging technique to probe tissue microstructure, which has revealed widespread softening with loss of structural integrity in the aging brain. Traditional MRE approaches assume mechanical isotropy. However, white matter is known to be anisotropic from aligned, myelinated axonal bundles, which can lead to uncertainty in mechanical property estimates in these areas when using isotropic MRE. Recent advances in anisotropic MRE now allow for estimation of shear and tensile anisotropy, along with substrate shear modulus, in white matter tracts. The objective of this study was to investigate age-related differences in anisotropic mechanical properties in human brain white matter tracts for the first time. Anisotropic mechanical properties in all tracts were found to be significantly lower in older adults compared to young adults, with average property differences ranging between 0.028-0.107 for shear anisotropy and between 0.139-0.347 for tensile anisotropy. Stiffness perpendicular to the axonal fiber direction was also significantly lower in older age, but only in certain tracts. When compared with fractional anisotropy measures from diffusion tensor imaging, we found that anisotropic MRE measures provided additional, complementary information in describing differences between the white matter integrity of young and older populations. Anisotropic MRE provides a new tool for studying white matter structural integrity in aging and neurodegeneration.

neuroscience↗

bioRxiv2022

Intracellular connections between basal bodies promote the coordinated behavior of motile cilia

Hydrodynamic flow produced by multi-ciliated cells is critical for fluid circulation and cell motility. Hundreds of cilia beat with metachronal synchrony for fluid flow. Cilia-driven fluid flow produces extracellular hydrodynamic forces that cause neighboring cilia to beat in a synchronized manner. However, hydrodynamic coupling between neighboring cilia is not the sole mechanism that drives cilia synchrony. Cilia are nucleated by basal bodies (BBs) that link to each other and to the cells cortex via BB-associated appendages. The intracellular BB and cortical network is hypothesized to synchronize ciliary beating by transmitting cilia coordination cues. The extent of intracellular ciliary connections and the nature of these stimuli remain unclear. Moreover, how BB connections influence the dynamics of individual cilia has not been established. We show by FIB-SEM imaging that cilia are coupled both longitudinally and laterally in the ciliate Tetrahymena thermophila by the underlying BB and cortical cytoskeletal network. To visualize the behavior of individual cilia in live, immobilized Tetrahymena cells, we developed Delivered Iron Particle Ubiety Live Light-(DIPULL) microscopy. Quantitative and computer analyses of ciliary dynamics reveal that BB connections control ciliary waveform and coordinate ciliary beating. Loss of BB connections reduces cilia-dependent fluid flow forces. SummarySoh et al investigate whether intracellular connections between basal bodies control ciliary behavior in multi-ciliated cells. Using a Tetrahymena live cell immobilization technique to quantify ciliary dynamics, they show that inter-BB connections are required for effective ciliary waveform and coordinated ciliary beating that promotes fluid flow.

cell biology↗

bioRxiv2021

Islet primary cilia motility controls insulin secretion

Primary cilia are specialized cell-surface organelles that mediate sensory perception and, in contrast to motile cilia and flagella, are thought to lack motility function. Here we show that primary cilia in pancreatic beta cells exhibit movement that is required for glucose-dependent insulin secretion. Beta cell cilia contain motor proteins conserved from those found in classic motile cilia, and their 3D motion is dynein-driven and dependent on ATP and glucose metabolism. Inhibition of cilia motion blocks beta cell calcium influx and insulin secretion. Beta cells from humans with type 2 diabetes have altered expression of cilia motility genes. Our findings redefine primary cilia as dynamic structures possessing both sensory and motile function and establish that pancreatic beta cell cilia movement plays a critical role in controlling insulin secretion.

cell biology↗

bioRxiv2021

Development and Validation of Subject-Specific 3D Human Head Models Based on a Nonlinear Visco-Hyperelastic Constitutive Framework

Computational models of the human head are promising tools for the study and prediction of traumatic brain injuries (TBIs). Most available head models are developed using inputs (i.e., head geometry, material properties, and boundary conditions) derived from ex-vivo experiments on cadavers or animals and employ linear viscoelasticity (LVE)-based constitutive models, which leads to high uncertainty and poor accuracy in capturing the nonlinear response of brain tissue under impulsive loading conditions. To resolve these issues, a framework for the development of fully subject-specific 3D human head models is proposed, in which model inputs are derived from the same living human subject using a comprehensive in-vivo brain imaging protocol, and the viscous dissipation-based visco-hyperelastic constitutive modeling framework is employed. Specifically, brain tissue material properties are derived from in-vivo magnetic resonance elastography (MRE), and full-field strain-response of brain under rapid rotational acceleration is obtained from tagged MRI, which is used for model validation. The constitutive model comprises the Ogden hyperelastic strain energy density and the Upadhyay-Subhash-Spearot viscous dissipation potential. The simulated strain-response is compared with experimental data and with predictions from subject-specific models employing two commonly used LVE-based constitutive models, using a rigorous validation procedure that evaluates agreement in spatial strain distribution, temporal strain evolution, and differences in maximum values of peak and average strain. Results show that the head model developed in this work reasonably captures 3D brain dynamics, and when compared to LVE-based models, provides improvements in the prediction of peak strains and temporal strain evolution.

bioengineering↗

bioRxiv2018

How does cilium length affect beating?

The effects of cilium length on the dynamics of cilia motion were investigated by high-speed video microscopy of uniciliate mutants of the swimming alga, Chlamydomonas reinhardtii. Cells with short cilia were obtained by deciliating cells via pH shock and allowing cilia to reassemble for limited times. The frequency of cilia beating was estimated from motion of the cell body and of the cilium. Key features of the ciliary waveform were quantified from polynomial curves fitted to the cilium in each image frame. Most notably, periodic beating did not emerge until the cilium reached a critical length between 2-4 {micro}m. Surprisingly, in cells that exhibited periodic beating, the frequency of beating was similar for all lengths with only a slight decrease in frequency as length increased from 4 {micro}m to the normal length of 10-12 {micro}m. The waveform average curvature (rad/{micro}m) was also conserved as the cilium grew. The mechanical metrics of ciliary propulsion: force, torque, and power all increased in proportion to length. Mechanical efficiency of beating appeared to be maximal at the normal wild-type length of 10-12 m. These quantitative features of ciliary behavior illuminate the biophysics of cilia motion and, in future studies, may help distinguish competing hypotheses of the underlying mechanism of oscillation.

biophysics↗

bioRxiv2017

Dynamic patterns of cortical expansion during folding of the preterm human brain

During the third trimester of human brain development, the cerebral cortex undergoes dramatic surface expansion and folding. Physical models suggest that relatively rapid growth of the cortical gray matter helps drive this folding, and structural data suggests that growth may vary in both space (by region on the cortical surface) and time. In this study, we propose a new method to estimate local growth from sequential cortical reconstructions. Using anatomically-constrained Multimodal Surface Matching (aMSM), we obtain accurate, physically-guided point correspondence between younger and older cortical reconstructions of the same individual. From each pair of surfaces, we calculate continuous, smooth maps of cortical expansion with unprecedented precision. By considering 30 preterm infants scanned 2-4 times during the period of rapid cortical expansion (28 to 38 weeks postmenstrual age), we observe significant regional differences in growth across the cortical surface that are consistent with patterns of active folding. Furthermore, these growth patterns shift over the course of development, with non-injured subjects following a highly consistent trajectory. This information provides a detailed picture of dynamic changes in cortical growth, connecting what is known about patterns of development at the microscopic (cellular) and macroscopic (folding) scales. Since our method provides specific growth maps for individual brains, we are also able to detect alterations due to injury. This fully-automated surface analysis, based on tools freely available to the brain mapping community, may also serve as a useful approach for future studies of abnormal growth due to genetic disorders, injury, or other environmental variables.\n\nSignificance StatementThe human brain exhibits complex folding patterns that emerge during the third trimester of fetal development. Minor folds are quasi-randomly shaped and distributed. Major folds, in contrast, are more conserved and form important landmarks. Disruption of cortical folding is associated with devastating disorders of cognition and emotion. Despite decades of study, the processes that produce normal and abnormal folding remain unresolved, although the relatively rapid tangential expansion of the cortex has emerged as a driving factor. Accurate and precise measurement of cortical growth patterns during the period of folding has remained elusive. Here, we illuminate the spatiotemporal dynamics of cortical expansion by analyzing MRI-derived surfaces of preterm infant brains, using a novel strain energy minimization approach.

neuroscience↗

bioRxiv2017

Multimodal Surface Matching with Higher-Order Smoothness Constraints

The accurate alignment of brains is fundamental to the statistical sensitivity and spatial localisation of group studies in brain imaging, and cortical surface-based alignment is generally accepted to be superior to volume-based approaches at aligning cortical areas. However, human subjects have considerable variation in cortical folding, and in the location of cortical areas relative to these folds, which makes aligning cortical areas based on folding alone a challenging problem. The Multimodal Surface Matching (MSM) tool is a flexible spherical registration approach that enables accurate registration of surfaces based on a variety of different features. Using MSM, we have previously shown that using areal features such as resting state-networks and myelin maps to drive cross-subject surface alignment improves group task fMRI statistics and map sharpness. However, the initial implementation of MSMs regularisation function did not penalize all forms of surface distortion evenly. In some cases, this allowed peak distortions to exceed neurobiologically plausible limits unless the regularisation strength was increased, in which case this prevented the algorithm from fully maximizing surface alignment. Here, we propose a new regularisation penalty, derived from physically relevant equations of strain (deformation) energy, and demonstrate that its use leads to improved and more robust alignment of multi-modal imaging data. In addition, since spherical warps incorporate projection distortions that are unavoidable when mapping from a convoluted cortical surface to the sphere, we also propose constraints to enforce smooth deformation of cortical anatomies. We test the impact of this approach for longitudinal modeling of cortical development for neonates (born between 32 and 45 weeks) and demonstrate that the proposed method increases the biological interpretability of the distortion fields and improves the statistical significance of population-based analysis relative to other spherical methods.

neuroscience↗