Biology subjects

Rezaei, B.

Publications and source records attributed to Rezaei, B..

6 recordsLinked to original sources

bioRxiv2026

Real-Time Neurotransmitter Sensing in Midbrain Organoids Using 3D Carbon Cup Electrodes

Real time, chemically selective detection of neurotransmitter release in brain organoids remains a challenge due to their complex three dimensional architecture and limited optical accessibility. We introduce 3D printed carbon cup electrodes (CCEs) -pyrolyzed, multi level pillar structures - designed to confine a single organoid, increase electroactive surface area, and enable amperometric recordings of oxidizable neurotransmitters. The CCEs exhibit excellent electrochemical performance and reproducibility, supporting diffusion controlled dopamine redox behavior without interference from culture medium. Using ventral midbrain (vMB) organoids at two maturation stages (Day 30 and Day 90), we demonstrate real time detection of potassium evoked dopamine release directly from organoids. Mature organoids exhibit higher peak currents, correlating with increased tyrosine hydroxylase (TH) expression confirmed by immunocytochemistry. Embedding organoids in Matrigel significantly attenuates dopamine signals, indicating a diffusion barrier that limits stimulant access and/or dopamine transport to the electrode. Repetitive stimulations reveal progressive depletion of dopamine stores, consistent with diminished vesicular release. Chemical perturbations using 6 hydroxydopamine and verapamil further validate the platform by producing substantial reductions in dopamine release accompanied by loss of TH neurons. These results establish CCEs as a powerful tool for label free, real-time monitoring of neurotransmission in human organoids, with potential for multiplexed sensing and integration of enzymatic detection strategies for non electroactive neurotransmitters.

neuroscience↗

bioRxiv2026

Embedded Printing-Derived Pyrolytic Carbon Electrodes with Graphene-like Features for Neural Stem Cell Differentiation and Dopamine Sensing

Carbon is a versatile electrode material that is used in applications ranging from electrical energy storage and electrosynthesis to CO2 conversion, H2 production, and biosensing. The development of pyrolytic carbon electrodes derived from lithographically patterned photoresist structures has expanded the possibilities for creating diverse 2D and 3D electrode designs. In this paper, we present disc-shaped SU-8-derived pyrolytic carbon scaffold electrodes with an open hexagonal honeycomb lattice. The scaffolds were fabricated, using embedded 3D printing within a shear-thinning support bath composed of fused silica nanoparticles (7% w/v) in mineral oil. The rheological properties of the support bath were optimized to enable the printing of low-viscosity materials like SU-8, which would otherwise lack structural integrity in standard extrusion-based 3D printing. The SU-8 scaffolds were then pyrolyzed and characterized using SEM, Raman spectroscopy, Energy Dispersive X-ray, X-ray Photoelectron Spectrometry, and Transmission Electron Microscopy, which revealed graphene-like 'microflowers' on its surface. Electrochemical analysis demonstrated excellent electrochemical properties. The functionality of the scaffold electrodes was validated by differentiation of human neural stem cells into dopaminergic neurons on the scaffold surface, followed by real-time detection of dopamine exocytosis upon cell depolarization.

bioengineering↗

bioRxiv2026

3D Printed X-ray Compatible Microfluidics for Online Characterization of Hexosomes: A Synchrotron SAXS-on-Chip Study with Molecular Dynamics Insights

Online structural characterization during microfluidic lipid self-assembly is important for understanding and controlling the formation of nonlamellar liquid crystalline nanodispersions. Here, we report a 3D-printed, X-ray-compatible hydrodynamic flow-focusing microfluidic chip with variable channel dimensions, integrated with synchrotron small-angle X-ray scattering (SAXS), for position-resolved SAXS-on-chip monitoring of Ca2+-triggered hexosome formation. Hexosomes were produced under continuous flow by mixing ethanolic solutions of docosahexaenoic acid monoglyceride (MAG-DHA), the negatively charged phosphatidylglycerol DOPG, and -tocopherol with Ca2+-containing PIPES buffer. Online SAXS-on-chip measurements detected three Bragg reflections characteristic of the internal inverse hexagonal (H2) phase on a tens-of-milliseconds residence-time scale, revealing rapid structural evolution during microfluidic mixing. Complementary ex situ SAXS identified the DOPG/Ca2+ molar ratio as a key parameter modulating the direct vesicle-to-hexosome transformation and the compactness of the internal H2 nanostructures. Dynamic light scattering showed that the flow-rate ratio modulated nanoparticle size, yielding hexosomes with mean hydrodynamic diameters in the range of approximately 120-175 nm and polydispersity index values down to 0.14 at a total flow rate of 200 {micro}L min-1. Cryo-TEM revealed coexistence of hexosomes and vesicular nanostructures, highlighting morphological heterogeneity, while Coarse-Grained Molecular Dynamics simulations supported a central role of Ca2+-DOPG association in promoting a direct lamellar-H2 phase transition. Overall, this work shows that 3D-printed SAXS-compatible microfluidics can integrate continuous production with online structural characterization, providing a basis for future formulation and process optimization of drug-loaded cubosomes, hexosomes, and related nonlamellar liquid crystalline nanodispersions.

biophysics↗

bioRxiv2026

Stress-Induced Mechanical Memory in Respiratory Mucus: Anisotropy, Network Reorganization, and Directional Transport

Mucus transport is essential for lung health, as ciliated cells constantly propel mucus outward to clear bacteria, viruses, and particles. This defense relies on a material that must be elastic enough to maintain ciliary traction, but capable of reorganizing under sustained directional loading. How the mucin network reconciles these demands, and whether it retains a memory of the stresses it experiences, remains poorly understood. Here we show that lung mucus develops a persistent, direction-dependent mechanical asymmetry under physiologically relevant stress--a mechanical memory encoded in the slow scaffold of the network. Using bulk rheology, we find that directional pre-stress produces a residual anisotropy that grows with stress magnitude and persists long after the load is removed. A transient network model attributes this memory to a separation of timescales between transient bonds and a long-lived crosslink scaffold, and particle-tracking microrheology confirms that the memory reorganizes the network geometry at the scale of biological particles, biasing tracer diffusion along the axis of applied stress. The stresses required to induce memory are within the range generated by ciliary beating and remain below the mucus yield threshold, suggesting that mucociliary clearance operates in a regime where directional alignment accumulates without compromising the coherence of the mucus layer. This proximity to yield may not be coincidental, it allows mucus to accumulate mechanical memory under physiological forcing while remaining poised to flow during clearance events such as coughing.

biophysics↗

bioRxiv2026

Viscoelastic flow-integrated Raman spectroscopy platform

We demonstrate the first viscoelastic-based flow-integrated Raman spectroscopy (FIRS) platform using spontaneous Raman spectroscopy with a simplified fluidic design that precisely controls particle transit speed and predicts arrival time to the Raman interrogation region, together with time synchronized triggered acquisition. Using viscoelastic flow focusing and optical detection of velocity for hardware triggering, the setup enables high-throughput, real-time Raman analysis of particles in continuous flow. The system operates with a single pressure pump, two sets of fiber-coupled lasers and detectors, and a microcapillary precisely aligned in a projection micro-stereolithography 3D-printed mount, and ensures detection stability across various flow rates. The demonstrated platform is modular and scalable. Detection rates of up to 80 cells per minute were achieved and dinoflagellate Alexandrium ostenfeldii cultures were analyzed. The integrated optical trigger mechanism supports future extensions such as cell sorting or additional analyses. A user-friendly graphical interface provides full control of fluidics, spectroscopy, and real-time monitoring, making this compact, low-cost FIRS platform accessible across a wide range of laboratory environments.

molecular biology↗

bioRxiv2025

Non-invasive characterization of oocyte deformability in micro-constrictions

Oocytes naturally present mechanical defects that hinder their development after fertilization. Thus, in the context of assisted reproduction, oocyte selection based on their mechanical properties has great potential to improve the quality of the resulting embryos and the success rate of these procedures. However, the use of mechanical properties as a quantifiable selective criterion requires robust and non-destructive measurement tools. This study developed a constriction-based microfluidic device that monitors the deformation of mouse oocytes under controlled pressure. The device can distinguish mechanically aberrant oocyte groups from healthy control ones. Based on a mathematical model, we propose that deformability measurements infer both oocyte tension and elasticity, elasticity being the most discriminating factor in our geometry. Despite force transmission during oocyte deformation, no long-term damage was observed. This non-invasive characterization of mouse oocyte deformability in micro-constrictions allows for a significant advance in assessing the mechanical properties of mammalian oocytes and has potential application as a quantifiable selective criterion in medically assisted reproduction. TeaserA measurement method for translating advances in oocyte mechanics into selection criteria for improving medically assisted reproduction.

developmental biology↗