Search bioRxiv⌕ Search

bioRxiv · 10.1101/2025.04.02.646858

Methods for Quantitative Analyses of Nerve Fiber Deformation in the Myenteric Plexus Under Loading of Mouse Distal Colon and Rectum

Abstract

Visceral pain in the large bowel is a hallmark of irritable bowel syndrome (IBS) and the primary reason patients seek gastroenterological care. Notably, mechanical distension of the distal colon and rectum (colorectum) reliably evokes abdominal pain and thus understanding mechanotransduction of sensory nerve endings (nerve fibers) in the colorectum is crucial for understanding and treating IBS-related bowel pain. To facilitate such understanding we aimed to establish novel methods to mechanically test, image, and analyze large-strain deformations of networks of nerve fibers in the myenteric plexus of the colorectum, and thus enable quantitative analyses. We successfully delivered circumferential deformation (force or displacement driven) to intact segments of colorectum while maintaining the myenteric plexus in focus during fluorescent imaging to capture the deforming nerve fibers. We also established a semi-automated method to recapitulate the network morphology and a code to calculate the stretch ratios of individual nerve fibers deforming within the myenteric plexus of mouse colorectum. Our code allows plotting of stretch ratios for each fiber, stretch ratios vs. fiber angle, and stretch ratios vs. fiber length. Our methods not only facilitate analyses of deformations of networks of colorectal nerve fibers in the context of visceral nociception but are also applicable to analyzing the in-plane deformation of other two-dimensional fiber networks. We provide free, public access to our analysis code for MATLAB, including input files for a simple test case, at github.uconn.edu/imLab/Fiber-Network_Analyses.

Source connections

Explore related subjects

Keep this discovery

Explore connections, maps & timelines

BibTeXRIS

Shokrani, A., Seck, A., Feng, B., Pierce, D. M.. 2025-04-08. Methods for Quantitative Analyses of Nerve Fiber Deformation in the Myenteric Plexus Under Loading of Mouse Distal Colon and Rectum. https://doi.org/10.1101/2025.04.02.646858

Cite the original work for its findings. Save a collection to share your selection of sources.

KEEP EXPLORING

Related preprints

Single-Component Photo-Crosslinked Lipoic Acid Functionalized Mucin Hydrogels: Dynamic Mucus Mimetics for Antiviral Protection

Native mucus protects epithelial surfaces through viscoelastic networks of disulfide-linked mucins. However, commercially available mucins often fail to reconstitute comparable mechanical and barrier properties, while synthetic and hybrid mucus mimetics require polymeric crosslinkers that may alter mucus-like composition. Inspired by the native architecture, we directly functionalized porcine gastric and bovine submaxillary mucins with -lipoic acid to develop a single-component, photo-crosslinkable hydrogels. Upon UV irradiation (365 nm), the modified mucins rapidly form disulfide-crosslinked networks without added photo-initiator/ polymeric crosslinkers, two orders of magnitude faster as compared with PEG-SH approaches. The resulting mucin-lipoic acid (MUC-LA) hydrogels exhibit mucus-relevant properties, including tunable viscoelasticity, redox responsiveness, self-healing, and size-dependent restrictions on nanoparticle transport. In transwell-based infection models, MUC-LA hydrogels (2-3%) mimicking the healthy airway mucus (G' {approx} 10-20 Pa) suppress epithelial infection by SARS-CoV-2 and influenza A virus. Crosslinked MUC-LA provides greater protection against SARS-CoV-2 than the non-crosslinked, whereas both formulations suppress influenza A infection, suggesting distinct contributions from network formation and mucin-associated interactions. These findings establish a dynamic, mucus-mimetic platform integrating rapid photo-gelation, controllable mechanics, selective transport, and antiviral barrier functionality. MUC-LA hydrogels offer opportunities to investigate mucosal transport and host-pathogen interactions, with potential applications in drug delivery, and as biomaterials.

bioengineering↗

Population-level emulation enables fast Bayesian calibration of cardiac digital twins

Purpose: Patient-specific cardiac digital twins have the potential to guide individualized therapy, but generating these in a routine clinical workflow remains challenging. This is especially true when the twins must carry quantified uncertainty: Bayesian calibration requires thousands of simulations per patient, and the emulators that reduce this cost are typically trained one patient at a time. We aimed to train a single emulator across a patient cohort, so that a new patient can be calibrated in minutes without new simulations. Methods: We trained a population-level Gaussian process emulator whose inputs included a 12-dimensional latent encoding of the clinical features of each patient, so that a single emulator represents the whole cohort. We compared spending simulation budgets on resampling the real cohort with augmenting the cohort with digital chimeras, synthetic patients interpolated between real patients. Seven parameters of a closed-loop heart and circulation model were calibrated by Markov chain Monte Carlo to ten clinical biomarkers in 26 patients with left bundle branch block, each using an emulator trained without that patient, and the calibrated posteriors were compared against the full simulator. Results: A single emulator, trained without the held-out patient, calibrated the digital twin of each patient in 59.7-63.0 s per patient, versus 15 h with the simulator. Resampling the real cohort was the more efficient training strategy, bringing every output to R2 greater than or equal to 0.9, which augmentation did not achieve for the same simulation budget. For held-out patients, both strategies performed comparably (median leave-one-out normalized root-mean-square error 11.0% vs. 10.7%; p = 0.745), and error rose with distance from the cohort centroid (Spearman rho = +0.406). The calibrated models showed no cohort-wide bias (median standardized residual -0.12 against the clinical targets), and 95% predictive intervals contained 78.5% of targets, with the largest misfit in systolic blood pressure. Conclusion: Removing the need for new simulations for every new patient is a meaningful step toward uncertainty-aware cardiac digital twins that fit within a routine clinical workflow. Because the simulator, surrogate and sampler are interchangeable, the approach used here can be applied to other (cardiac) models and cohorts.

bioengineering↗

Multi-Structure Segmentation of Type B Aortic Dissection from CT Images with U-Net

Type B aortic dissection (TBAD) is a life-threatening condition in which a tear in the intimal layer separates the aortic wall into a true and a false lumen. Assessment of the lumen, the intimal flap, and false-lumen thrombosis from CT images is important for risk analysis and treatment planning. This work applied U-Net-based deep neural networks to the automatic segmentation of these structures in TBAD. We collected 46 CT scans from 20 patients, with voxel-wise annotations of three structures: the aortic lumen, the intimal flap, and the thrombus. We explored four models: two convolutional networks, nnU-Net 2D and 3D, and two transformer-based architectures, TransUNet 2D and 3D. We observed that (1) for both nnU-Net and TransUNet, the 3D models outperformed their 2D counterparts on all three structures. The difference was small for the aortic lumen but large for the thin flap and the thrombus. The best model, nnU-Net 3D, reached a DSC of 93.05% for the lumen, 50.22% for the flap, and 69.94% for the thrombus. (2) The intimal flap was the most difficult structure for all models. Even the best 3D models showed large thrombus boundary errors in a few scans. These results provide a baseline for developing more advanced models for accurate segmentation of these structures in TBAD.

bioengineering↗