Biology subjects

Webb, E.

Publications and source records attributed to Webb, E..

7 recordsLinked to original sources

bioRxiv2025

Modular adaptation of the ribcage in response to artificial selection for endurance running

The capability for sustained running has convergently evolved multiple times in mammals, and involves myriad anatomical, physiological, and behavioural adaptations. The ribcage plays a critical role in both respiration and locomotion but its adaptations to running are largely unexplored. Robustly testing adaptation in wild populations is challenging, so we use artificial selection for voluntary wheel-running behaviour (i.e., High Runner or HR mice) to directly test form-function relationships associated with sustained running. We compared ribcage configuration and shape of HR (males: 52, females: 47) to control (males: 48, females: 48) mice using rib counts and 3D Geometric Morphometrics. Two of four HR lines had an additional rib and increased variation in the proportion of true to false ribs, suggesting that ribcage patterning has been impacted by selection. This variability among lines suggests that selection for wheel running has resulted in adaptations that are expressed variably among the selected lines, resulting in "multiple solutions" to selection. Total ribcage shape did not vary significantly between HR and Control mice. Instead, the effect of selection varied along the ribcage, with significant effects in the caudal ribs. Further, the caudal ribcage of HR mice showed increased disparity, within-rib, and among-rib integration compared to controls. The strong response of caudal ribs indicates a modular pattern of adaptation, with cranial ribs possibly constrained by their role in ventilation. This study demonstrates that adaptation in the mammalian ribcage is likely shaped by a complex interplay of selection and craniocaudal integration and may result in variation at multiple anatomical levels (count, shape, modularity).

evolutionary biology↗

bioRxiv2025

Mild traumatic brain injury alters function in the dorsolateral prefrontal cortex: a TMS-EEG study.

Numerous studies highlight alterations in motor cortical neurophysiology after mild traumatic brain injury (mTBI). In contrast, understanding of effects in cognitive brain areas, which potentially underpin more impactful effects of injury, remains limited. The current study addressed this limitation by using electroencephalography to index responses to transcranial magnetic stimulation (TMS-EEG) applied over the dorsolateral prefrontal cortex (DLPFC). In 18 mTBI patients and 22 healthy controls, TMS-EEG was used to index cortical inhibition and long-term depression (LTD)-like plasticity within DLPFC. These were assessed using paired-pulse TMS (short-[SICI] and long-[LICI] interval intracortical inhibition) and continuous theta burst stimulation (cTBS), respectively. Functional effects of injury were assessed via the N-back and Trail Making Test. Responses were quantified in both temporal (i.e., TMS-evoked potentials; TEPs) and spectral (i.e., TMS-related oscillations; TROs) domains. For TEPs, measures of inhibition and plasticity both tended to be reduced by mTBI. In contrast, TRO data suggested a contradictory increased response of patients to both paired-pulse stimulation and cTBS that was specific to high-frequency bands. In addition, while TMT performance was reduced in the mTBI group, this was unrelated to neurophysiological effects of injury. These findings highlight novel effects of mTBI on DLPFC neurophysiology and emphasise the importance of considering both evoked and induced activity when examining neurophysiological effects of mTBI.

neuroscience↗

bioRxiv2024

Large-scale mouse mutagenesis identifies novel genes affecting vertebral development.

We analyzed the International Mouse Phenotyping Consortium (IMPC) release 19 set of 8,539 phenotyped whole-gene knockouts to identify 204 genes that alter vertebral development. These genes are broadly grouped into six categories based on their phenotype: "vertebral number" (22 genes); "vertebral processes" (35 genes); "spine shape" (16 genes); "tail morphology" (73 genes); "vertebral form" (62 genes); and "somitogenesis" (24 genes), with minimal overlap between groups. Gene expression analysis of somite trios across six developmental stages show that 182 of these genes are expressed in somites, and 60% of them show variable expression during somite maturation. A further 54% show expression changes between developmental stages. Fourteen of the 204 genes affecting vertebral development have a vertebral phenotype as their only phenotype, and for 34 genes vertebral phenotypes represent [≥]50% of their total phenotypes. We find no evidence for a previous association of the majority of these genes with vertebral defects, and have therefore identified an extensive set of novel candidate genes for association with vertebral malformations in humans, including vertebral fusions, numerical variation, and scoliosis.

developmental biology↗

bioRxiv2022

Loss of the adhesion protein Kindlin-1 stimulates tumor clearance via modulation of Tregs

The adhesion protein Kindlin-1 is over-expressed in breast cancer where it has been shown to be associated with metastasis-free survival, however, the mechanisms involved are poorly understood. Here, we report that Kindlin-1 promotes anti-tumor immune evasion in a mouse model of breast cancer. Deletion of Kindlin-1 in Met-1 mammary tumor cells leads to tumor regression following injection into immunocompetent hosts. This was associated with a reduction in tumor infiltrating Tregs and impairment of their immune-suppressive activities in Kindlin-1 depleted tumors. Similar changes in T cell populations were seen following depletion of Kindlin-1 in the polyomavirus middle T antigen (PyV MT)-driven mouse model of mammary tumorigenesis. Analysis of cytokines secreted from the Met-1 cells identified a significant increase in IL-6 secretion when Kindlin-1 was depleted. Conditioned media from Kindlin-1 depleted cells lead to a decrease in the ability of Tregs to suppress the proliferation of CD8+ T cells, which was dependent on IL-6 and depletion of CD25+ Tregs resulted in a reduction of Met-1 tumor growth in mice. Overall, these data identify a novel function for Kindlin-1 in the regulation of anti-tumor immunity through cytokine regulation of Treg number and function.

cancer biology↗

bioRxiv2022

Genome-wide analysis of Schistosoma mansoni reveals population structure and praziquantel drug selection pressure within Ugandan hot-spot communities

Populations within schistosomiasis control areas, especially those in Africa, are recommended to receive regular mass drug administration (MDA) with praziquantel (PZQ) as the main strategy for controlling the disease. The impact of PZQ treatment on schistosome genetics remains poorly understood, and is limited by a lack of high-resolution genetic data on the population structure of parasites within these control areas. We generated whole-genome sequence data from 174 individual miracidia collected from both children and adults from fishing communities on islands in Lake Victoria in Uganda that had received either annual or quarterly MDA with PZQ over four years, including samples collected immediately before and four weeks after treatment. Genome variation within and between samples was characterised and we investigated genomic signatures of natural selection acting on these populations that could be due to PZQ treatment. The parasite population on these islands was more diverse than found in nearby villages on the lake shore. We saw little or no genetic differentiation between villages, or between the groups of villages with different treatment intensity, but slightly higher genetic diversity within the pre-treatment compared to post-treatment parasite populations. We identified classes of genes significantly enriched within regions of the genome with evidence of recent positive selection among post-treatment and intensively treated parasite populations. The differential selection observed in post-treatment and pre-treatment parasite populations could be linked to any reduced susceptibility of parasites to praziquantel treatment. Author summarySchistosomiasis is caused by parasitic helminths of the genus Schistosoma. Schistosoma mansoni is the primary cause of intestinal schistosomiasis, a devastating and widespread parasitic infection that causes morbidity, death and socio-economic impact on endemic communities across the world and especially sub-Saharan Africa. Using whole-genome sequencing, we were able to elucidate the parasite population within Lake Victoria island fishing communities in Uganda which are among the major hotspots for schistosomiasis. We further assessed genetic markers that might be linked to recent observations concerning reduced susceptibility to praziquantel, the major drug used in the treatment of this disease. Whole-genome data on the population genetics of S. mansoni in an African setting will provide a strong basis for future functional genomics or transcriptomic studies that will be key to identifying drug targets, improving existing drugs or developing new therapeutic interventions.

genomics↗

bioRxiv2020

Long time-scale study of von Willebrand factor multimers in extensional flow

Extensional flow-induced transitions from a compact to an unfolded conformation are explored for the human glycoprotein von Willebrand factor (vWF). Multimer unfolding is a crucial step in the process of blood clotting and protein size maintenance. Previous studies have shown that flow-induced conformational transitions are initiated by a thermally nucleated polymeric protrusion. Below a certain strain rate, such a transition is a rare event that cannot be studied using standard stochastic dynamic simulation. In the present study, we have employed Weighted Ensemble Brownian dynamic (WEBD) simulations to study rare events of conformation transition in extensional flow. Results are presented for the transition rate of VWF multimer unfolding, with concomitant analysis of the likelihood of pathological unfolding as a function of strain rate. Relative to the typical half-life of vWF proteins in the human body, results here indicate that pathological unfolding would not manifest for strain rate less than 2000 s-1. Statement of SignificancevWF multimers, as they transit through the circulation, are exposed to extensional flow multiple times, and the total exposure time to such intermittent extensional flow can be on the order of minutes to an hour. However, due to the time-scale limitation of Brownian dynamics simulation, all the present studies of vWF multimers are limited to a few seconds in total duration. Here, we have applied an enhanced sampling technique, i.e., Weighted Ensemble, in combination with Brownian dynamics to analyze the behavior of multimers in extensional flow at physiologically relevant time-scales of hours and longer. The findings presented here provide new physical insights into vWF behavior, including how it relates to hematological pathology, while also illustrating the time-scale bridging capability of the WEBD method.

biophysics↗

bioRxiv2018

Internal Tensile Force and A2 Domain Unfolding of von Willebrand Factor Multimers in Shear Flow

Using Brownian molecular dynamics simulations, we examine the internal dynamics and biomechanical response of von Willebrand Factor (vWF) multimers subject to shear flow. The coarse grain multimer description employed here is based on a monomer model in which the A2 domain of vWF is explicitly represented by a non-linear elastic spring whose mechanical response was fit to experimental force/extension data from vWF monomers. This permits examination of the dynamic behavior of hydrodynamic forces acting on A2 domains as a function of shear rate and multimer length, as well as position of an A2 domain along the multimer contour. Force/position data reveal that collapsed multimers exhibit a force distribution with two peaks, one near each end of the chain; unraveled multimers, however, show a single peak in A2 domain force near the center of multimers. Guided further by experimental data, significant excursions of force acting on a domain are associated with an increasing probability for A2 domain unfolding. Our results suggest that the threshold shear rate required to induce A2 domain unfolding is inversely proportional to multimer length. By examining data for the duration and location of significant force excursions, convincing evidence is advanced that unfolding of A2 domains, and therefore scission of vWF multimers by the size-regulating blood enzyme ADAMTS13, happen preferentially near the center of unraveled multimers.

biophysics↗