Biology subjects

Walker, M. C.

Publications and source records attributed to Walker, M. C..

9 recordsLinked to original sources

bioRxiv2026

Human Hippocampal Theta-Gamma Phase-Amplitude Coupling Signals the Distance to Remembered Goals

In mammals, flexible navigation is believed to rely on a cognitive map of known locations supported by the hippocampus and surrounding medial temporal lobe structures. Hippocampal place cells typically exhibit spatial firing fields within a given environment. Moreover, their firing is modulated by the movement-related theta rhythm such that "theta sweeps" of place cell activity encode the trajectory towards a hidden reward location during goal-directed navigation. Here, we attempted to detect signatures of theta sweeps in the human hippocampal local field potential (LFP) recorded with intracranial EEG. Specifically, we hypothesised that sequences of locations along a planned trajectory encoded by distinct cell assemblies are associated with gamma activity at successive theta phases. To test this hypothesis, we asked N=9 patients with epilepsy to perform a spatial navigation task in desktop virtual reality while we recorded LFP signals from depth electrode contacts implanted across the medial temporal lobe. Consistent with our predictions, we found an increase in hippocampal theta-gamma phase-amplitude coupling, a decrease in gamma power, and theta phase precession of gamma activity as hidden goal locations were approached and the sequence of locations remaining to be traversed became shorter. This suggests that goal-directed hippocampal theta sweeps during navigation are reflected in LFP theta-gamma phase-amplitude coupling, and that these neural mechanisms of model-based planning are conserved across species.

neuroscience↗

bioRxiv2025

Identification of perrhenate-binding peptides by phage display

Pertechnetate is the most stable and highly environmentally mobile form of the radioactive element technetium. To explore the ability of peptides to remove this molecule from aqueous solutions, a phage display library was biopanned against immobilized perrhenate, a nonradioactive analog of pertechnetate. Six unique peptides were identified from the screen and their ability to bind perrhenate free in solution and immobilized on a solid support were explored. It was found that the peptides, particularly when immobilized, were able to remove perrhenate from aqueous solutions, and despite not being screened for selectivity, demonstrated some preference for perrhenate over other anions such as chromate and nitrite. These results demonstrate the feasibility of using engineered biological systems for remediation of pertechnetate in the environment.

bioengineering↗

bioRxiv2025

Reflected Inline Detection in Epi Oblique Plane Microscopy

Epi oblique illumination selective plane microscopy (OPM) facilitates open-top, straightforward sample mounting, enabling high-resolution and high-speed imaging without perturbing biological specimens. However, current OPM systems typically require three separate microscopes equipped with specialized objectives. This configuration leads to complex and costly setups, significant long-term drift during imaging, reduced numerical aperture, and limited flexibility in adjusting the illumination tilt angle. We introduce Reflected Inline Detection in Epi-Oblique Plane Microscopy (RIDE-OPM), a novel, simplified, and cost-effective design that removes the necessity for a separate inline tertiary microscope and specialized objectives. Our tilt-angle-independent approach leverages the maximum NA of standard objectives, ensuring optimal illumination across the entire field of view without compromising imaging speed or quality, while significantly reducing long-term system drift. The compact and stable RIDE-OPM platform demonstrates robust, unsupervised long-term imaging capabilities. We validated this performance by successfully imaging various biological specimens, including C. elegans, Drosophila fly brain, human and mouse epithelial cells, and live E. coli, underscoring its suitability for advanced long-term biological imaging applications.

biophysics↗

bioRxiv2021

Magnetic Field Mapping and Correction for Moving OP-MEG

BackgroundOptically pumped magnetometers (OPMs) have made moving, wearable magnetoencephalography (MEG) possible. The OPMs typically used for MEG require a low background magnetic field to operate, which is achieved using both passive and active magnetic shielding. However, the background magnetic field is never truly zero Tesla, and so the field at each of the OPMs changes as the participant moves. This leads to position and orientation dependent changes in the measurements, which manifest as low frequency artefacts in MEG data. ObjectiveWe modelled the spatial variation in the magnetic field and used the model to predict the movement artefact found in a dataset. MethodsWe demonstrate a method for modelling this field with a triaxial magnetometer, then showed that we can use the same technique to predict the movement artefact in a real OPM-based MEG (OP-MEG) dataset. ResultsUsing an 86-channel OP-MEG system, we found that this modelling method maximally reduced the power spectral density of the data by 26.2 {+/-} 0.6 dB at 0 Hz, when applied over 5 s non-overlapping windows. ConclusionThe magnetic field inside our state-of-the art magnetically shielded room can be well described by low-order spherical harmonic functions. We achieved a large reduction in movement noise when we applied this model to OP-MEG data. SignificanceReal-time implementation of this method could reduce passive shielding requirements for OP-MEG recording and allow the measurement of low-frequency brain activity during natural participant movement.

neuroscience↗

bioRxiv2021

Extrasynaptic GABA waves underlie epileptiform rhythms in the hippocampal network

Mechanisms that entrain and drive rhythmic epileptiform discharges remain debated. Traditionally, this quest has been focusing on interneuronal networks driven by GABAergic connections that activate synaptic or extrasynaptic receptors. However, synchronised interneuronal discharges could also trigger a transient elevation of extracellular GABA across the tissue volume, thus raising tonic GABAA receptor conductance (Gtonic) in multiple cells. Here, we use patch-clamp GABA sniffer and optical GABA sensor to show that periodic epileptiform discharges are preceded by region-wide, rising waves of extracellular GABA. Neural network simulations that incorporate volume-transmitted GABA signals point to mechanistic principles underpinning this relationship. We validate this hypothesis using simultaneous patch-clamp recordings from multiple nerve cells, selective optogenetic stimulation of fast-spiking interneurons. Critically, we manipulate GABA uptake to suppress extracellular GABA waves but not synaptic GABAergic transmission, which shows a clear effect on rhythm generation. Our findings thus unveil a key role of extrasynaptic, volume-transmitted GABA actions in pacing regenerative rhythmic activity in brain networks.

neuroscience↗

bioRxiv2020

Precursor peptide-targeted mining of more than one hundred thousand genomes expands the lanthipeptide natural product family

BackgroundLanthipeptides belong to the ribosomally synthesized and post-translationally modified peptide group of natural products and have a variety of biological activities ranging from antibiotics to antinociceptives. These peptides are cyclized through thioether crosslinks and can bear other secondary post-translational modifications. While lanthipeptide biosynthetic gene clusters can be identified by the presence of characteristic enzymes involved in the post-translational modification of these peptides, locating the precursor peptides encoded within these clusters is challenging due to their short length and high sequence variability, which limits the high-throughput exploration of lanthipeptide precursor peptides. To address this challenge, we enhanced the predictive capabilities of Rapid ORF Description & Evaluation Online (RODEO) to identify all known classes of lanthipeptides. ResultsUsing RODEO, we mined over 100,000 bacterial and archaeal genomes in the RefSeq database. We identified nearly 8,500 lanthipeptide precursor peptides. These precursor peptides were identified in a broad range of bacterial phyla as well as the Euryarchaeota phylum of archaea. Bacteroidetes were found to encode a large number of these biosynthetic gene clusters, despite making up a relatively small portion of the genomes in this dataset. While a number of these precursor peptides are similar to those of previously characterized lanthipeptides, even more were not, including potential antibiotics. Additionally, examination of the biosynthetic gene clusters revealed enzymes that install secondary post-translational modifications are more widespread than initially thought. ConclusionLanthipeptide biosynthetic gene clusters are more widely distributed and the precursor peptides encoded within these clusters are more diverse than previously appreciated, demonstrating that the lanthipeptide sequence-function space remains largely underexplored.

bioinformatics↗

bioRxiv2019

LGI1 downregulation increases neuronal circuit excitability

LGI1 (Leucine-Rich Glioma-Inactivated 1) is a secreted trans-synaptic protein that interacts presynaptically with Kv1.1 potassium channels and ADAM23, and postsynaptically, influencing AMPA receptors through a direct link with the ADAM22 cell adhesion protein. Haploinsufficiency of LGI1 or autoantibodies directed against LGI1 are associated with human epilepsy, generating the hypothesis that a subacute reduction of LGI1 is sufficient to increase network excitability. We tested this hypothesis in ex vivo hippocampal slices and in neuronal cultures, by subacutely reducing LGI1 expression with shRNA. Injection of shRNA-LGI1 in the hippocampus increased dentate granule cell excitability and low frequency facilitation of mossy fibers to CA3 pyramidal cell neurotransmission. Application of the Kv1 family blocker, alpha-dendrotoxin, occluded this effect, implicating the involvement of Kv1.1. This subacute reduction of LGI1 was also sufficient to increase neuronal network activity in neuronal primary culture. These results indicate that a subacute reduction in LGI1 potentiates neuronal excitability and short-term synaptic plasticity, and increases neuronal network excitability, opening new avenues for the treatment of limbic encephalitis and temporal lobe epilepsies. Significant StatementDown-regulation of LGI1 protein increases excitability at mossy fiber to CA3 pyramidal cell synapses and in hippocampal primary cultures. These alterations alter network function and so could contribute to symptoms observed in patients affected by limbic encephalitis.

neuroscience↗

bioRxiv2019

Altered Hippocampal-Prefrontal Neural Dynamics in Mouse Models of Down Syndrome

Altered neural dynamics in medial prefrontal cortex (mPFC) and hippocampus may contribute to cognitive impairments in the complex chromosomal disorder, Down Syndrome (DS). Here, we demonstrate non-overlapping behavioural differences associated with distinct abnormalities in hippocampal and mPFC electrophysiology during a canonical spatial memory task in three partially trisomic mouse models of DS (Dp1Tyb, Dp10Yey, Dp17Yey) that together cover all regions of homology with human chromosome 21 (Hsa21). Dp1Tyb mice showed slower decision-making (unrelated to the gene dose of DYRK1A, which has been implicated in DS cognitive dysfunction) and altered theta dynamics (reduced frequency, increased hippocampal-mPFC coherence, increased modulation of hippocampal high gamma); Dp10Yey mice showed impaired alternation performance and reduced theta modulation of hippocampal low gamma; while Dp17Yey mice were no different from wildtype mice. These results link specific hippocampal and mPFC circuit dysfunctions to cognitive deficits in DS models and, importantly, map them to discrete regions of Hsa21.

neuroscience↗

bioRxiv2018

Semiology, clustering, periodicity and natural history of seizures in an experimental visual cortical epilepsy model

ObjectiveTo characterize a rat model of focal neocortical epilepsy for use in developing novel therapeutic strategies in a type of epilepsy that represents a significant unmet need.\n\nMethodsIntracortical tetanus toxin (TeNT) injection was used to induce epilepsy in rats. Seizures and their behavioural manifestations were evaluated with continuous video-electrocorticography telemetry.\n\nResultsTeNT injection into rat primary visual cortex induced focal neocortical epilepsy without preceding status epilepticus. The latency to first seizure ranged from 3 to 7 days. Seizure duration was bimodal, with both short (approximately 30s) and long-lasting (>100s) seizures occurring in the same animals. Seizures were accompanied by non-motor features such as behavioural arrest, or motor seizures with or without evolution to generalized tonic-clonic seizures. Seizures were commoner during the sleep phase of a light-dark cycle. Seizure occurrence was not random, and tended to cluster with significantly higher probability of recurrence within 24 hours of a previous seizure. Across animals, the number of seizures in the first week could be used to predict the number of seizures in the following 22 days.\n\nSignificanceThe TeNT model of visual cortical epilepsy is a robust model of acquired focal neocortical epilepsy, and is well suited for preclinical evaluation of novel anti-epileptic strategies. We provide here a detailed analysis of the epilepsy phenotype, seizure activity, electrographic features, and the semiology. In addition we provide a predictive framework that can be used to reduce variation and consequently animal use in pre-clinical studies of potential treatments.\n\nKey PointsO_LITetanus toxin injection into rat visual cortex induces focal cortical epilepsy.\nC_LIO_LIElectrographic seizures were associated with non-motor and motor features with or without evolution to generalized tonic-clonic seizures.\nC_LIO_LISeizures could not be provoked by intermittent photic stimulation.\nC_LIO_LISeizures were clustered in time and exhibited a circadian variation in frequency.\nC_LIO_LIThe number of seizures in first week after seizure onset could be used to predict the total number of seizures in the following 3 weeks.\nC_LI

neuroscience↗