Biology subjects

Bartlett, E. L.

Publications and source records attributed to Bartlett, E. L..

13 recordsLinked to original sources

bioRxiv2026

A rapid, machine-learning readout of cochlear neural degeneration that transfers from animals to humans

Standard hearing tests miss cochlear neural degeneration (CND), the loss of synapses between inner hair cells and auditory nerve fibers that may underlie unexplained hearing difficulty in roughly one in ten adults. Envelope following responses (EFRs) can index this neural loss noninvasively, but conventional protocols are too slow for clinical use. We tested a dynamic amplitude-modulated (dAM) EFR that sweeps the full modulation spectrum in a single brief stimulus. In Mongolian gerbils with histologically verified CND, dAM EFRs revealed selective deficits at fast modulation rates without threshold elevation. A machine-learning classifier distinguished young from middle-aged animals with high accuracy; additionally, its most informative feature, power near 400-500 Hz, tracked synapse counts, indicating a readout of cochlear neural health rather than age. Applied without retraining to 56 human listeners, the gerbil-trained classifier separated age groups above chance. dAM EFRs thus offer a rapid, objective and clinically viable marker of CND.

neuroscience↗

bioRxiv2026

Automated auditory brainstem response peak estimation using a convolutional neural net

Auditory brainstem responses (ABRs) are a core part of objective functional evaluations of hearing sensitivity and subcortical auditory transmission. Manual assessments of ABR waveforms are still a primary means by which thresholds and peak amplitudes and latencies are measured, which is time-consuming and prone to user variability. Automated methods have offered promising alternatives for ABR classification, but they have sometimes been limited in accuracy or robustness. Here, we developed and tested a supervised convolutional neural network (CNN) based ABR peak classifier that works across sound levels and sound frequencies that can be run quickly on a personal computer using single or dual-channel ABR inputs. For ABR peaks I, III, IV, and V, the classifier achieved over 95% accuracy. High accuracy was maintained even after noise-exposure causing temporary or permanent threshold shifts, and over 90% of peaks were within 0.041 ms (1 sample) of the manually identified peak. Only a few hundred samples were needed to train the network, making it widely amenable to smaller data studies or where the number of subjects or sessions may be low. HighlightsO_LISupervised CNN automatic ABR peak classifier built for 1-2 channel inputs C_LIO_LIAccuracy for peaks was at least 95% for all peaks C_LIO_LIAccuracy was robust across sound levels and noise-exposure C_LIO_LIA relatively small number of labeled samples were sufficient for training C_LI CRediT author contributionsJPM: Conceptualization, Methodology, Investigation, Formal analysis, Writing - original draft, Writing - review & editing. MCZ: Methodology, Investigation. ELB: Conceptualization, Methodology, Resources, Supervision, Writing - original draft, review & editing, Funding acquisition.

neuroscience↗

bioRxiv2026

Central auditory decline precedes cochlear deficits in a D-galactose mimetic model of aging

Age-related hearing loss reflects a mixture of concurrent peripheral cochlear and central auditory pathway degeneration. Disentangling their relative contributions has remained challenging because both decline together with natural aging. Here, we used systemic D-galactose (D-gal) administration to selectively accelerate central auditory aging while preserving peripheral cochlear function. Eight male Fischer 344 rats received daily subcutaneous D-gal injections (500 mg/kg) for eight consecutive weeks. Two-channel auditory evoked potentials, including auditory brainstem responses (ABRs) and envelope-following responses (EFRs), were recorded at three time points: pre-injection, immediately following injections (2 months post), and 12 months post-injection cessation. Two months post-injection, there was a significant reduction in ABR wave amplitudes from central auditory generators (Waves IV and V) and EFRs to slow modulation frequencies ([≤]45 Hz), which reflect midbrain and cortical generators. In contrast, ABR thresholds, wave amplitudes from peripheral generators (Waves I and III), and EFRs to fast modulation rates (>128 Hz) reflecting peripheral neural activity remained unchanged at this time point, indicating preserved cochlear and early brainstem function. Peripheral deficits emerged only by the 12-month follow-up, with elevated thresholds, reduced peripheral wave amplitudes, and reduced EFRs at fast modulation rates. These findings demonstrate a clear temporal dissociation in which central auditory decline precedes peripheral cochlear and neural loss in the D-gal model. This paradigm provides a tractable experimental window for studying mechanisms of central auditory aging in isolation from cochlear pathology, bridging an important gap between peripheral and central models of presbycusis. HighlightsO_LID-galactose accelerates central auditory aging in Fischer 344 rats. C_LIO_LICentral ABR waves and slow EFRs decline within two months of D-gal exposure. C_LIO_LIPeripheral cochlear deficits emerge only after a 12-month delay. C_LIO_LICentral auditory decline precedes cochlear loss in this model. C_LIO_LIProvides a tractable model to study central auditory aging in isolation. C_LI

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bioRxiv2025

Focal Infrared Neural Stimulation Propagates Dynamical Transformations in Auditory Cortex

SignificanceInfrared neural stimulation (INS) has emerged as a potent neuromodulation technology, offering safe and focal stimulation with superior spatial recruitment profiles compared to conventional electrical methods. However, the neural dynamics induced by INS stimulation remain poorly understood. Elucidating these dynamics will help develop new INS stimulation paradigms and advance its clinical application. AimIn this study, we assessed the local network dynamics of INS entrainment in the auditory thalamocortical circuit using the chronically implanted rat model; our approach focused on measuring INS energy-based local field potential (LFP) recruitment induced by focal thalamocortical stimulation. We further characterized linear and nonlinear oscillatory LFP activity in response to single-pulse and periodic INS and performed spectral decomposition to uncover specific LFP band entrainment to INS. Finally, we examined spike-field transformations across the thalamocortical synapse using spike-LFP coherence coupling. ResultsWe found that INS significantly increases LFP amplitude as a log-linear function of INS energy per pulse, primarily entraining to LFP {beta} and{gamma} bands with synchrony extending to 200 Hz in some cases. A subset of neurons demonstrated nonlinear, chaotic oscillations linked to information transfer across cortical circuits. Finally, we utilized spike-field coherences to correlate spike coupling to LFP frequency band activity and suggest an energy-dependent model of network activation resulting from INS stimulation. ConclusionsWe show that INS reliably drives robust network activity and can potently modulate cortical field potentials across a wide range of frequencies in a stimulus parameter-dependent manner. Based on these results, we propose design principles for developing full coverage, all-optical thalamocortical auditory neuroprostheses.

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bioRxiv2024

Rapid and objective assessment of auditory temporal processing using dynamic amplitude-modulated stimuli

Auditory neural coding of speech-relevant temporal cues can be noninvasively probed using envelope following responses (EFRs), neural ensemble responses phase-locked to the stimulus amplitude envelope. EFRs emphasize different neural generators, such as the auditory brainstem or auditory cortex, by altering the temporal modulation rate of the stimulus. EFRs can be an important diagnostic tool to assess auditory neural coding deficits that go beyond traditional audiometric estimations. Existing approaches to measure EFRs use discrete amplitude modulated (AM) tones of varying modulation frequencies, which is time consuming and inefficient, impeding clinical translation. Here we present a faster and more efficient framework to measure EFRs across a range of AM frequencies using stimuli that dynamically vary in modulation rates, combined with spectrally specific analyses that offer optimal spectrotemporal resolution. EFRs obtained from several species (humans, Mongolian gerbils, Fischer-344 rats, and Cba/CaJ mice) showed robust, high-SNR tracking of dynamic AM trajectories (up to 800Hz in humans, and 1.4 kHz in rodents), with a fivefold decrease in recording time and thirtyfold increase in spectrotemporal resolution. EFR amplitudes between dynamic AM stimuli and traditional discrete AM tokens within the same subjects were highly correlated (94% variance explained) across species. Hence, we establish a time-efficient and spectrally specific approach to measure EFRs. These results could yield novel clinical diagnostics for precision audiology approaches by enabling rapid, objective assessment of temporal processing along the entire auditory neuraxis.

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bioRxiv2023

Practical Bayesian Inference in Neuroscience: Or How I Learned To Stop Worrying and Embrace the Distribution

Typical statistical practices in the biological sciences have been increasingly called into question due to difficulties in replication of an increasing number of studies, many of which are confounded by the relative difficulty of null significance hypothesis testing designs and interpretation of p-values. Bayesian inference, representing a fundamentally different approach to hypothesis testing, is receiving renewed interest as a potential alternative or complement to traditional null significance hypothesis testing due to its ease of interpretation and explicit declarations of prior assumptions. Bayesian models are more mathematically complex than equivalent frequentist approaches, which have historically limited applications to simplified analysis cases. However, the advent of probability distribution sampling tools with exponential increases in computational power now allows for quick and robust inference under any distribution of data. Here we present a practical tutorial on the use of Bayesian inference in the context of neuroscientific studies. We first start with an intuitive discussion of Bayes rule and inference followed by the formulation of Bayesian-based regression and ANOVA models using data from a variety of neuroscientific studies. We show how Bayesian inference leads to easily interpretable analysis of data while providing an open-source toolbox to facilitate the use of Bayesian tools. Significance StatementBayesian inference has received renewed interest as an alternative to null-significance hypothesis testing for its interpretability, ability to incorporate prior knowledge into current inference, and robust model comparison paradigms. Despite this renewed interest, discussions of Bayesian inference are often obfuscated by undue mathematical complexity and misunderstandings underlying the Bayesian inference process. In this article, we aim to empower neuroscientists to adopt Bayesian statistical inference by providing a practical methodological walkthrough using single and multi-unit recordings from the rodent auditory circuit accompanied by a well-documented and user-friendly toolkit containing regression and ANOVA statistical models commonly encountered in neuroscience.

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bioRxiv2023

Spatially specific, closed-loop infrared thalamocortical deep brain stimulation

Deep brain stimulation (DBS) is a powerful tool for the treatment of circuitopathy-related neurological and psychiatric diseases and disorders such as Parkinsons disease and obsessive-compulsive disorder, as well as a critical research tool for perturbing neural circuits and exploring neuroprostheses. Electrically-mediated DBS, however, is limited by the spread of stimulus currents into tissue unrelated to disease course and treatment, potentially causing undesirable patient side effects. In this work, we utilize infrared neural stimulation (INS), an optical neuromodulation technique that uses near to mid-infrared light to drive graded excitatory and inhibitory responses in nerves and neurons, to facilitate an optical and spatially constrained DBS paradigm. INS has been shown to provide spatially constrained responses in cortical neurons and, unlike other optical techniques, does not require genetic modification of the neural target. We show that INS produces graded, biophysically relevant single-unit responses with robust information transfer in thalamocortical circuits. Importantly, we show that cortical spread of activation from thalamic INS produces more spatially constrained response profiles than conventional electrical stimulation. Owing to observed spatial precision of INS, we used deep reinforcement learning for closed-loop control of thalamocortical circuits, creating real-time representations of stimulus-response dynamics while driving cortical neurons to precise firing patterns. Our data suggest that INS can serve as a targeted and dynamic stimulation paradigm for both open and closed-loop DBS. Significance StatementDespite initial clinical successes, electrical deep brain stimulation (DBS) is fraught with off-target current spillover into tissue outside of therapeutic targets, giving rise to patient side effects and the reduction of therapeutic efficacy. In this study, we validate infrared neural stimulation (INS) as a spatially constrained optical DBS paradigm by quantifying dose-response profiles and robust information transfer through INS driven thalamocortical circuits. We show that INS elicits biophysically relevant responses which are spatially constrained compared to conventional electrical stimulation, potentially reducing off-target side effects. Leveraging the spatial specificity of thalamocortical INS, we used deep reinforcement learning to close the loop on thalamocortical INS and showed the ability to drive subject-specific thalamocortical circuits to target response states in real time.

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bioRxiv2021

Corticothalamic Projections Deliver Enhanced-Responses to Medial Geniculate Body as a Function of the Temporal Reliability of the Stimulus

Aging and challenging signal-in-noise conditions are known to engage use of cortical resources to help maintain speech understanding. Extensive corticothalamic projections are thought to provide attentional, mnemonic and cognitive-related inputs in support of sensory inferior colliculus (IC) inputs to the medial geniculate body (MGB). Here we show that a decrease in modulation depth, a temporally less distinct periodic acoustic signal, leads to a jittered ascending temporal code, changing MGB unit responses from adapting responses to responses showing repetition-enhancement, posited to aid identification of important communication and environmental sounds. Young-adult male Fischer Brown Norway rats, injected with the inhibitory opsin archaerhodopsin T (ArchT) into the primary auditory cortex (A1), were subsequently studied using optetrodes to record single-units in MGB. Decreasing the modulation depth of acoustic stimuli significantly increased repetition-enhancement. Repetition-enhancement was blocked by optical inactivation of corticothalamic terminals in MGB. These data support a role for corticothalamic projections in repetition-enhancement, implying that predictive anticipation could be used to improve neural representation of weakly modulated sounds. Key pointsO_LIAging has been shown to increase temporal jitter in the ascending acoustic code prompting use of cognitive/attentional mechanisms to help better understand communication-like signals. C_LIO_LIAuditory thalamus receives extensive projections from cortex that are implicated in delivering higher-order cortical computations to enhance thalamic responses. C_LIO_LIThe present study modeled aging in young rats by using temporally less distinct stimuli shown to alter the pattern of MGB unit responses from response adaptation to repetition-enhancement. Enhanced responses to repeating less temporally distinct modulated stimuli were reversed when inputs from cortex to auditory thalamus were blocked. Collectively, these data argue that low salience temporal signals engage cortical processes to enhance coding of weakly modulated signals in auditory thalamus. C_LI

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bioRxiv2020

Longitudinal Auditory Pathophysiology Following Mild Blast Induced Trauma

Blast-induced hearing difficulties affect thousands of veterans and civilians. The long-term impact of even a mild blast exposure on the central auditory system is hypothesized to contribute to lasting behavioral complaints associated with mild blast traumatic brain injury (bTBI). Although recovery from mild blast has been studied separately over brief or long time windows, few, if any, studies have investigated recovery longitudinally over short-term and longer-term (months) time windows. Specifically, many peripheral measures of auditory function either recover or exhibit subclinical deficits, masking deficits in processing complex, real-world stimuli that may recover differently. Thus, examining the acute time course and pattern of neurophysiological impairment using appropriate stimuli is critical to better understanding and intervention of bTBI-induced auditory system impairments. Here, we compared auditory brainstem response, middle-latency auditory evoked potentials, and envelope following responses. Stimuli were clicks, tone pips, amplitude modulated tones in quiet and in noise, and speech-like stimuli (iterated rippled noise pitch contours) in adult male rats subjected to mild blast and sham exposure over the course of two months. We found that blast animals demonstrated drastic threshold increases and auditory transmission deficits immediately after blast exposure, followed by substantial recovery during the window of 7-14 days post-blast, though with some deficits remaining even after two months. Challenging conditions and speech-like stimuli can better elucidate mild bTBI-induced auditory deficit during this period. Our results suggest multiphasic recovery and therefore potentially different time windows for treatment, and deficits can be best observed using a small battery of sound stimuli. New and NoteworthyFew studies on blast-induced hearing deficits go beyond simple sounds and sparsely track post-exposure. Therefore, the recovery arc for potential therapies and real-world listening is poorly understood. Evidence suggested multiple recovery phases over 2 months post-exposure. Hearing thresholds largely recovered within 14 days and partially explained recovery. However, mid-latency responses, responses to AM in noise, and speech-like pitch sweeps exhibited extended changes, implying persistent central auditory deficits and the importance of subclinical threshold shifts.

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bioRxiv2018

Persistent activity in primate auditory cortex evoked by sensory stimulation

Persistent activity, the elevated firing of a neuron after the termination of a stimulus, is hypothesized to play a critical role in working memory. This form of activity is therefore typically studied within the context of a behavioural task that includes a working memory component. Here we investigated whether persistent activity is observed in sensory cortex and thalamus in the absence of any explicit behavioural task. We recorded spiking activity from single units in the auditory cortex (fields A1, R and RT) and thalamus of awake, passively-listening marmosets. We observed persistent activity that lasted for hundreds of milliseconds following the termination of the acoustic stimulus, in the absence of a task. Persistent activity was observed following both adapting and sustained responses during the stimulus and showed similar stimulus tuning to these evoked responses. Persistent activity was also observed following suppression in firing during the stimulus. These response types were observed across all cortical fields tested, but were largely absent from thalamus. As well as being of shorter duration, thalamic persistent activity emerged following a longer latency than in cortex, indicating that persistent activity may be generated within auditory cortex during passive listening. Given that these responses were observed in the absence of a explicit behavioural task, persistent activity in sensory cortex may have functional importance beyond storing task-relevant information in working memory.

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bioRxiv2018

Aging alters envelope representations of speech-like sounds in the inferior colliculus

Hearing impairment in aging is thought to arise from impaired temporal processing in auditory circuits. We used a systems-level (scalp recordings) and a microcircuit-level (extracellular recordings) approach to investigate how aging affects the sensitivity to temporal envelopes of speech-like sounds in rats. Scalp-recorded potentials suggest an age-related increase in sensitivity to temporal regularity along the ascending auditory pathway. The underlying cellular changes in the midbrain were examined using extracellular recordings from inferior colliculus neurons. We observed an age-related increase in sensitivity to the sounds onset and temporal regularity (i.e., periodicity envelope) in the spiking output of inferior colliculus neurons, relative to their synaptic inputs (local field potentials). This relative enhancement for aged animals was most prominent for multi-unit (relative to single-unit) spiking activity. Spontaneous multi-unit, but not single-unit, activity was also enhanced in aged compared to young animals. Our results suggest that aging is associated with altered sensitivity to a sounds temporal regularities, and that these effects may be due to increased gain of neural network activity in the midbrain.

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bioRxiv2017

Global State Changes Induce Non-reciprocal Reduction of Mutual Information in the Thalamocortical Network

Understanding the neural mechanisms of loss and recovery of consciousness remains an active area of scientific and clinical interest. Recent models and theories of consciousness implicate thalamus or neocortex as the dominant regions that control global state change, but experimentally testing these theories requires parsing the response properties of the complex thalamocortical network. In this work, we explore information processing using chronic recordings of multiunit activity between thalamus and cortex by targeting either the corticothalamic or thalamocortical pathway with direct electrical stimulation under subhypnotic and just-hypnotic states of isoflurane or dexmedetomidine induced unconsciousness. We found that mutual information between the stimulus and response in the corticothalamic circuit decreases with loss of consciousness, and that the change is not reciprocated in the thalamocortical direction. These changes in mutual information were moderately correlated with changes in evoked rate, and a strong effect of isoflurane on spontaneous and evoked rate accounts for a large portion of the change in mutual information. Further, we found cortical synchrony to increase under sub-and just-hypnotic doses of dexmedetomidine and isoflurane, suggesting cortical responses become more causally dependent on thalamocortical input at reduced levels of consciousness, or unconsciousness. We believe these changes suggest loss of consciousness is associated with a decrease in the number of available cortical network states, and may suggest cognitive unbinding from ascending sensory input.

neuroscience↗

bioRxiv2017

Age-related decline in behavioral discrimination of amplitude modulation frequencies compared to envelope-following responses

The ability to discriminate modulation frequencies is important for speech intelligibility because speech has amplitude and frequency modulations. Neurophysiological responses assessed by envelope following responses (EFRs) significantly decline at faster amplitude modulation frequencies (AMF) in older subjects. A typical assumption is that a decline in EFRs will necessarily result in corresponding perceptual deficits. To test this assumption, we investigated young and aged Fischer-344 rats behavioral AMF discrimination abilities and compared to their EFRs. A modified version of prepulse inhibition (PPI) of acoustic startle reflex (ASR) was used to obtain behavioral performance. A PPI trial contains pulses of sinusoidal AM (SAM) at 128 Hz presented sequentially, a SAM prepulse with different AMF and a startle-eliciting-stimulus. To account for hearing threshold shift or age-related synaptopathy, stimulus levels were presented at 10-dB lower or match to the aged peripheral neural activation (using auditory brainstem response wave I amplitude). When AMF differences and modulation depths were large, young and aged animals behavioral performances were comparable. Aged animals AMF discrimination abilities declined as the AMF difference or the modulation depth reduced, even compared to the young with peripheral matching. Young animals showed smaller relative decreases in EFRs with reduced modulation depths. The correlation of EFRs and AM perception was identified to be more consistent in young animals. The overall results revealed larger age-related deficits in behavioral perception compared to EFRs, suggesting additional factors that affect perception despite smaller degradation in neural responses. Hence, behavioral and physiological measurements are critical in unveiling a more complete picture on the auditory function.

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