Biology subjects

Allen, T. A.

Publications and source records attributed to Allen, T. A..

13 recordsLinked to original sources

bioRxiv2026

The role of the ventral midline thalamus in the retrieval of precise temporal memories

Interval timing (IT) is the ability to time events in the range from seconds to a few minutes, allowing animals to organize behavior in time at short durations. IT relies on two cognitive functions: 1) Measuring the passage of time; 2) Storing and retrieving temporal memories in a context appropriate manner. The hippocampus (HC) and medial prefrontal cortex (mPFC) have been shown critical to the accuracy and precision of time-contingent instrumental responses in IT. The anatomy supporting mPFC-HC interactions, required for memory encoding and retrieval, include projections from HC to mPFC, and indirect bidirectional connections through the ventral midline thalamus (VMT), most notably reuniens. Here, we explored VMTs role in retrieving fixed-interval (FI) temporal memories. Rats were trained on a 5s FI signaled by an auditory cue and demonstrated temporal memory by poking predominantly at the time of the expected reward. Timing responses on individual trials were classified into on-time, early, and random response. Across sessions, random response trials decreased following training. Next, we switched training to longer intervals (20s or 80s; daily sessions for weeks). To probe the role of the VMT in temporal memory retrieval, we infused the GABAA-agonist muscimol, or saline, before training sessions. Results show that VMT muscimol infusions decreased timing precision. Also, at both intervals, the number of on-time response trials decreased, and the number of random response trials significantly increased. The number of early response trials had no significant change at 20s, and significantly decreased at 80s. Overall, our results suggest that the VMT is critical for precise retrieval of temporal memories. We also describe per-trial response patterns with characteristics consistent across all trained intervals, suggesting multiple behavioral strategies at play during interval timing.

neuroscience↗

bioRxiv2022

Reuniens transiently synchronizes memory networks at beta frequencies

Using episodic memories to help guide decisions requires top-down medial prefrontal cortex interactions with the hippocampus. Mechanistically, this integrated prefrontal-hippocampal memory state is thought to be organized by synchronized network oscillations and mediated by connectivity with the nucleus reuniens of the thalamus. Here, we recorded local field potentials from the prefrontal-reuniens-hippocampal network while rats were engaged in a nonspatial sequence memory task which helps isolate memory-related activity from running-related oscillations. We found that synchronous prefrontal-hippocampal beta bursts (15-30 Hz) were dominant during memory trials, whereas synchronous theta (6-12 Hz) was highest during running. Beta rose during a trial and peaked just before a decision, whereas theta was highest during running. Beta bursts first appeared in reuniens and then in prefrontal and hippocampal sites simultaneously, suggesting beta could be directly driven by reuniens. To test this, we used an optogenetic approach (retroAAV-ChR2) to see if reuniens was capable of driving prefrontal-hippocampal beta synchrony. Reuniens activation induced prefrontal-hippocampal beta coherence, and reduced theta coherence, resembling the observed memory-driven network state. These findings demonstrate for the first time that reuniens contributes to memory by driving transient synchronous beta in the prefrontal-hippocampal system facilitating coherent interactions that sub-serve memory-based decision making.

neuroscience↗

bioRxiv2022

Identifying the midline thalamus in humans in vivo

The midline thalamus is essential to flexible cognition, memory, and stress regulation and its dysfunction is associated with several neurological and mental health disorders including Alzheimers disease, schizophrenia, and depression. Despite the pervasive role of the midline thalamus in cognition and disease, almost nothing is known about it in humans due to the lack of a rigorous methodology for finding this brain region using noninvasive imaging technologies. Here, we introduce a new method for identifying the midline thalamus in vivo using probabilistic tractography and k-means clustering with diffusion weighted imaging data. This method clusters thalamic voxels based on data-driven cortical and subcortical connectivity profiles, and then segments midline thalamic nuclei based on connectivity profiles established in rodent and macaque tracer studies. Results from two different diffusion weighted imaging sets, including adult data (22-35yrs) from the Human Connectome Project (n=127) and adolescent data (9-14yrs) collected at Florida International University (n=34) showed that this approach reliably classifies midline thalamic clusters. As expected, these clusters were most evident along the dorsal/ventral extent of the third ventricle and primarily connected to the agranular medial prefrontal cortex (e.g., anterior cingulate cortex), nucleus accumbens, and medial temporal lobe regions. The midline thalamic clusters were then bisected based on a human brain atlas (Ding et al., 2016) into a dorsal midline thalamic cluster (paraventricular and paratenial nuclei) and a ventral midline thalamic cluster (rhomboid and reuniens nuclei). This anatomical connectivity-based identification procedure for the midline thalamus offers new opportunities to study this region in vivo in healthy populations and in those with psychiatric and neurological disorders. Significance StatementThe midline thalamus is essential for flexible cognition, decision making, and stress regulation. Abnormal development, dysfunction, and neurodegeneration of the midline thalamus is thought to be a critical pathology in several psychiatric and neurological disorders. Yet, little is known about the role of the human midline thalamus. Here we solve the problem of localization in vivo by using probabilistic tractography and data driven clustering (k-means), a method capable of capitalizing on known connectivity in non-human animal tracer studies. Localizing the midline thalamus based on its connectivity patterns provides a useful tool for future functional and structural human MRI studies to investigate clinical implications of the midline thalamus in diseases such as Alzheimers and schizophrenia.

neuroscience↗

bioRxiv2021

Sex and Estrous Cycle in Memory for Sequences of Events in Rats

The ability to remember sequences of events is fundamental to episodic memory. While rodent studies have examined sex and estrous cycle in episodic-like spatial memory tasks, little is known about these biological variables in memory for sequences of events that depend on representations of temporal context. We investigated the role of sex and estrous cycle in rats during all training and testing stages of a cross-species validated sequence memory task (Jayachandran et al., 2019). Rats were trained on a task composed of two sequences, each with four unique odors delivered on opposite ends of a linear track. Training occurred in six successive stages starting with learning to poke in a nose port for [≥]1.2s; eventually demonstrating sequence memory by holding their nose in the port for [≥]1s for in-sequence odors and <1s for out-of-sequence odors in order to receive a water reward. Performance was analyzed across sex and estrous cycle (proestrus, estrus, metestrus, and diestrus), the latter being determined by the cellular composition of a daily vaginal lavage. We found no evidence of sex differences in asymptotic sequence memory performance, similar to published data in humans performing the analogous task (Reeders et al., 2021). Likewise, we found no differences in performance across the estrous cycle. One minor difference was that female rats tended to have slightly longer poke times, while males had slightly more short poke times but this did not affect their decisions. These results suggest sex and estrous cycle are not major factors in sequence memory capacities.

animal behavior and cognition↗

bioRxiv2021

Dual medial prefrontal cortex and hippocampus projecting neurons in the paraventricular nucleus of the thalamus

The paraventricular nucleus (PVT) of the midline thalamus is a critical higher-order cortico-thalamo-cortical integration site that plays a critical role in various behaviors including reward seeking, cue saliency, and emotional memory. Anatomical studies have shown that PVT projects to both medial prefrontal cortex (mPFC) and hippocampus (HC). However, dual mPFC-HC projecting neurons which could serve a role in synchronizing mPFC and HC activity during PVT-dependent behaviors, have not been explored. Here we used a dual retrograde adenoassociated virus (AAV) tracing approach to characterize the location and proportion of different projection populations that send collaterals to mPFC and/or ventral hippocampus (vHC). Additionally, we examined the distribution of calcium binding proteins calretinin (CR) and calbindin (CB) with respect to these projection populations PVT. We found that PVT contains separate populations of cells that project to mPFC, vHC, and those that innervate both regions. Interestingly, dual mPFC-HC projecting cells expressed neither CR or CB. Topographically, mPFC- and vHC-projecting CB+ and CR+ cells clustered around dual projecting neurons in PVT. These results are consistent with the features of dual mPFC-vHC projecting cells in the nucleus reuniens (RE) and suggestive of a functional mPFC-PVT-vHC system that may support mPFC-vHC interactions in PVT-dependent behaviors.

neuroscience↗

bioRxiv2021

Dual projecting cells linking thalamic and cortical communication routes between the medial prefrontal cortex and hippocampus

The interactions between the medial prefrontal cortex (mPFC) and the hippocampus (HC) are critical for memory and decision making and have been specifically implicated in several neurological disorders including schizophrenia, epilepsy, frontotemporal dementia, and Alzheimers disease. The ventral midline thalamus (vmThal), and lateral entorhinal cortex and perirhinal cortex (LEC/PER) constitute major communication pathways that facilitate mPFC-HC interactions in memory. Although vmThal and LEC/PER circuits have been delineated separately we sought to determine whether these two regions share cell-specific inputs that could influence both routes simultaneously. To do this we used a dual fluorescent retrograde tracing approach using cholera toxin subunit-B (CTB-488 and CTB-594) with injections targeting vmThal and the LEC/PER in rats. Retrograde cell body labeling was examined in key regions of interest within the mPFC-HC system including: (1) mPFC, specifically anterior cingulate cortex (ACC), dorsal and ventral prelimbic cortex (dPL, vPL), and infralimbic cortex (IL); (2) medial and lateral septum (MS, LS); (3) subiculum (Sub) along the dorsal-ventral and proximal-distal axes; and (4) LEC and medial entorhinal cortex (MEC). Results showed that dual vmThal-LEC/PER-projecting cell populations are found in MS, vSub, and the shallow layers II/III of LEC and MEC. We did not find any dual projecting cells in mPFC or in the cornu ammonis (CA) subfields of the HC. Thus, mPFC and HC activity is sent to vmThal and LEC/PER via non-overlapping projection cell populations. Importantly, the dual projecting cell populations in MS, vSub, and EC are in a unique position to simultaneously influence both cortical and thalamic mPFC-HC pathways critical to memory. Significance StatementThe interactions between mPFC and HC are critical for learning and memory, and dysfunction within this circuit is implicated in various neurodegenerative and psychiatric diseases. mPFC-HC interactions are mediated through multiple communication pathways including a thalamic hub through the vmThal and a cortical hub through lateral entorhinal cortex and perirhinal cortex. Our data highlight newly identified dual projecting cell populations in the septum, Sub, and EC of the rat brain. These dual projecting cells may have the ability to modify the information flow within the mPFC-HC circuit through synchronous activity, and thus offer new cell-specific circuit targets for basic and translational studies in memory.

neuroscience↗

bioRxiv2021

Replicating Light-Off Startle Responses in Drosophila melanogaster

We present a highly reproducible method for investigating the startle flight responses of wild type Drosophila melanogaster to light-off stimuli, using the automated Zantiks MWP unit. The built-in, live video-tracking of the Zantiks unit measured distance travelled between frames for 24 flies after light-off stimuli, whilst providing video-recordings of each startle. Using light-off stimuli which elicited peak startling, we found evidence for habituation of the startle response after only a few consecutive trials. Distance travelled on startle trials was reduced when a prepulse stimulus of shorter duration was introduced before the light-off stimulus, providing behavioural evidence for prepulse inhibition (PPI). Deficits in habituation and PPI are linked to various psychiatric disorders and our method holds great potential for use alongside genetic and pharmacological manipulations. Here, we demonstrate the capability of this highly automated, high throughput technology to streamline behavioural research on Drosophila, using a replicable, controlled environment.

animal behavior and cognition↗

bioRxiv2020

Calretinin and calbindin architecture of the midline thalamus associated with prefrontal-hippocampal circuitry

The midline thalamus bi-directionally connects the medial prefrontal cortex (mPFC) and hippocampus (HC) creating a unique cortico-thalamo-cortico circuit fundamental to memory and executive function. While the anatomical connectivity of midline thalamus has been thoroughly investigated, little is known about its cellular organization within each nucleus. Here we used immunohistological techniques to examine cellular distributions in the midline thalamus based on the calcium binding proteins parvalbumin (PV), calretinin (CR), and calbindin (CB). We also examined these calcium binding proteins in a population of reuniens cells known to project to both mPFC and HC using a dual fluorescence retrograde adenoassociated virus (AAV) based tracing approach. These dual reuniens mPFC-HC projecting cells, in particular, are thought to be important for synchronizing mPFC and HC activity. First, we confirmed the absence of PV+ neurons in the midline thalamus. Second, we found a common pattern of CR+ and CB+ cells throughout midline thalamus with CR+ cells running along the nearby third ventricle (3V) and penetrating the midline. CB+ cells were consistently more lateral and toward the middle of the dorsal-ventral extent of the midline thalamus. Notably, single-labeled CR+ and CB+ zones were partially overlapping and included dual-labeled CR+/CB+ cells. Within RE, we also observed a CR and CB subzone specific diversity. Interestingly, dual mPFC-HC projecting neurons in RE expressed none of the calcium binding proteins examined, but were contained in nests of CR+ and CB+ cells. Overall, the midline thalamus was well organized into CR+ and CB+ rich zones distributed throughout the region, with dual mPFC-HC projecting cells in reuniens representing a unique cell population. These results provide a cytoarchitectural organization in the midline thalamus based on calcium binding protein expression, and sets the stage for future cell-type specific interrogations of the functional role of these different cell populations in mPFC-HC interactions.

neuroscience↗

bioRxiv2020

Chronic lead exposure causes theta and gamma hypersynchrony in the hippocampus and disrupts sensorimotor gating

Chronic early-life lead (Pb2+) exposure contributes to an array of cognitive and behavioral dysfunctions, including impaired attention, memory, and intellectual abilities, in addition to increased social delinquency. Notably, Pb2+ exposure is an environmental risk factor for adult psychopathologies, including schizophrenia and epilepsy. Neurobiologically, Pb2+ is a potent N-methyl-D-aspartate receptor (NMDAR) antagonist, and exposure during early life elicits a cascade of cellular neurotoxic effects that alter neurodevelopmental trajectories. This includes reduced parvalbumin-expressing interneurons in the hippocampus (HC) and altered synaptic transmission. Little is known, however, about the impact of chronic Pb2+ exposure on HC network dynamics, which link cellular-molecular effects with cognitive-behavioral consequences. Here, we tested the impact of chronic Pb2+ exposure on the HC local field potential (LFP) in freely behaving rats. We found that Pb2+ exposure (1) caused a striking level of theta rhythmic hypersynchrony, (2) amplified fast gamma synchronization, (3) disrupted behavioral modifications of theta and fast gamma, and (4) exacerbated absence seizures appearing in the LFP as spike-wave discharges (SWDs) at theta frequencies. Each of these rhythmic changes in the HC network was related to exploratory movements in the open field. HC network alterations like these have also been linked to impaired prepulse inhibition of the acoustic startle reflex (PPI). Thus, next, we tested the effect of Pb2+ exposure on PPI. We found that adult males (PN50 and 120), but neither females nor juvenile males, showed reduced PPI, recapitulating sex dependencies on PPI disruptions in schizophrenics. Altogether, these results are consistent with the hypothesis that chronic early-life Pb2+ exposure causes dysfunction in the rhythmic network coordination of the HC, limiting processing, and helping to account for cognitive deficits.

neuroscience↗

bioRxiv2019

RatHat: A self-targeting printable brain implant system

There has not been a major change in how neuroscientists approach stereotaxic methods in decades. Here we present a new stereotaxic method that improves on traditional approaches by reducing costs, training, surgical time, and aiding repeatability. The RatHat brain implantation system is a 3D printable stereotaxic device for rats that is fabricated prior to surgery and fits to the shape of the skull. RatHat builds are directly implanted into the brain without the need for head-leveling or coordinate-mapping during surgery. The RatHat system can be used in conjunction with the traditional u-frame stereotaxic device, but does not require the use of a micromanipulator for successful implantations. Each RatHat system contains several primary components including the implant for mounting intracranial components, the surgical stencil for targeting drill sites, and the protective cap for impacts and debris. Each component serves a unique function and can be used together or separately. We demonstrate the feasibility of the RatHat system in four different proof-of-principle experiments: 1) a 3-pole cannula apparatus, 2) an optrode-electrode assembly, 3) a fixed-electrode array, and 4) a tetrode hyperdrive. Implants were successful, durable, and long-lasting (up to 9 months). RatHat print files are easily created, can be modified in CAD software for a variety of applications, and are easily shared, contributing to open science goals and replications. The RatHat system has been adapted to multiple experimental paradigms in our lab and should be a useful new way to conduct stereotaxic implant surgeries in rodents. Impact StatementWe demonstrate a new approach to rodent stereotaxic surgery. Rodent neurosurgery is a complex skill that requires expensive equipment for head stabilization and micromanipulators for localization. The RatHat is a 3D printable brain implant system that reduces costs and time using pre-mapped and printed surgical files. A surgical stencil allows for quick placement of drill holes, and a RatHat places components in the brain using atlas coordinates. The RatHat system is an easily shared resource facilitating open science goals for simple replications and archiving of specific experimental applications.

neuroscience↗

bioRxiv2019

'Awake delta' and theta-rhythmic hippocampal network modes during intermittent locomotor behaviors in the rat

Delta-frequency network activity is commonly associated with sleep or behavioral disengagement accompanied by a dearth of cortical spiking, but delta in awake behaving animals is not well understood. We show that hippocampal (HC) synchronization in the delta frequency band (1-4 Hz) is related to animals locomotor behavior using a detailed analysis of simultaneous head- and body-tracking data. In contrast to running-speed modulation of the theta rhythm (6-10 Hz, a critical mechanism in navigation models), we observed that strong delta synchronization occurred when animals were stationary or moving slowly and while theta and fast gamma (55-120 Hz) were weak. We next combined time-frequency decomposition of the local field potential with hierarchical clustering algorithms to categorize momentary estimations of the power spectral density (PSD) into putative modes of HC activity. Delta and theta power measures from these modes were notably orthogonal, and theta and delta coherences between HC recording sites were monotonically related to theta-delta ratios across modes. Next, we focused on bouts of precisely-defined running and stationary behavior. Extraction of delta and theta power density estimates for each instance of these bout types confirmed the orthogonality between frequency bands seen across modes. We found that delta-band and theta-band coherence within HC, and in a small sample, between HC and medial prefrontal cortex (mPFC), mirrored delta and theta components of the PSD. Delta-band synchronization often developed rapidly when animals paused briefly between runs, as well as appearing throughout longer stationary bouts. Taken together, our findings suggest that delta-dominated network modes (and corresponding mPFC-HC couplings) represent functionally-distinct circuit dynamics that are temporally and behaviorally interspersed amongst theta-dominated modes during navigation. As such these modes of mPFC-HC circuit dynamics could play a fundamental role in coordinating encoding and retrieval mechanisms or decision-making processes at a timescale that segments event sequences within behavioral episodes.

neuroscience↗

bioRxiv2018

Prefrontal pathways provide top down control of memory for sequences of events

We remember our lives as sequences of events, but it is unclear how these memories are controlled during retrieval. In rats, prelimbic cortex (PL) is positioned to influence sequence memory through extensive top down inputs to the nucleus reuniens of the thalamus (RE) and perirhinal cortex (PER), regions heavily interconnected with the hippocampus. Here, we tested the hypothesis that specific PLRE and PLPER projections regulate sequence memory retrieval using an hM4Di synaptic-silencing approach. First, we show that the suppression of PL activity impairs sequence memory. Second, we show that inhibiting PLRE and PLPER pathways effectively eliminated sequence memory. Last, we performed a sequential lag analysis showing that the PLRE pathway contributes to a working memory retrieval strategy, and the PLPER pathway contributes to a temporal context memory retrieval strategy. These results demonstrate that the PLRE and PLPER pathways serve as top down mechanisms that control sequence memory retrieval strategies.

neuroscience↗

bioRxiv2018

Hippocampus activations reflect temporal contexts while medial prefrontal cortex activations reflect ordinal positions during sequence memory in humans

Remembering sequences of events defines episodic memory, but retrieval can be driven by both ordinality and temporal contexts. Whether these modes of retrieval operate at the same time or not remains unclear. Theoretically, medial prefrontal cortex (mPFC) confers ordinality, while the hippocampus (HC) associates events in gradually changing temporal contexts. Here, we looked for evidence of each with BOLD fMRI in a sequence task that taxes both retrieval modes. To test ordinal modes, items were transferred between sequences but retained their position (e.g., AB3). Ordinal modes activated mPFC, but not HC. To test temporal contexts, we examined items that skipped ahead across lag distances (e.g., ABD). HC, but not mPFC, tracked temporal contexts. There was a mPFC and HC by retrieval mode interaction. These current results suggest that the mPFC and HC are concurrently engaged in different retrieval modes in support of remembering when an event occurred. Significance StatementMemory for sequences of events is a defining aspect of everyday episodic memory allowing our brain to separate unique experiences that otherwise have overlapping sensory and spatial content. Sequence memory is impaired in typical aging and in disorders such as Alzheimers disease. The results of the current study provide new evidence that two retrieval modes concurrently arise during sequence memory, and they have distinct neural correlates. The medial prefrontal cortex contributes to an ordinal retrieval mode, while at the same time, the hippocampus contributes a gradually-changing temporal context mode of retrieval. These data shed new light on why typical episodic memory requires both the medial prefrontal cortex and the hippocampus, and suggests a functional dissociation between the medial prefrontal cortex and hippocampus across these modes of retrieval.

neuroscience↗