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West, S. J.

Publications and source records attributed to West, S. J..

6 recordsLinked to original sources

VTA dopamine neuron activity produces spatially organized value representations

What is the neural architecture by which dopamine (DA) determines choice? Reinforcement learning (RL) has suggested an algorithmic chain: prediction errors based on reward train predicted values for stimuli and actions, and thereby determine choice. Elements of this chain have been identified, but have yet to be convincingly assembled. Here we used optogenetic stimulation of putative prediction error neurons at the top of this chain - i.e., DA neurons in the ventral tegmental area (VTA) - and recorded the activity of thousands of neurons in their target structure - the striatum - in mice performing a task that dissociates VTA DA signalling, stimulus value, action value, and choice. Conventional RL models captured some features of the data, including DA-driven choice reinforcement and value correlates, but failed on two key observations: i) action and state value correlates were relatively weak in the VTAs main target, the nucleus accumbens (NAc), and ii) VTA DA could not reinforce actions in the absence of a reward-predictive cue (CS+). Instead, we find that VTA DA produces stimulus value representations in the NAc, which in turn generates action value representations downstream (e.g. the CP). We formalize these observations in a Conditioned Reinforcer model, where VTA DA specifically acts on stimuli rather than actions, and these stimulus value representations are used to drive choice reinforcement.

neuroscience↗

DHHC21 is a STIM1 protein S-acyltransferase that modulates immune function in vivo

Depletion of calcium from ER stores leads to the activation of calcium channels on the plasma membrane. This process is termed store-operated calcium entry (SOCE). The proteins STIM1 and STIM2 function as ER calcium sensors, and upon store depletion, they undergo a conformational change that allows them to bind to and gate Orai calcium channels on the plasma membrane. We have shown that both Orai1 and STIM1 are dynamically S-acylated after store depletion, which is required for SOCE. These results suggest the requirement of a calcium-activated protein S-acyltransferase such as DHHC21. Here, we show that DHHC21 is essential for SOCE in vitro and in vivo. Using the depilated mouse model that expresses DHHC21 but can no longer be activated by calcium, we show that DHHC21 activation is required for STIM1 S-acylation and subsequent calcium entry. Plasma membrane-localized DHHC21 is dynamically recruited into Orai1/STIM1 puncta upon store depletion, where it physically binds to STIM1. Finally, we show that depilated mice phenocopy many aspects of autoimmune lymphoproliferative syndrome (ALPS), including defective Fas-mediated calcium release, T cell death, neutropenia, and increased serum vitamin B12 levels. These results suggest that dynamic S-acylation has underappreciated and expansive roles in second messenger signaling and immune system function. Targeting DHHC21 may be therapeutically beneficial for ALPS and diseases associated with deregulated activation of STIM1, such as tubular aggregate myopathy and Stormorken syndrome.

immunology↗

Interactive data exploration websites for large-scale electrophysiology

Methodological advances in neuroscience have enabled the collection of massive datasets which demand innovative approaches for scientific communication. Existing platforms for data storage lack intuitive tools for data exploration, limiting our ability to interact effectively with these brain-wide datasets. We introduce two public websites: (Data and Atlas) developed for the International Brain Laboratory which provide access to millions of behavioral trials and hundreds of thousands of individual neurons. These interfaces allow users to discover both the raw and processed brain-wide data released by the IBL at the scale of the whole brain, individual sessions, trials, and neurons. By hosting these data interfaces as websites they are available cross-platform with no installation. By releasing each sites code as a modular open-source framework, other researchers can easily develop their own web interfaces and explore their own data. As neuroscience datasets continue to expand, customizable web interfaces offer a glimpse into a future of streamlined data exploration and act as blueprints for future tools.

neuroscience↗

Pinpoint: trajectory planning for multi-probe electrophysiology and injections in an interactive web-based 3D environment

Targeting deep brain structures during electrophysiology and injections requires intensive training and expertise. Even with experience, researchers often cant be certain that a probe is placed precisely in a target location and this complexity scales with the number of simultaneous probes used in an experiment. Here, we present Pinpoint, open-source software that allows for interactive exploration of stereotaxic insertion plans. Once an insertion plan is created, Pinpoint allows users to save these online and share them with collaborators. 3D modeling tools allow users to explore their insertions alongside rig and implant hardware and ensure plans are physically possible. Probes in Pinpoint can be linked to electronic micro-manipulators allowing real-time visualization of current brain region targets alongside neural data. In addition, Pinpoint can control manipulators to automate and parallelize the insertion process. Compared to previously available software, Pinpoints easy access through web browsers, extensive features, and real-time experiment integration enable more efficient and reproducible recordings.

neuroscience↗

Dynamic S-acylation of STIM1 is required for store-operated Ca 2+ entry

Many cell surface stimuli cause calcium release from endoplasmic reticulum (ER) stores to regulate cellular physiology. Upon ER calcium store depletion, the ER-resident protein STIM1 physically interacts with plasma membrane protein Orai1 to induce calcium release-activated calcium (CRAC) currents that conduct calcium influx from the extracellular milieu. Although the physiological relevance of this process is well established, the mechanism supporting the assembly of these proteins is incompletely understood. Earlier we demonstrated a previously unknown post-translational modification of Orai1 with long chain fatty acids, known as S-acylation. We found that S-acylation of Orai1 is dynamically regulated in a stimulus-dependent manner and essential for its function as a calcium channel. Here we show that STIM1 is also rapidly and transiently S-acylated at cysteine 437 upon ER calcium store depletion. S-acylation of STIM1 is required for the assembly of STIM1 into puncta with Orai1 and full CRAC channel function. Together with the S-acylation of Orai1, our data suggest that stimulus-dependent S-acylation of CRAC channel components Orai1 and STIM1 is a critical mechanism facilitating CRAC channel assembly and function.

cell biology↗

StereoMate: A Stereological and Automated Analysis Platform for Assessing Histological Labelling in Cleared Tissue Specimens

Tissue clearing methods offer great promise to understand tissue organisation, but also present serious technical challenges. Generating high quality tissue labelling, developing tools for demonstrably reliable and accurate extraction, and eliminating baises through stereological technique, will establish a high standard for 3D quantitative data from cleared tissue. These challenges are met with StereoMate, an open-source image analysis framework for immunofluorescent labelling in cleared tissue. The platform facilitates the development of image segmentation protocols with rigorous validation, and extraction of object-level data in an automated and stereological manner. Mouse dorsal root ganglion neurones were assessed to validate this platform, which revealed a profound loss and shift in neurone size, and loss of axonal input and synaptic terminations within the spinal dorsal horn following their injury. In conclusion, the StereoMate platform provides a general-purpose automated stereological analysis platform to generate rich and unbiased object-level datasets from immunofluorescent data.

neuroscience↗