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Joyce, J.

Publications and source records attributed to Joyce, J..

9 recordsLinked to original sources

Aphid effector Mp10 balances immune suppression and defence activation through EDS1-dependent modulation of plant DAMP responses

O_LIDamage-associated molecular pattern (DAMP)-triggered immunity (DTI) serves as a crucial first line of defence against aphid attack, yet the mechanisms by which aphids suppress this response remain unclear. C_LIO_LIBy investigating the colonisation of Arabidopsis thaliana by the highly polyphagous peach-potato aphid (Myzus persicae), we identified cell wall-derived DAMPs, specifically oligogalacturonides (OGs), as key in inducing DTI against aphids. The OG-responsive immune components BAK1/BKK1, CPK5/CPK6, GRP3, and EDS1 collectively contribute to DTI limiting aphid colonisation. C_LIO_LIWe found that aphids limit OG production during feeding. Additionally, the salivary chemosensory protein (CSP) effector Mp10/CSP4, which is known to be delivered into the cytoplasm of plant cells early in aphid attack, inhibits OG-induced DTI. C_LIO_LIWhile Mp10 suppresses OG-induced DTI, it also interacts with EDS1-mediated defences, enhancing aphid fecundity in the absence of EDS1 but restoring OG responsiveness under attack, revealing its broader role in immune modulation and effector-driven host adaptation. C_LI

plant biology↗

The conserved aphid saliva chemosensory protein effector Mp10 targets plant AMSH deubiquitinases at cellular membranes to suppress pattern-triggered immunity

Chemosensory proteins (CSPs) are a conserved family present in insects and other arthropods, recognized for their critical roles in both intra- and interspecies communication. However, the functional mechanisms of these proteins remain largely unexplored. In our previous research, we identified a CSP in aphid saliva, Mp10, from the peach-potato aphid Myzus persicae, which functions as an effector protein modulating host plant immunity. Mp10 suppresses pattern recognition receptor (PRR)-triggered immunity (PTI), the first layer of plant defence, while also inducing effector-triggered immunity (ETI). In this study, we elucidate the molecular mechanisms by which Mp10 suppresses PTI. Our findings reveal that Mp10 interacts with AMSH deubiquitinase enzymes in plants, as shown by yeast two-hybrid, co-immunoprecipitation (co-IP), and FRET-FLIM assays, with these interactions predominantly localized to intracellular membranes. Mp10 was found to modulate the dynamics of membrane-bound PRR receptor kinases in plant cells. Co-IP and mass spectrometry analyses demonstrated that Mp10 and AMSH2 associate with a range of PRR kinases, PRR-associated kinases, and proteins involved in the intracellular trafficking of membrane proteins. Mp10 reduces the accumulation of these kinases at the cell surface by promoting their internalization to internal membranes, thereby dampening PTI. Supporting this, a dominant-negative catalytically inactive variant of AMSH2 also inhibits PTI. Interestingly, Mp10 orthologues from other sap-feeding hemipteran insects exhibit similar immune-suppressive activities, and our findings show that their interaction with plant AMSH proteins is conserved, indicating this immune-suppression mechanism is evolutionarily ancient.

plant biology↗

Recurrent connections enable point attractor dynamics and dimensionality reduction in a connectome-constrained model of the insect learning center

The learning center in the insect, the mushroom body (MB) with its predominant population of Kenyon Cells (KCs), is a widely studied model system to investigate neural processing principles, both experimentally and theoretically. While many computational models of the MB have been studied, the computational role of recurrent connectivity between KCs remains inadequately understood. Dynamical point attractors are a candidate theoretical framework where recurrent connections in a neural network can enable a discrete set of stable activation patterns. However, given that detailed, full recurrent connectivity patterns in biological neuron populations are mostly unknown, how theoretical models are substantiated by specific networks found in biology has not been clear. Leveraging the recent release of the full synapse-level connectivity of the MB in the fly, we performed a series of analyses and network model simulations to investigate the computational role of the recurrent KC connections, especially their significance in attractor dynamics. Structurally, the recurrent excitation (RE) connections are highly symmetric and balanced with feedforward input. In simulations, RE facilitates dimensionality reduction and allows a small set of self-sustaining point attractor states to emerge. To further quantify the possible range of network properties mediated by RE, we systematically explored the dynamical regimes enabled by changing recurrent connectivity strength. Finally, we establish connections between our findings and potential functional or behavioral implications. Overall, our work provides quantitative insights into the possible functional role of the recurrent excitatory connections in the MB by quantifying the point attractor network dynamics within a full synapse-level connectome-constrained highly recurrent network model. These findings advance our understanding of how biological neural networks may utilize point attractor dynamics. Author summaryPoint attractor neural networks are widely used theoretical models of associative memory, where recurrent connections between neurons enable a discrete set of stable activation patterns that can recover a full pattern based on partial cues. The detailed full recurrent connectivity patterns in biological neuron populations are largely unknown, however, raising questions about the precise correspondence between theoretical point attractor models and neural networks found in biology. Recent breakthroughs have unveiled the synapse-level connectivity of all neurons within the learning center of an insect, including recurrent connections between the primary neuron type--a crucial component with an elusive computational role. In this work, we perform analyses of these recurrent connectivity patterns and simulate neural network models that have these biologically constrained neural network patterns. We find that these recurrent connections are highly symmetric and balanced with input to the memory center. In simulations, we find that these recurrent connections perform dimensionality reduction and enable a small set of point attractor states. We additionally characterize how the strength of these recurrent connections affects network properties and downstream behavioral consequences. Overall, this work advances an understanding of the insect learning center as well as the relationship between theoretical and biological recurrent networks.

neuroscience↗

A Novel Semi-automated Proofreading and Mesh Error Detection Pipeline for Neuron Extension

AO_SCPLOWBSTRACTC_SCPLOWThe immense scale and complexity of neuronal electron microscopy (EM) datasets pose significant challenges in data processing, validation, and interpretation, necessitating the development of efficient, automated, and scalable error-detection methodologies. This paper proposes a novel approach that employs mesh processing techniques to identify potential error locations near neuronal tips. Error detection at tips is a particularly important challenge since these errors usually indicate that many synapses are falsely split from their parent neuron, injuring the integrity of the connectomic reconstruction. Additionally, we draw implications and results from an implementation of this error detection in a semi-automated proofreading pipeline. Manual proofreading is a laborious, costly, and currently necessary method for identifying the errors in the machine learning based segmentation of neural tissue. This approach streamlines the process of proofreading by systematically highlighting areas likely to contain inaccuracies and guiding proofreaders towards potential continuations, accelerating the rate at which errors are corrected.

neuroscience↗

Informing generative replay for continual learning with long-term memory formation in the fruit fly

Continual learning without catastrophic forgetting is a challenge for artificial systems but it is done naturally across a range of biological systems, including in insects. A recurrent circuit has been identified in the fruit fly mushroom body to consolidate long term memories (LTM), but there is not currently an algorithmic understanding of this LTM formation. We hypothesize that generative replay is occurring to consolidate memories in this recurrent circuit, and find anatomical evidence in synapse-level connectivity that supports this hypothesis. Next, we introduce a computational model which combines an initial experience phase and LTM phase to perform generative replay based continual learning. When evaluated on a CIFAR-100 class-incremental continual learning task, the modeled LTM phase increases classification performance by 20% and approaches within 2% of the performance for a non-incremental upper bound baseline. Unique elements of the proposed generative replay model include: 1) coupling high dimensional sparse activation patterns with generative replay and 2) sampling and reconstructing higher level representations for training generative replay (as opposed to reconstructing sensory-level or processed sensory-level representations). Additionally, we make the experimentally testable prediction that a specific set of synapses would need to undergo experience-dependent plasticity during LTM formation to support our generative replay based model.

neuroscience↗

NeuVue: A Framework and Workflows for High-Throughput Electron Microscopy Connectomics Proofreading

Connectomic reconstruction from large image volumes produces segmentation and synaptic-assignment errors that must be resolved to support downstream analyses. As datasets have grown larger and teams more distributed, proofreading has become a critical operational bottleneck. Workflows for proofreading and error correction have not scaled commensurately with connectomic data production and may not accommodate heterogeneous proofreader expertise and machine-generated candidate edits. New tools are therefore needed to organize, prioritize, and coordinate proofreading at volume scale. Here we present NeuVue, a task-management and prioritization framework that operationalizes proofreading through atomic, auditable tasks for individual and team review, multistage routing across proofreader cohorts, performance and volume-state tracking, and integration with community annotation, visualization, and analysis services. We report the use of NeuVue across two volumetric datasets, supporting scalable proofreading by over forty proofreaders and producing over fifty thousand edits. NeuVue provides a reproducible human-in-the-loop framework for generating, validating, and maintaining large connectomic datasets.

neuroscience↗

Online learning for orientation estimation during translation in an insect ring attractor network

Insect neural systems are a promising source of inspiration for new algorithms for navigation, especially on low size, weight, and power platforms. There have been unprecedented recent neuroscience breakthroughs with Drosophila in behavioral and neural imaging experiments as well as the mapping of detailed connectivity of neural structures. General mechanisms for learning orientation in the central complex (CX) of Drosophila have been investigated previously; however, it is unclear how these underlying mechanisms extend to cases where there is translation through an environment (beyond only rotation), which is critical for navigation in robotic systems. Here, we develop a CX neural connectivity-constrained model that performs sensor fusion, as well as unsupervised learning of visual features for path integration; we demonstrate the viability of this circuit for use in robotic systems in simulated and physical environments. Furthermore, we propose a theoretical understanding of how distributed online unsupervised network weight modification can be leveraged for learning in a trajectory through an environment by minimizing of orientation estimation error. Overall, our results here may enable a new class of CX-derived low power robotic navigation algorithms and lead to testable predictions to inform future neuroscience experiments. SummaryAn insect neural connectivity-constrained model performs sensor fusion and online learning for orientation estimation.

neuroscience↗

Leveraging Tools from Autonomous Navigation for Rapid, Robust Neuron Connectivity

As biological imaging datasets continue to grow in size, extracting information from large image volumes presents a computationally intensive challenge. State-of-the-art algorithms are almost entirely dominated by the use of convolutional neural network approaches that may be diffcult to run at scale given schedule, cost, and resource limitations. We demonstrate a novel solution for high-resolution electron microscopy brain image volumes that permits the identification of individual neurons and synapses. Instead of conventional approaches whereby voxels are labelled according to the neuron or neuron segment to which they belong, we instead focus on extracting the underlying brain graph represented by synaptic connections between individual neurons while also identifying key features like skeleton similarity and path length. This graph represents a critical step and scaffold for understanding the structure of neuronal circuitry. Our approach recasts the segmentation problem to one of path-finding between keypoints (i.e., connectivity) in an information sharing framework using virtual agents. We create a family of sensors which follow local decision-making rules that perform computationally cheap operations on potential fields to perform tasks such as avoiding cell membranes and finding synapses. These enable a swarm of virtual agents to effciently and robustly traverse three-dimensional datasets, create a sparse segmentation of pathways, and capture connectivity information. We achieve results that meet or exceed state-of-the-art performance at a substantially lower computational cost. This tool offers a categorically different approach to connectome estimation that can augment how we extract connectivity information at scale. Our method is generalizable and may be extended to biomedical imaging problems such as tracing the bronchial trees in lungs or road networks in natural images.

neuroscience↗

Environmental DNA for the enumeration and management of Pacific salmon

Pacific salmon are a keystone resource in Alaska, generating annual revenues of well over [~]US$500 million/yr. Due to their anadromous life history, adult spawners distribute amongst thousands of streams, posing a huge management challenge. Currently, spawners are enumerated at just a few streams because of reliance on human counters and, rarely, sonar. The ability to detect organisms by shed tissue (environmental DNA, eDNA) promises a more efficient counting method. However, although eDNA correlates generally with local fish abundances, we do not know if eDNA can accurately enumerate salmon. Here we show that daily, and near-daily, flow-corrected eDNA rate closely tracks daily numbers of returning sockeye and coho spawners and outmigrating sockeye smolts. eDNA thus promises accurate and efficient enumeration, but to deliver the most robust numbers will need higher-resolution stream-flow data, at-least-daily sampling, and a focus on species with simple life histories, since shedding rate varies amongst jacks, juveniles, and adults.

ecology↗