Elongate limbless robots have the potential to locomote through tightly packed spaces for applications such as search-and-rescue and industrial inspections. The capability to effectively and robustly maneuver elongate limbless robots is crucial to realize such potential. However, there has been limited research on turning strategies for such systems. To achieve effective and robust turning performance in cluttered spaces, we take inspiration from a microscopic nematode, C. elegans, which exhibits remarkable maneuverability in rheologically complex environments partially because of its ability to perform omega turns. Despite recent efforts to analyze omega turn kinematics, it remains unknown if there exists a wave equation sufficient to prescribe an omega turn, let alone its reconstruction on robot platforms. Here, using a comparative theory-biology approach, we prescribe the omega turn as a superposition of two traveling waves. With wave equations as a guideline, we design a controller for limbless robots enabling robust and effective turning behaviors in lab and cluttered field environments. Finally, we show that such omega turn controllers can also generalize to elongate multi-legged robots, demonstrating an alternative effective body-driven turning strategy for elongate robots, with and without limbs.

Swarm intelligence emerges from decentralised interactions among simple agents, enabling collective problem-solving. This study establishes a theoretical equivalence between pheromone-mediated aggregation in \celeg\ and reinforcement learning (RL), demonstrating how stigmergic signals function as distributed reward mechanisms. We model engineered nematode swarms performing foraging tasks, showing that pheromone dynamics mathematically mirror cross-learning updates, a fundamental RL algorithm. Experimental validation with data from literature confirms that our model accurately replicates empirical \celeg\ foraging patterns under static conditions. In dynamic environments, persistent pheromone trails create positive feedback loops that hinder adaptation by locking swarms into obsolete choices. Through computational experiments in multi-armed bandit scenarios, we reveal that introducing a minority of exploratory agents insensitive to pheromones restores collective plasticity, enabling rapid task switching. This behavioural heterogeneity balances exploration-exploitation trade-offs, implementing swarm-level extinction of outdated strategies. Our results demonstrate that stigmergic systems inherently encode distributed RL processes, where environmental signals act as external memory for collective credit assignment. By bridging synthetic biology with swarm robotics, this work advances programmable living systems capable of resilient decision-making in volatile environments.

AI alignment is a field of research that aims to develop methods to ensure that agents always behave in a manner aligned with (i.e. consistently with) the goals and values of their human operators, no matter their level of capability. This paper proposes an affectivist approach to the alignment problem, re-framing the concepts of goals and values in terms of affective taxis, and explaining the emergence of affective valence by appealing to recent work in evolutionary-developmental and computational neuroscience. We review the state of the art and, building on this work, we propose a computational model of affect based on taxis navigation. We discuss evidence in a tractable model organism that our model reflects aspects of biological taxis navigation. We conclude with a discussion of the role of affective taxis in AI alignment.

Detecting slender, overlapping structures remains a challenge in computational microscopy. While recent coordinate-based approaches improve detection, they often produce less accurate splines than pixel-based methods. We introduce a training-free differentiable rendering approach to spline refinement, achieving both high reliability and sub-pixel accuracy. Our method improves spline quality, enhances robustness to distribution shifts, and shrinks the gap between synthetic and real-world data. Being fully unsupervised, the method is a drop-in replacement for the popular active contour model for spline refinement. Evaluated on C. elegans nematodes, a popular model organism for drug discovery and biomedical research, we demonstrate that our approach combines the strengths of both coordinate- and pixel-based methods.

We introduce a new algorithm for finding robust circular coordinates on data that is expected to exhibit recurrence, such as that which appears in neuronal recordings of C. elegans. Techniques exist to create circular coordinates on a simplicial complex from a dimension 1 cohomology class, and these can be applied to the Rips complex of a dataset when it has a prominent class in its dimension 1 cohomology. However, it is known this approach is extremely sensitive to uneven sampling density. Our algorithm comes with a new method to correct for uneven sampling density, adapting our prior work on averaging coordinates in manifold learning. We use rejection sampling to correct for inhomogeneous sampling and then apply Procrustes matching to align and average the subsamples. In addition to providing a more robust coordinate than other approaches, this subsampling and averaging approach has better efficiency. We validate our technique on both synthetic data sets and neuronal activity recordings. Our results reveal a topological model of neuronal trajectories for C. elegans that is constructed from loops in which different regions of the brain state space can be mapped to specific and interpretable macroscopic behaviors in the worm.

Caenorhabditis elegans (C. elegans) is an excellent model organism because of its short lifespan and high degree of homology with human genes, and it has been widely used in a variety of human health and disease models. However, the segmentation of C. elegans remains challenging due to the following reasons: 1) the activity trajectory of C. elegans is uncontrollable, and multiple nematodes often overlap, resulting in blurred boundaries of C. elegans. This makes it impossible to clearly study the life trajectory of a certain nematode; and 2) in the microscope images of overlapping C. elegans, the translucent tissues at the edges obscure each other, leading to inaccurate boundary segmentation. To solve these problems, a Bilayer Segmentation-Recombination Network (BR-Net) for the segmentation of C. elegans instances is proposed. The network consists of three parts: A Coarse Mask Segmentation Module (CMSM), a Bilayer Segmentation Module (BSM), and a Semantic Consistency Recombination Module (SCRM). The CMSM is used to extract the coarse mask, and we introduce a Unified Attention Module (UAM) in CMSM to make CMSM better aware of nematode instances. The Bilayer Segmentation Module (BSM) segments the aggregated C. elegans into overlapping and non-overlapping regions. This is followed by integration by the SCRM, where semantic consistency regularization is introduced to segment nematode instances more accurately. Finally, the effectiveness of the method is verified on the C. elegans dataset. The experimental results show that BR-Net exhibits good competitiveness and outperforms other recently proposed instance segmentation methods in processing C. elegans occlusion images.

Microrobots engineered from self-propelling active particles, extend the reach of robotic operations to submillimeter dimensions and are becoming increasingly relevant for various tasks, such as manipulation of micro/nanoscale cargo, particularly targeted drug delivery. However, achieving deep-tissue penetration and drug delivery remain a challenge. This work developed a novel biohybrid microrobot consisting of jellyfish stinging capsules, which act as natural nanoinjectors for efficient penetration and delivery, assembled onto an active Janus particle (JP). While microrobot transport and navigation was externally controlled by magnetic field-induced rolling, capsule loading onto the JP surface was controlled by electric field. Following precise navigation of the biohybrid microrobots to the vicinity of target tissues, the capsules were activated by a specific enzyme introduced to the solution, which then triggered tubule ejection and release of the preloaded molecules. Use of such microrobots for penetration of and delivery of the preloaded drug/toxin to targeted cancer spheroids and live Caenorhabditis elegans was demonstrated in-vitro. The findings offer insights for future development of bio-inspired microrobots capable of deep penetration and drug delivery. Future directions may involve encapsulation of various drugs within different capsule types for enhanced versatility. This study may also inspire in-vivo applications involving deep tissue drug delivery.

This study introduces an artificial neural network (ANN) for image classification task, inspired by the aversive olfactory learning circuits of the nematode Caenorhabditis elegans (C. elegans). Despite the remarkable performance of ANNs in a variety of tasks, they face challenges such as excessive parameterization, high training costs and limited generalization capabilities. C. elegans, with its simple nervous system comprising only 302 neurons, serves as a paradigm in neurobiological research and is capable of complex behaviors including learning. This research identifies key neural circuits associated with aversive olfactory learning in C. elegans through behavioral experiments and high-throughput gene sequencing, translating them into an image classification ANN architecture. Additionally, two other image classification ANNs with distinct architectures were constructed for comparative performance analysis to highlight the advantages of bio-inspired design. The results indicate that the ANN inspired by the aversive olfactory learning circuits of C. elegans achieves higher accuracy, better consistency and faster convergence rates in image classification task, especially when tackling more complex classification challenges. This study not only showcases the potential of bio-inspired design in enhancing ANN capabilities but also provides a novel perspective and methodology for future ANN design.

Detecting and quantifying causality is a focal topic in the fields of science, engineering, and interdisciplinary studies. However, causal studies on non-intervention systems attract much attention but remain extremely challenging. To address this challenge, we propose a framework named Interventional Dynamical Causality (IntDC) for such non-intervention systems, along with its computational criterion, Interventional Embedding Entropy (IEE), to quantify causality. The IEE criterion theoretically and numerically enables the deciphering of IntDC solely from observational (non-interventional) time-series data, without requiring any knowledge of dynamical models or real interventions in the considered system. Demonstrations of performance showed the accuracy and robustness of IEE on benchmark simulated systems as well as real-world systems, including the neural connectomes of C. elegans, COVID-19 transmission networks in Japan, and regulatory networks surrounding key circadian genes.

The static synaptic connectivity of neuronal circuits stands in direct contrast to the dynamics of their function. As in changing community interactions, different neurons can participate actively in various combinations to effect behaviors at different times. We introduce an unsupervised approach to learn the dynamic affinities between neurons in live, behaving animals, and to reveal which communities form among neurons at different times. The inference occurs in two major steps. First, pairwise non-linear affinities between neuronal traces from brain-wide calcium activity are organized by non-negative tensor factorization (NTF). Each factor specifies which groups of neurons are most likely interacting for an inferred interval in time, and for which animals. Finally, a generative model that allows for weighted community detection is applied to the functional motifs produced by NTF to reveal a dynamic functional connectome. Since time codes the different experimental variables (e.g., application of chemical stimuli), this provides an atlas of neural motifs active during separate stages of an experiment (e.g., stimulus application or spontaneous behaviors). Results from our analysis are experimentally validated, confirming that our method is able to robustly predict causal interactions between neurons to generate behavior. Code is available at https://github.com/dyballa/dynamic-connectomes.