Biology subjects

Nasiri, S.

Publications and source records attributed to Nasiri, S..

5 recordsLinked to original sources

bioRxiv2025

Enterocloster citroniae and related gut microbiome species modulate Vibrio cholerae biofilm formation through the production of bioactive small molecules

Cholera is a diarrheal disease that affects millions of people globally. Although the causative agent, Vibrio cholerae, has been extensively studied in isolation, investigation of its interactions with the gut microbiota started relatively recently. We and others previously showed that microbiota-derived metabolites significantly influence V. cholerae behavior. By investigating how an organic extract of human feces affects V. cholerae gene expression, we showed that gut metabolites strongly suppress swimming motility, a trait important for host colonization. Interestingly, extracts of pure cultures of a gut commensal, Enterocloster citroniae, recapitulated this inhibition. Here, we present a comprehensive examination of the effect of small molecules produced by E. citroniae and related species on V. cholerae behavior. We show that E. citroniae small molecules inhibit motility by various V. cholerae strains, and that several phylogenetically related species produce this activity, although the magnitude of the effect varies between strains. Using biofilm formation assays in static and flow conditions, we show that V. cholerae strongly induces biofilm formation in response to E. citroniae metabolites. Transcriptome and reporter analyses showed that several genes involved in synthesis of an extracellular polysaccharide are induced by E. citroniae metabolites. Lastly, we show that V. cholerae interactions with host cells are also modulated by this commensal. These findings advance our understanding of microbiome-pathogen interactions and how commensal bacteria influence V. cholerae virulence through the production of small molecules. In the future, this knowledge may be used to design novel microbiome-based therapeutic approaches to combat cholera and other infections. ImportanceThe human gut is home to a dense and rich community of microbes termed microbiota. This community has critical functions for host health, including protection against enteric pathogens. Despite this important role, we have only recently scratched the surface of the interactions that occur between members of the microbiota and pathogenic invaders. Cholerae is a disease that still causes significant morbidity and mortality worldwide. Studying how the causative agent, Vibrio cholerae, interacts with the microbiota will have implications not only for our understanding of this important microbial community, but may also lead to the development of new therapeutic strategies against cholera and potentially other infectious diseases.

microbiology↗

bioRxiv2025

Spinal dI3 neurons are involved in sustained motor adaptation elicited by low-threshold cutaneous afferents

Adaptation of muscle activity to meet a certain target or intention is traditionally attributed to supraspinal structures. However, evidence is mounting that this process can occur within the spinal cord through intrinsic plasticity and circuit reorganization. Here, we investigate the role of a class of excitatory spinal interneurons, called dorsal interneuron 3 (dI3), in the acquisition of novel motor behaviors independent of supraspinal input. Using a real-time closed-loop stimulation paradigm in spinalized mice, we promoted a persistent adaptation in the hindlimb position to be higher than its resting level by delivering saphenous nerve stimulation contingent on toe elevation. The stimulation intensities were calibrated to selectively recruit low-threshold mechanoreceptors (LTMRs). To test the contribution of dI3s in this motor adaptation, inhibitory DREADD (hM4Di) receptors were expressed in Isl1/Vglut2 cells, achieving reversible, cell-type-specific silencing of dI3s. Our results demonstrate that stimulation of cutaneous inputs to the spinal cord contingent on a certain positional goal can generate sustained changes in motor activity, in this case, in the form of elevation of toe position above a preset vertical threshold. Chemogenetic silencing of dI3s abolished this motor adaptation induced by activation of LTMRs. These findings indicate that dI3 activity is essential for a particular type of motor adaptation driven primarily by LTMR input. NEW & NOTEWORTHYWe developed a real-time, closed-loop stimulation paradigm in spinalized mice using kinematic video tracking to trigger electrical stimulation of the saphenous nerve. We discovered that low-threshold stimulations targeting non-nociceptive cutaneous afferents can elicit sustained motor adaptations independently from supraspinal input. Furthermore, using two chemogenetic techniques to transiently inhibit a population of spinal neurons, called dI3s, we found that these neurons are crucial for integrating these low-threshold stimuli to elicit sustained changes in motor behaviour.

neuroscience↗

bioRxiv2025

Altered excitability of dI3 neurons regulates hindlimb motor tone and locomotor recovery after spinal cord injury

Recovery of motor function after spinal cord injury is limited in mammals. Reactivation of locomotor circuits does occur, but primarily through the activation of sensorimotor pathways in the context of locomotor training. Previous investigations have shown that dI3 neurons, a developmentally-defined population of pre-motor, glutamatergic interneurons, are indispensable for this process. However, it remains unclear how dI3 neurons are recruited during locomotor recovery, and whether they could be leveraged to improve locomotor function following spinal cord injury. Herein, we investigated how the excitability of dI3 neurons influences locomotor behaviour and recovery after spinal cord injury. In T9-T10 transected mice, we found that acute chemogenetic silencing of dI3 neurons leads to immediate loss of hindlimb motor tone, and significant reduction in stepping during treadmill locomotion. Conversely, regular chemogenetic stimulation of dI3 neurons led to transient increases in hindlimb motor tone early after injury, but ultimately reduced hindlimb motor tone and locomotor recovery over the long term. These chronic changes resulting from dI3 neuron stimulation were associated with the absence of expression of the constitutive 5-HT2C-R isoform, potentially representing a homeostatic mechanism for the regulation of dI3 excitability following spinal cord injury. Given these findings, we hypothesized that dI3 stimulations effects on motor tone, while insufficient to drive locomotor function alone, may promote stepping improvements when locomotor rhythm-generating circuits are active. The addition of quipazine, a serotonergic agonist known to facilitate locomotor rhythmogenesis, in combination with dI3 stimulation, significantly improved locomotor function, while also mitigating the long-term reduction in treadmill stepping associated with dI3 stimulation alone. In aggregate, our results suggest that hyper-excitable dI3 neurons are involved in the maintenance of motor tone after spinal cord injury, possibly through a 5-HT2C-R-dependent mechanism, and further show that the selective stimulation of dI3 neurons could enhance the recovery of locomotor function following spinal cord injury.

neuroscience↗

bioRxiv2024

Mapping of dI3 neuron sensorimotor circuits across the cervical and lumbar spinal cord

From the fine control of hand movements to the dynamic corrective adjustments during locomotion, spinal circuits integrate descending supraspinal and sensory inputs to modulate diverse motor functions. The integration of such a wide range of signals across the spinal cord is primarily mediated by propriospinal interneurons. In this study, we investigate the connectivity of a population of propriospinal interneurons marked by the expression of Isl1, called dI3 neurons. These dI3s integrate supraspinal and sensory signals to facilitate many important functions, such as hand grasp, locomotion, and motor recovery after spinal cord injury; however, we have a limited understanding of how subpopulations of dI3s modulate network activity across the spinal cord to contribute to these behaviors. Their functional connectivity to motor circuits across the cervical and lumbar spinal cord was assessed through optogenetic activation of dI3s localized in different spinal segments. Our data demonstrates that cervical and lumbar dI3 subpopulations can form local, commissural, intersegmental, and long propriospinal pathways. Furthermore, dI3 subpopulations can be tonically stimulated to elicit locomotor activity. These extensive projection patterns of dI3s across the cervical and lumbar spinal cord suggest that dI3 subpopulations can modulate the activity of multiple motor networks within their respective spinal cord segments or across distant forelimb and hindlimb segments to facilitate a wide variety of motor functions.

neuroscience↗

bioRxiv2021

Neural circuits for dynamics-based segmentation of time series

The brain must extract behaviorally relevant latent variables from the signals streamed by the sensory organs. Such latent variables are often encoded in the dynamics that generated the signal rather than in the specific realization of the waveform. Therefore, one problem faced by the brain is to segment time series based on underlying dynamics. We present two algorithms for performing this segmentation task that are biologically plausible, which we define as acting in a streaming setting and all learning rules being local. One algorithm is model-based and can be derived from an optimization problem involving a mixture of autoregressive processes. This algorithm relies on feedback in the form of a prediction error, and can also be used for forecasting future samples. In some brain regions, such as the retina, the feedback connections necessary to use the prediction error for learning are absent. For this case, we propose a second, model-free algorithm that uses a running estimate of the autocorrelation structure of the signal to perform the segmentation. We show that both algorithms do well when tasked with segmenting signals drawn from autoregressive models with piecewise-constant parameters. In particular, the segmentation accuracy is similar to that obtained from oracle-like methods in which the ground-truth parameters of the autoregressive models are known. We also test our methods on datasets generated by alternating snippets of voice recordings. We provide implementations of our algorithms at https://github.com/ttesileanu/bio-time-series.

neuroscience↗