Publications

Journal papers

Balancing central control and sensory feedback produces adaptable and robust locomotor patterns in a spiking, neuromechanical model of the salamander spinal cord

Pazzaglia, A., Bicanski, A., Ferrario, A., Arreguit, J., Ryczko, D., Ijspeert, A., Serre, T.

PLOS Computational Biology, 21(1), 2025. DOI: 10.1371/journal.pcbi.1012101

Multisensory feedback makes swimming circuits robust against spinal transection and enables terrestrial crawling in elongate fish

Yasui, K., Gupta, A., Fu, Q., Suzuki, S., Hainer, J., Paez, L., Lutek, K., Arreguit, J., Kano, T., Standen, E. M., Ijspeert, A. J., Ishiguro, A.

Proceedings of the National Academy of Sciences, 122(34), 2025. DOI: 10.1073/pnas.2422248122

Investigating the effect of morphology on the terrestrial gaits of amphibious fish using a reconfigurable robot

Gevers, L., Gupta, A., Paez, L., Fu, Q., Standen, E., Ijspeert, A.

Bioinspiration & Biomimetics, 20(4), 2025. DOI: 10.1088/1748-3190/addc27

Using deep reinforcement learning to investigate stretch feedback during swimming of the lamprey

Hausdörfer, O., Gupta, A., Ijspeert, A. J., Renjewski, D.

Bioinspiration & Biomimetics, 20(2), 2025. DOI: 10.1088/1748-3190/adb8b1

Chromosome-scale genome assembly reveals how repeat elements shape non-coding RNA landscapes active during newt limb regeneration

Brown, T., Mishra, K., Elewa, A., Iarovenko, S., Subramanian, E., Araus, A. J., Petzold, A., Fromm, B., Friedländer, M. R., Rikk, L., Suzuki, M., Suzuki, K.-i. T., Hayashi, T., Toyoda, A., Oliveira, C. R., Osipova, E., Leigh, N. D., Yun, M. H., Simon, A.

Cell Genomics, 5(2), 2025. DOI: 10.1016/j.xgen.2025.100761

The Mesencephalic Locomotor Region: Multiple Cell Types, Multiple Behavioral Roles, and Multiple Implications for Disease

Ryczko, D.

The Neuroscientist, 30(3), 2024. DOI: 10.1177/10738584221139136

Locomotor pattern generation and descending control: a historical perspective

Dubuc, R., Cabelguen, J.-M., Ryczko, D.

Journal of Neurophysiology, 130(2), 2023. DOI: 10.1152/jn.00204.2023

Integration of feedforward and feedback control in the neuromechanics of vertebrate locomotion: a review of experimental, simulation and robotic studies

Ijspeert, A. J., Daley, M. A.

Journal of Experimental Biology, 226(15), 2023. DOI: 10.1242/jeb.245784

From retina to motoneurons: A substrate for visuomotor transformation in salamanders

Flaive, A., Ryczko, D.

Journal of Comparative Neurology, 530(14), 2022. DOI: 10.1002/cne.25348

Cell-type profiling in salamanders identifies innovations in vertebrate forebrain evolution

Woych, J., Ortega Gurrola, A., Deryckere, A., Jaeger, E. C. B., Gumnit, E., Merello, G., Gu, J., Joven Araus, A., Leigh, N. D., Yun, M., Simon, A., Tosches, M. A.

Science, 377(6610), 2022. DOI: 10.1126/science.abp9186

Preprints

FARMS: Framework for Animal and Robot Modeling and Simulation

Arreguit, J., Tata Ramalingasetty, S., Ijspeert, A.

Preprint, 2023. DOI: 10.1101/2023.09.25.559130

Conference papers

A spiking neuromechanical model of the zebrafish to investigate the role of axial proprioceptive sensory feedback during locomotion

Alessandro Pazzaglia, Andrea Ferrario, Jonathan Arreguit, Laurence Picton, David Madrid, Abdel El Manira, Auke Ijspeert

Cosyne, Montreal, Canada, 2025.

A novel fluid-body simulator to study the neuromechanical principles of fish schooling

Andrea Ferrario, Alessandro Pazzaglia, Jonathan Arreguit, Alexandros Anastasiadis, Auke Ijspeert

Cosyne, Montreal, Canada, 2025.

FARMS: Framework for Animal and Robot Modeling and Simulation

Jonathan Arreguit, Shravan Tata Ramalingasetty, and Auke Ijspeert

Cosyne, Montreal, Canada, 2025.

A data-driven biomechanical modeling and optimization pipeline for studying salamander locomotion

Ning, C., Fu, Q., Herrel, A., Joven Araus, A., Arreguit, J., Simon, A., Ijspeert, A.J.

Cosyne, Montreal, Canada, 2025.

Deciphering the cellular substrate of locomotor behaviors in the newt during spinal cord regeneration

Alberto Joven Araus, Zuzana Tonelli-Gombalova, Zeyu Yao, Monica Pichler, Elaiyaraja Subramanian, Matthew Kirkham, Sarah Kralova, Sarantis Giatrellis, Peter Damberg, Anastasia MAgoulopoulou, Jordan Swiegers, Ines Khsime, Enric Llorens, Dimitri Ryczko, Auke Jan Ijspeert, Andras Simon

, Rome, Italy, 2024.

Effects of dorsal root lesion in hindlimb segments on the locomotor pattern of salamanders

Blanché L, Khsime I, Swiegers J, van der Zouwen CI, Ryczko D

Organization and regeneration of locomotor networks, Stockholm, Sweden, 2023.

The role of neural coupling and sensory feedback in interlimb coordination: a data-driven modelling study in the salamander

Ferrario A, Arreguit J, Pazzaglia A, Simon A, Ryczko D, Ijspeert AJ

Motor Control meeting, St Andrews, UK, 2023.

Unveiling salamander’s secrets: Structural, behavioral and cellular aspects of spinal cord regeneration

Joven Araus, A., Tonelli-Gombalova, Z., Yao, Z., Llorens, E., Giatrellis, S., Damberg, P., Swiegers, J., Khsime, I., Ryczko, D., Ijspeert, A.J., Simon, A.

Society for Neuroscience, Washington, DC, USA, 2023.

Unveiling salamanders’ spinal cord regeneration at the functional, structural, cellular and molecular levels

Joven Araus, A., Tonelli-Gombalova, Z., Yao, Z., Llorens, E., Giatrellis, S., Damberg, P., Swiegers, J., Khsime, I., Ryczko, D., Ijspeert, A.J., Simon, A.

Inaugural Meeting of the International Society for Regenerative Biology, Vienna, Austria, 2023.

Unveiling salamander’s secrets: Structural, behavioral and cellular aspects of spinal cord regeneration

Joven Araus, A., Tonelli-Gombalova, Z., Yao, Z., Llorens, E., Giatrellis, S., Damberg P, Swiegers, J., Khsime, I., Ryczko, D., Ijspeert, A.J., Simon, A

StratNeuro's annual retreat, Djurönäset, Sweden, 2023.

Unveiling salamanders’ spinal cord regeneration at the functional, structural, cellular and molecular levels

Joven Araus, A., Tonelli-Gombalova, Z., Yao, Z., Llorens, E., Giatrellis, S., Pichler, M., Kralova, S., Damberg, P., Liang, N., Ryczko, D., Ijspeert, A.J., Simon, A

Organization and regeneration of locomotor networks, Stockholm, Sweden, 2023.

Restoration of locomotor movements after a full spinal cord transection in salamanders

Khsime I, van der Zouwen CI, Joven A, Simon A, Ijspeert AJ, Ryczko D

Organization and regeneration of locomotor networks, Stockholm, Sweden, 2023.

Targeting salamander neurons in the brain and spinal cord by using Adeno-Associated viruses (AAV) coupled with stereotaxic injections

Medina Ortiz K, Kirkham M, Joven Araus A, Tonelli Gombalova Z, Portilla S, Simon A, Ryczko D

Organization and regeneration of locomotor networks, Stockholm, Sweden, 2023.

Coupling spiking neural networks and mechanical simulations to investigate walking and swimming in salamanders

Pazzaglia A, Bicanski A, Arreguit J, Ferrario A, Ryczko D, Ijspeert AJ

International Symposium on Adaptive Motion of Animals and Machines, Kobe, Japan, 2023.

Regeneration of reticulospinal neurons is associated with recovery of spontaneous locomotion in salamanders.

Swiegers J, Khsime I, van der Zouwen CI, Blanché L, Joven A, Ijspeert AJ, Simon A, Ryczko D.

Society of Neuroscientists of Africa, Johannesburg, South Africa, 2023.

Reticulospinal fibers innervate the sublesional spinal cord in salamanders having recovered their locomotor abilities after a complete spinal cord transection

Swiegers J, Khsime I, van der Zouwen CI, Blanché L, Joven A, Ijspeert AJ, Simon A, Ryczko D

Society for Neuroscience, Washington, DC, USA, 2023.

Reticulospinal innervation of the sublesional spinal cord is associated with the recovery of spontaneous locomotion in salamanders

Swiegers J, Khsime I, van der Zouwen CI, Blanché L, Joven A, Ijspeert AJ, Simon A, Ryczko D

Organization and regeneration of locomotor networks, Stockholm, Sweden, 2023.

A comprehensive view of spinal cord regeneration in Pleurodeles waltl – combined longitudinal analysis of behavior, tissue morphology and gene expression

Tonelli-Gombalova, Z., Joven Araus, A., Yao, Z., Llorens, E., Damberg, P., Khsime, I., Blanche, L., Ryczko, D., Simon, A.

Organization and regeneration of locomotor networks, Stockholm, Sweden, 2023.

First steps studying locomotor circuits in the salamander spinal cord: new tools, cellular landscape and regenerative response

StratNeuro's annual retreat, Runö, Åkersberga, Sweden, 2022.

A biologically-realistic neuromechanical model of the salamander, a vertebrate animal model that walks, trots and swims in changing environments

Ferrario A, Arreguit J, Pazzaglia A, Simon A, Ryczko D, Ijspeert AJ

Society for Neuroscience Conference and Salk Motor Systems Symposium, San Diego, USA, 2022.

First steps studying locomotor circuits in the salamander spinal cord: new tools, cellular landscape and regenerative response

Joven Araus, A., Hub, T., Subramanian, E., Yao, Z., Tonelli Gombalova, Z., Kirkham, M., Simon, A

Society for Neuroscience Conference and Salk Motor Systems Symposium, San Diego, USA, 2022.

Functional regeneration and recovery of locomotion after spinal cord injury in adult Pleurodeles waltl

Joven Araus, A., Hub, T., Subramanian, E., Yao, Z., Tonelli Gombalova, Z., Kirkham, M., Simon, A

StratNeuro's annual retreat, Runö, Åkersberga, Sweden, 2022.

Spinal cord regeneration assessed by MRI in live salamanders correlates with the recovery of locomotor functions

Joven Araus, A., Tonelli-Gombalova, Z., Damberg, P., Swiegers, J., Khsime, I., Ryczko, D., Ijspeert AJ, Simon, A

StratNeuro's annual retreat, Runö, Åkersberga, Sweden, 2022.

Spinal cord regeneration assessed by MRI in live salamanders correlates with the recovery of locomotor functions

Joven A, Tonelli-Gombalova Z, Damberg P, Swiegers J, Khsime I, Ryczko D, Ijspeert AJ, Simon A

StratRegen Conference 2022, Yasuragi, Boo, Sweden, 2022.

Deep learning-based movement analyses during walking and swimming in salamanders

Khsime I, van der Zouwen CI, Joven A, Simon A, Ijspeert AJ, Ryczko D

StratNeuro's annual retreat, Runö, Åkersberga, Sweden, 2022.

Recovery of walking and swimming after spinal cord transection in salamanders: movement analysis with deep learning

Khsime I, van der Zouwen CI, Joven A, Simon A, Ijspeert AJ, Ryczko D

Society for Neuroscience Conference and Salk Motor Systems Symposium, San Diego, USA, 2022.

Récupération de l’activité locomotrice après transsection complète de la moelle épinière chez la salamandre : analyses basées sur l’apprentissage profond

Khsime I, van der Zouwen CI, Joven A, Simon A, Ijspeert AJ, Ryczko D

Journée Phare 2022 - Congrès québécois en sciences de la santé, Val-des-Sources, QC, Canada, 2022.

Récupération des mouvements de marche et de nage après lésion complète de la moelle épinière chez la salamandre: analyses basées sur l’apprentissage profond

Khsime I, van der Zouwen CI, Joven A, Simon A, Ijspeert AJ, Ryczko D

63ème réunion annuelle du Club de Recherches Cliniques du Québec, Lac-Delage, QC, Canada, 2022.

Multi-modal locomotion performance in a continuous closed-loop electromechanical model of the salamander spinal cord based on spiking neural networks

Pazzaglia A, Bicanski A, Arreguit J, Ferrario A, Simon A, Ryczko D, Ijspeert AJ

Society for Neuroscience Conference and Salk Motor Systems Symposium, San Diego, USA, 2022.

Descending excitatory reticulospinal drive to spinal neurons in salamanders

Swiegers J, Joven A, Ijspeert AJ, Simon A, Ryczko D

Federation of European Neurosciences (FENS), Paris, France, 2022.

Chx10-positive reticulospinal neurons in the brainstem of hSyn:GFP salamanders

Swiegers J, Joven A, Tosches MA, Ijspeert AJ, Simon A, Ryczko D

Society for Neuroscience Conference and Salk Motor Systems Symposium, San Diego, USA, 2022.

The distribution of certain cellular identities of reticulospinal neurons in salamanders

Swiegers J, Joven A, Tosches MA, Ijspeert AJ, Simon A, Ryczko D

Université de Sherbrooke 2nd Postdoc Day, Sherbrooke, QC, Canada, 2022.

Identifying Chx10-positive excitatory reticulospinal neurons in the brainstem of salamanders

Swiegers J, Joven A, Tosches MA, Ijspeert AJ, Simon A, Ryczko D

11e Journée Scientifique de "Neurosciences Sherbrooke", Magog, QC, Canada, 2022.

Neurones réticulospinaux Chx10-positifs dans le tronc cérébral des salamandres hSyn:GFP

Swiegers J, Joven A, Tosches MA, Ijspeert AJ, Simon A, Ryczko D

63ème réunion annuelle du Club de Recherches Cliniques du Québec, Lac-Delage, QC, Canada, 2022.

First steps studying locomotor circuits in the salamander spinal cord: new tools, cellular landscape and regenerative response

Tonelli Gombalova, Z., Joven Araus, A., Stefanelli, B.S., Llorens, E., Simon, A

StratNeuro's annual retreat, Runö, Åkersberga, Sweden, 2022.