2022 Fiscal Year Research-status Report
The Effect of Active Zone Protein Dynamics on Synaptic Vesicle Release Probability
| Project/Area Number |
20K06593
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| Research Institution | Okinawa Institute of Science and Technology Graduate University |
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Principal Investigator |
DeSchutter Erik 沖縄科学技術大学院大学, 計算脳科学ユニット, 教授 (00466319)
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| Co-Investigator(Kenkyū-buntansha) |
HEPBURN Iain 沖縄科学技術大学院大学, 計算脳科学ユニット, 技術員 (20604200)
GALLIMORE Andrew 沖縄科学技術大学院大学, 計算脳科学ユニット, 客員研究員 (50838422)
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| Project Period (FY) |
2020-04-01 – 2024-03-31
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| Keywords | Synapse / Plasticity / Hippocampus / Computational biology / Systems biology |
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| Outline of Annual Research Achievements |
This year we have been focusing on finalising the software for its first public release. This has included adding some new features such as a new visualisation module in Blender, code modernisation and several optimisations. The vesicle development branch was merged into the main developmental master branch, meaning that this now become part of STEPS ready for public release of version 5.0. The software was extensively tested and validated, as has been summarised in a manuscript that has been uploaded to preprint server bioRxiv [1]. We are now finalising submission of this manuscript to a major journal.
On the modelling side, all model simulations are complete, the manuscript [2] is nearing completion and it too will be soon submitted to a preprint server. In the manuscript we present a model of the complete synaptic vesicle cycle in unprecedented molecular and spatial detail and reveal how synaptic transmission is maintained during periods of high frequency and sustained stimulation. We are now preparing to submit these findings to a major journal.
[1] I Hepburn, J Lallouette, W Chen, AR Gallimore, SY Nagasawa, E De Schutter. Hybrid vesicle and reaction-diffusion modeling with STEPS. bioRxiv 2023.05.08.539782; doi: https://doi.org/10.1101/2023.05.08.539782
[2] AR Gallimore, I Hepburn, S. Rizzoli, E. De Schutter. Dynamic regulation of vesicle pools in a detailed spatial model of the complete synaptic vesicle cycle.
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| Current Status of Research Progress |
Current Status of Research Progress
1: Research has progressed more than it was originally planned.
Reason
Due to the timeline for the research grant and staff movements, we planned to submit the major manuscripts for this work and make the first public release of the software this year, and we are well on target towards achieving these goals. This means that this work is nearing completion up to a point.
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| Strategy for Future Research Activity |
This work is nearing completion up to a point, however as always in this kind of work the project there will be more to do in terms of communicating these findings, and in particular supporting new users of the software as the code becomes publicly available. We will now go through the review process of the making any revisions necessary, and hope to publish both manuscripts in major journals.
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| Causes of Carryover |
We expect due to the scale of this project that this may take several weeks or months. In tandem, we plan to start communicating our work with wider audiences. This may include travel for presentation at conferences and workshops, tutorials and so on.
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