# An ArfGAP-dependent signaling modulates synaptic plasticity via IP3-regulated calcium release from the endoplasmic reticulum

**Authors:** Bhagaban Mallik, Shikha Kushwaha, Anjali Bisht, Harsha MJ, C Andrew Frank, Vimlesh Kumar, Fengwei Yu, Guang-Chao Chen, Fengwei Yu, Guang-Chao Chen, Fengwei Yu, Guang-Chao Chen, Fengwei Yu, Guang-Chao Chen

PMC · DOI: 10.1371/journal.pgen.1012031 · PLOS Genetics · 2026-01-23

## TL;DR

This study identifies a new signaling pathway involving Asap, Arf6, and PLCβ that regulates calcium release and synaptic function in neurons.

## Contribution

The paper reveals a novel Asap-Arf6-PLCβ-IP3 signaling pathway that controls synaptic calcium dynamics and plasticity.

## Key findings

- Loss of Asap increases resting synaptic calcium and alters neurotransmission.
- Arf6 suppression or IP3 inhibition rescues synaptic defects in Asap mutants.
- The Asap-Arf6-PLCβ-IP3 pathway is essential for synaptic structure and calcium balance.

## Abstract

Calcium release from intracellular stores influences synaptic response timing and magnitude. Despite the critical role of inositol trisphosphate (IP3)- and ryanodine receptor (RyR)-dependent calcium release in regulating synaptic strength, the upstream signaling mechanisms that govern IP3 receptor or RyR activity remain elusive. Here, we provide evidence that the ArfGAP-containing protein Asap modulates NMJ morphogenesis and synaptic calcium homeostasis by activating IP3-mediated calcium release from the endoplasmic reticulum (ER) via the phospholipase C-beta (PLCβ) signaling pathway. Using CRISPR/Cas9-engineered Asap mutants and genetically encoded calcium sensors, we demonstrate that loss of Asap leads to elevated resting synaptic calcium, resulting in increased evoked amplitude, elevated spontaneous miniature frequency, and reduced synaptic failures under low extracellular calcium conditions. Additional pharmacological and genetic manipulations of calcium regulatory pathways further support the role of increased resting intracellular calcium in driving enhanced neurotransmission in Asap-deficient synapses. Consistent with the role of Asap’s ArfGAP domain in NMJ morphogenesis and intracellular calcium regulation, expressing a GDP-locked form of Arf6 (Arf6DN) or knocking down Arf6 in Asap mutants not only rescues Asap-associated synaptic defects but also normalizes synaptic calcium levels. Furthermore, epistatic analysis revealed that attenuation of IP3-signaling components in animals constitutively expressing Arf6CA normalized the NMJ morphological defects and synaptic functions. Together, these findings provide novel insights into the role of Asap-Arf6-PLCβ signaling in IP3-regulated calcium dynamics, sustaining both structural and functional synaptic plasticity.

Calcium signaling plays a central role in how neurons communicate and adapt, yet the upstream mechanisms that control calcium release from internal stores remain poorly understood. In this study, we identify a previously unrecognized signaling pathway that regulates active zone organization and calcium dynamics at the Drosophila neuromuscular junctions. We show that the ArfGAP-domain containing protein Asap acts through the small GTPase Arf6 and phospholipase C-beta (PLCβ) to stimulate inositol trisphosphate (IP3)-dependent calcium release from the endoplasmic reticulum. Loss of Asap disrupts calcium homeostasis, leading to elevated basal calcium levels, increased neurotransmitter release, and structural changes at synaptic terminals. Suppressing Arf6 activity or blocking IP3 signaling restores normal synaptic structure and function, highlighting a critical role for the Asap-Arf6-PLCβ-IP3 pathway in maintaining basal synaptic calcium balance, active zone integrity and synaptic stability. These findings reveal a new molecular link between small GTPases and calcium signaling mechanisms that fine-tune synaptic communication.

## Linked entities

- **Genes:** MAP9 (microtubule associated protein 9) [NCBI Gene 79884], ARF6 (ARF GTPase 6) [NCBI Gene 382], plcB (phospholipase C) [NCBI Gene 880904], ip3 (LAGLIDADG type homing endonuclease) [NCBI Gene 24019742]
- **Proteins:** ARFGAP (ADP-ribosylation factor GTPase-activating protein, putative)
- **Species:** Drosophila (taxon 7215)

## Full-text entities

- **Genes:** ASAP1 (ArfGAP with SH3 domain, ankyrin repeat and PH domain 1) [NCBI Gene 50807] {aka AMAP1, CENTB4, DDEF1, PAG2, PAP, ZG14P}, Csp (Cysteine string protein) [NCBI Gene 40459] {aka CG6395, CSP32, Cys, D-CSP, D.M.CSP, DCSP-1}, Letm1 (Leucine zipper and EF-hand containing transmembrane protein 1) [NCBI Gene 37912] {aka B4D, CG4589, DmLETM1, Dmel\CG4589, anon-60Da, anon60Da}, GluRIIC (Glutamate receptor IIC) [NCBI Gene 33275] {aka CG4226, CT13021, DGluR-IIC, DGluRIIC, DGluRIII, DmelGluRIIC}, CanA1 (Calcineurin A1) [NCBI Gene 43670] {aka CAN A1/PP2B, CG1455, CNA1, CaN, Can, CnA}, sgg (shaggy) [NCBI Gene 31248] {aka CG2621, DMSGG3, DMZ3K25Z, Dm Zw3, Dmel\CG2621, Dmsgg3}, norpA (no receptor potential A) [NCBI Gene 31376] {aka CG3620, CdkA, DIP2, Dmel\CG3620, MRE18, PI-PLC}, ph-p (polyhomeotic proximal) [NCBI Gene 31181] {aka CG18412, CG18414, Dmel\CG18412, EG:87B1.5, PH, PHP}, GluRIIA (Glutamate receptor IIA) [NCBI Gene 33788] {aka CG6992, D-GluRIIA, DGluR-II, DGluR-IIA, DGluR2a, DGluRIIA}, B52 (B52) [NCBI Gene 41670] {aka B52/SRp55, B52/dSRp55, CG10851, Dmel\CG10851, E(Dfd), E726}, futsch (futsch) [NCBI Gene 5740544] {aka 22C10, 22C10/FUTSCH, 22C20, 22c10, CG14772, CG3064}, RYR2 (ryanodine receptor 2) [NCBI Gene 6262] {aka ARVC2, ARVD2, RYR-2, RyR, VACRDS, VTSIP}, CG15876 (uncharacterized protein) [NCBI Gene 38573] {aka Dmel\CG15876, HL3}, ARF6 (ARF GTPase 6) [NCBI Gene 382], ARF1 (ARF GTPase 1) [NCBI Gene 375] {aka PVNH8}, Cam (Calmodulin) [NCBI Gene 36329] {aka 3909, CG8472, Cal, Cal49A, CalA, Cam1}, MSN (moesin) [NCBI Gene 4478] {aka HEL70, IMD50}, RAN (RAN, member RAS oncogene family) [NCBI Gene 5901] {aka ARA24, Gsp1, TC4}, Galphaq (G protein alpha subunit q) [NCBI Gene 36384] {aka CG17759, DGalpha[[q]], DGalphaq, DGq, DGqalpha, Dgq}, brp (bruchpilot) [NCBI Gene 35977] {aka Bruchpilot, CG12932, CG12933, CG1931, CG30336, CG30337}, TUBA1B (tubulin alpha 1b) [NCBI Gene 10376] {aka K-ALPHA-1}, dlg1 (discs large 1) [NCBI Gene 32083] {aka 11, CG1725, CG1730, CPD, DLG, DLG-A}, Act5C (Actin 5C) [NCBI Gene 31521] {aka A, A4V404_DROME, ACT, ACT1_DROME, Ac5C, Act}, MAP9 (microtubule associated protein 9) [NCBI Gene 79884] {aka ASAP}, ITPR3 (inositol 1,4,5-trisphosphate receptor type 3) [NCBI Gene 3710] {aka CMT1J, IMD132, IMD133, IP3R, IP3R-3, IP3R3}, Plc21C (Phospholipase C at 21C) [NCBI Gene 33204] {aka CG4574, Dmel\CG4574, PLC, PLC-21, PLC-21C, PLC[[Beta]]}, CaMKII (Calcium/calmodulin-dependent protein kinase II) [NCBI Gene 43828] {aka CAMKIIalpha, CAMKIId, CDPK1, CG18069, Ca2+/calmodulin-dependent protein kinase II, CaM}, Itpr (Inositol 1,4,5,-trisphosphate receptor) [NCBI Gene 40664] {aka CG1063, DIP, DmInsP[[3R]], DmInsP[[3]]R, Dmel\CG1063, IP}, Asap (ArfGAP with SH3 domain, ankyrin repeat and PH domain) [NCBI Gene 35783] {aka ASAP1, Asap1, CG14758, CG2226, CG30372, Dmel\CG30372}, l(1)1Fg (lethal (1) 1Fg) [NCBI Gene 44356] {aka 4-134, D42}, Arf6 (ADP ribosylation factor 6) [NCBI Gene 36699] {aka AFR51F, ARF3, ARFIII, Arf3, Arf51F, Arf51f}, RpL32 (Ribosomal protein L32) [NCBI Gene 43573] {aka 143250_at, BcDNA:RH03940, CG7939, Dmel\CG7939, L32, L32e}, cac (cacophony) [NCBI Gene 32158] {aka 13, CG1522, CG15928, CG43368, Ca-alpha1A, Ca[[V]]2.1}, gp (gap) [NCBI Gene 251209], Rab3 (Rab3) [NCBI Gene 36127] {aka AAF58762, CG7576, DRAB3, DRab3, DmRab3, Dmel\CG7576}, ARF6A (auxin response factor 6a) [NCBI Gene 100316890] {aka Sl-ARF6A}, Arf1 (ADP ribosylation factor 1) [NCBI Gene 40506] {aka ARF-1, ARF1_DROME, Arf, Arf79, Arf79F, Arf79f}, DAAM (Dishevelled Associated Activator of Morphogenesis) [NCBI Gene 31075] {aka CG14622, DAAM1, Daam1, Dmel\CG14622, EG:114D9.2, anon-EST:Posey148}, RyR (Ryanodine receptor) [NCBI Gene 49090] {aka CG10844, D-RyR, DRR, DRY, DmRyR, Dmel\CG10844}, Mef2 (Myocyte enhancer factor 2) [NCBI Gene 36032] {aka 22.21, BEST:SD04091, C, CG1429, D-MEF2, D-Mef2}, Moe (Moesin) [NCBI Gene 31816] {aka CG10701, D17, DMoe, Dmel\CG10701, Dmoe, EMR1}, RHOA (ras homolog family member A) [NCBI Gene 387] {aka ARH12, ARHA, EDFAOB, RHO12, RHOH12}, MAP1B (microtubule associated protein 1B) [NCBI Gene 4131] {aka DFNA83, FUTSCH, MAP5, PPP1R102, PVNH9}
- **Diseases:** NMJ (MESH:D020511), PHP deficient (MESH:D020294)
- **Chemicals:** BAPTA (MESH:C025603), HCl (MESH:D006851), BAPTA-AM (MESH:C070379), HEPES (MESH:D006531), IP3 (MESH:D015544), BCA (MESH:C047117), glycine (MESH:D005998), PVDF (MESH:C024865), PIP2 (MESH:D019269), trehalose (MESH:D014199), water (MESH:D014867), KCl (MESH:D011189), His (MESH:D006639), sucrose (MESH:D013395), NaCl (MESH:D012965), Rhodamine (MESH:D012235), Alexa Fluor 488 (MESH:C000711379), TRIzol (MESH:C411644), GDP (MESH:D006153), Tween-20 (MESH:D011136), Calcium (MESH:D002118), phospholipid (MESH:D010743), GTP (MESH:D006160), -25-00364R2 (-), PBS (MESH:D007854), Dantrolene (MESH:D003620), PhTx (MESH:C034092), MgCl2 (MESH:D015636), SDS (MESH:D012967), CaCl2 (MESH:D002122), DMSO (MESH:D004121), EDTA (MESH:D004492), NaHCO3 (MESH:D017693), Ryanodine (MESH:D012433)
- **Species:** Mus musculus (house mouse, species) [taxon 10090], Oryctolagus cuniculus (domestic rabbit, species) [taxon 9986], Homo sapiens (human, species) [taxon 9606], Drosophila melanogaster (fruit fly, species) [taxon 7227]
- **Mutations:** T27N, leucine/isoleucine, Q71L, Q67L, T31N
- **Cell lines:** BL21 codon+ — Homo sapiens (Human), EBV-related Burkitt lymphoma, Cancer cell line (CVCL_M639), -28a — Oryctolagus cuniculus (Rabbit), Transformed cell line (CVCL_6E94)

## Full text

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## Figures

10 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12863683/full.md

## References

82 references — full list in the complete paper: https://tomesphere.com/paper/PMC12863683/full.md

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Source: https://tomesphere.com/paper/PMC12863683