Abstract
Membrane fusion and budding mediate fundamental processes like intracellular trafficking, exocytosis, and endocytosis. Fusion is thought to open a nanometer-range pore that may subsequently close or dilate irreversibly, whereas budding transforms flat membranes into vesicles. Reviewing recent breakthroughs in real-time visualization of membrane transformations well exceeding this classical view, we synthesize a new model and describe its underlying mechanistic principles and functions. Fusion involves hemi-to-full fusion, pore expansion, constriction and/or closure while fusing vesicles may shrink, enlarge, or receive another vesicle fusion; endocytosis follows exocytosis primarily by closing Ω-shaped profiles pre-formed through the flat-to-Λ-to-Ω-shape transition or formed via fusion. Calcium/SNARE-dependent fusion machinery, cytoskeleton-dependent membrane tension, osmotic pressure, calcium/dynamin-dependent fission machinery, and actin/dynamin-dependent force machinery work together to generate fusion and budding modes differing in pore status, vesicle size, speed and quantity, controls release probability, synchronization and content release rates/amounts, and underlies exo-endocytosis coupling to maintain membrane homeostasis. These transformations, underlying mechanisms, and functions may be conserved for fusion and budding in general.
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Introduction
Membrane fusion and budding mediate fundamental biological processes, such as neurotransmitter and hormone release crucial for brain functions, intracellular trafficking, formation of membrane-bound organelles (e.g., vesicles, exosomes, and mitochondria), fertilization, vesicle recycling, nutrient uptake, cell fusion and division, and viral infection1,2,3. Current understanding of their membrane transformations is mainly derived from exo- and endocytosis studies in neurons and endocrine cells. Half a century of studies (Fig. 1a–c) established the classical exo-endocytosis framework (Fig. 1d)—vesicle fusion at the plasma membrane (PM) opens a narrow (<~5 nm) pore, which may close rapidly to limit vesicular content release, called kiss-and-run, or dilate until the vesicle flattens to promote release, called full-collapse fusion; subsequent flat-to-round endocytic membrane transformation retrieves fused vesicles2,4,5,6,7,8,9. Studies of exo-endocytosis and fusion budding in general have been interpreted under this view, which has not been verified by real-time observation in live cells2,7,10,11.
Recent super-resolution microscopy visualized exo-endocytosis membrane dynamics in live neuroendocrine cells. Novel membrane transformations, underlying mechanisms, and functions far exceeding the classical view have emerged. Here, we review visualization methods, real-time-observed membrane transformations, underlying molecular mechanics, and functions in governing exo-endocytosis (Figs. 2–5). We synthesize a new fusion-budding membrane dynamics framework (Fig. 6), replacing the classical framework as the new platform for building a future comprehensive molecular model and reinterpreting previous studies working under the classical view.
Classical exo-endocytosis framework
Electron microscopic (EM) observation of pore-like structures at nerve terminals milliseconds after stimulation led to the full-collapse fusion hypothesis (Fig. 1aI)6. Full-collapse fusion was thus used to interpret the widely observed abrupt fusion pore conductance increases beyond detection limit (estimated as ~5 nm)12,13,14,15, fast synaptic currents, and fast catecholamine-generated amperometric currents in secretory cells (Fig. 1aII–III)2,7,13,15,16. An equally possible interpretation—large pores without collapse—was neglected. EM observation of Ω-profiles led to the kiss-and-run proposal (Fig. 1bI)5. Subsequent observations at live synapses and endocrine cells support the kiss-and-run proposal: (1) capacitance flickers (equal up- and down-steps) reflecting single vesicular membrane addition and subtraction were sometimes accompanied by a detectable pore conductance or a slower amperometric current (Fig. 1bII–III)13,15,17, and (2) failure in releasing quantum dots or proteins from fusing vesicles2,7,18,19,20.
Endocytic vesicle formation may undergo a flat-to-round transformation. This concept is supported by EM observation of shallow and deep membrane pits (Fig. 1cI)4,21, and detection of pore conductance decreases reflecting fission, the final step of endocytosis, in live synapses (Fig. 1cII)22,23.
Full-collapse fusion followed by endocytic flat-to-round transition is considered the primary exo-endocytosis mode. In contrast, kiss-and-run, despite receiving stronger support in live cells, had been questioned and considered at most a minor mode ever since its proposal2,7,24. Real-time visualization of these modes is needed to establish the classical exo-endocytosis framework (Fig. 1d).
A system for visualizing fusion and budding
Fusion and budding are most studied for small ~30–80 nm synaptic vesicles and ~40–100 nm clathrin-coated vesicles. Various super-resolution microscopies with stochastic optical reconstruction or photoactivated localization, structured illumination, stimulated emission depletion (STED), or minimal photon flux have led to nanoscale insights into exo- and endocytic sites, protein composition, protein localization, nanocolumn structures, and single molecule dynamics at nerve terminals25,26,27,28,29,30,31,32,33,34,35,36,37,38. However, rapid membrane transformations of ~30–100 nm vesicles have not been visualized owing to insufficient spatial-temporal resolution.
To visualize membrane transformation regularly requires abundant, synchronized exo-endocytosis events imaged at sub-vesicle and sub-second resolution. These criteria were met by STED microscopy at ~60–80 nm resolution every ~26–300 ms in live bovine adrenal chromaffin cells in primary culture, where tens to hundreds of ~200–1500 nm vesicle exo-endocytosis are induced within seconds after a 1-s depolarization (Fig. 2a, Box 1)39,40,41,42. With fluorescent probes labeling PM cytosol-facing leaflet, extracellular-facing leaflet, extracellular solution, vesicular lumen contents, and/or exo-endocytosis proteins, 2- and 3-color STED microscopy recently real-time visualized exo-endocytosis membrane transformations and proteins driving these transformations (Fig. 2a, Box 1). For example, in cells bathed with Atto 532 (A532) and overexpressed with phospholipase C ΔPH domain attached with mNeonGreen or EGFP (PHG), which binds PtdIns(4,5)P2 at, and thus labels, PM cytosol-facing leaflet, PHG and A532 diffusion into fusing or endocytic structures allows for imaging membrane transformations (Fig. 2b–d, Supplementary Movies 1-3). For fusing or endocytic Ω-profile’s pores below STED resolution, permeation of small fluorescent molecules like A532 is used to indicate an opened pore (Fig. 2b, c; Box 1)40. These labeling strategies can be used to visualize fusion and budding in general.
Dynamic membrane transformations
Exocytotic membrane transformation
The hemi-fusion pathway in live cells
Hemi-fusion, the fusion between proximal leaflets of two fusing membrane bilayers, was proposed as the pathway to full fusion43,44,45. A competing hypothesis with a protein-lined pore made of SNARE proteins as the initial fusion product was also proposed46,47,48,49. Distinguishing these hypotheses was once considered impractical. Recent imaging in live cells visualized the hemi-fusion structure as a PHG-labeled Ω-profile (labeling cytosol-facing leaflet) impermeable to small molecules like A532 and H+ (Fig. 2aI, Supplementary Movie 1), and impermeable to probes labeling the extracellular-facing leaflet39. A surprisingly large fraction (~30–40%) of fusion undergoes hemi-fusion with a detectable lifetime, among which one-third undergoes hemi-to-full fusion within ~0.1–26 s (Fig. 2bII, Supplementary Movie 2), and the remaining may undergo hemi-to-full fission39. Excluding the pure protein-lined pore hypothesis, these results revealed the hemi-fusion pathway in live cells. However, SNARE proteins might form parts of the fusion pore, as SNARE proteins were found to be exposed to polar solvents during fusion in nano-disks50.
Fusion pore opening dynamics
Conductance measurements may derive fusion pores less than ~5 nm within milliseconds under the assumption of a fixed pore geometry13,15,17,23,51,52. In contrast, STED microscopy visualizes pores directly, but only for large pores (~60 nm) at a slow speed (every 26-300 ms): ~180–720 nm vesicles open a ~0–490 nm pore (Fig. 2c–e); these pores may expand rapidly at >~9 nm/ms to support fast content release (Fig. 2d, Supplementary Movie 3); some pores are initially small (<~60 nm) for ~0.5–4 s, but may expand abruptly (Fig. 2c)40. These results visualized fusion pore expansion implicated from recordings of small pore conductance preceding an abrupt increase (Fig. 1aIII) or slow amperometric foot signal preceding a fast spike (Fig. 2cII)12,13,53. The maintenance of the Ω-shape with large pores (Fig. 2c, d)40 indicates that traditional interpretation of abrupt pore conductance increase and/or fast amperometric spike as full-collapse fusion should not be practiced.
Seven fusion modes regarding Ω-profile size and pore
Fusion-generated, PHG-labeled Ω-profiles may remain unchanged (same size, Fig. 2b–d), shrink partially or completely within seconds (Fig. 3a, Supplementary Movie 4), or enlarge (Fig. 3b, Supplementary Movie 5), while its pore may stay open or close40,41,54. Accordingly, there are seven modes reflecting Ω-profile size and pore status (Fig. 3c): enlarge-stay (enlarged, pore opened), enlarge-close (enlarged, pore closed), stay (same size, pore opened), close (same size, pore closed), shrink-stay (partially shrink, pore opened), shrink-close (partially shrink, pore closed), and shrink fusion (Ω-profile shrinks completely)40,41,54. Surprisingly, full-collapse fusion, the primary fusion mode generally thought40,41,55,56, was not observed.
These fusion modes are common but have not been fully recognized previously. For example, capacitance up-steps reflecting single vesicle fusion were sometimes followed by larger down-steps in mast cells (Fig. 3bII)57, or smaller down-steps at nerve terminals58, supporting enlarge-close and shrink-close fusion, respectively. Unequal capacitance up- and down-steps observed at calyx nerve terminals15,23,59 and likely many other cell types could be caused by, but had not been interpreted as, shrink-close or enlarge-close fusion. Extremely large vesicles (~1–10 μm) may shrink in minutes in exocrine cells (Fig. 3aIII)55,56, consistent with shrink or shrink-stay fusion.
Redefining kiss-and-run
Fusion pores up to ~490 nm may remain open or constrict and then close (Fig. 2cI, dI) while Ω-profile size may change (Fig. 3a, c)40,41,54. The traditionally defined kiss-and-run, “closure of narrow (<~5 nm) pores to limit content release, but form vesicles identical to original ones” (Fig. 1d)2,7, should be redefined as “closure of fusion pores of any size that may limit or promote content release (Fig. 2e), and may form vesicles of different sizes (Fig. 3c). Supporting this redefinition, capacitance flickers are often accompanied by a too-large-to-detect conductance at synapses (Fig. 2dII)15 and fast amperometric spikes in endocrine cells (Fig. 2dIII);13,14 unequal capacitance up- and down-steps consistent with shrink-close or enlarge-close fusion were reported15,57,58.
Debate between shrink and full-collapse fusion
Shrink fusion was observed down to ~60 nm41, suggesting that ~30–80 nm synaptic vesicles might undergo shrink fusion. Imaging and modeling showed that at the final stage of shrinking, Ω-shape is converted to Λ-profile (Fig. 3aII, dI). Accordingly, a shrink-collapse mode, in which Ω-profile shrinking is followed by Ω-to-Λ-to-flat shape transition, is suggested to reconcile the conflict (Fig. 3c): shrinking is dominant when the fusing Ω-profile size is large, ~60–80 nm, whereas full-collapse (Ω-to-Λ-to-flat) may become dominant as the shrinking Ω-profile size reaches ~30–10 nm41.
Sequential compound fusion and kiss-and-run
Fusion at a previously fused vesicle, termed sequential compound fusion, was proposed for large (~1–10 μm) exocrine vesicles that release contents very slowly (Fig. 4a)60,61,62. STED microscopy of smaller endocrine vesicles observed and thus proved the proposed membrane transformation and revealed its pore dynamics (Fig. 4b, c)42. Sequential compound fusion forms an 8-shape structure with a pore that may (1) dilate to form a larger and elongated Ω-profile (Fig. 4bI-II; Supplementary Movies 6 and 7), (2) close to recycle vesicles, termed sequential compound kiss-and-run, or (3) remain unchanged (Fig. 4c)42.
Compound fusion
Compound fusion, the vesicle-vesicle fusion that forms larger vesicles for subsequent exocytosis (Fig. 4c)2, is supported by (1) EM observation of multivesicular-shaped vesicles, vesicles much larger than regular ones, and large vesicular-shape structures at secretory cell PM, (2) capacitance up-steps and miniature excitatory postsynaptic currents reflecting single synaptic vesicle fusion larger than regular ones, and (3) capacitance up-steps equivalent to several vesicles’ membrane capacitances accompanied by the release of multiple fluorescently labeled vesicles in eosinophils2,23,60,62,63,64,65. Compound fusion’s membrane transformation has not been real-time visualized.
Endocytic membrane transformation
Three modular transformations: flat→Λ, Λ→Ω, and Ω→Ο
Shallow and deep pits are considered intermediates of endocytic flat-to-round transition (Fig. 1cI)4,21, but difficult to prove with EM. STED imaging observed three modular transitions that formed ~200–1500 nm vesicles after depolarization-induced exocytosis: flat→Λ-shape, Λ→Ω-shape and Ω→Ο-shape, each of which takes 0.05-51 s (Fig. 5a–e; Supplementary Movies 8–11)66. Owing to low transition probabilities (~0.12–0.24), flat→Λ and Λ→Ω may not necessarily continue their transition towards Ο-shape (Fig. 5b)66, leaving many Λ- (or dome-shape) and Ω-profiles at PM. Upon subsequent depolarization, these preformed Λ- and Ω-profiles may continue their endocytic journey (Fig. 5e).
Preformed-Ω→Ο as the main driving force
Low probability Λ→Ω and Ω→Ο transition make flat→Ο transition much less frequent than preformed-Ω→Ο transition66. Furthermore, flat→Ο takes more steps and time than preformed-Ω→Ο66. Endocytic vesicle formation is thus primarily from preformed-Ω→Ο, but not the generally assumed flat→Ο (Fig. 5e)66. This ‘genius’ design fulfils physiological demands by offering much faster and more endocytosis from an apparently ‘clumsy’ machinery that drives flat→Λ→Ω→Ο slowly at low probabilities.
Endocytic zones are separated from fusion sites
The general belief that endocytosis occurs at endocytic zones different from release sites4,21 has only been visualized recently in chromaffin cells, where flat→Λ→Ω→Ο transitions occur at sites separated from fusion sites40,66. Mechanisms that separate release from endocytosis and generate endocytic zones remain poorly understood.
Membrane transformation mechanics
Fusion mechanics
Potential molecular mechanics underlying fusion pore opening have been reviewed repeatedly1,8,16. Here, we focus on fusion pore dynamics microscopically observed in real time.
Pore opening and expansion
Calcium binding with synaptotagmin induces SNARE proteins to mediate fusion in excitable cells1,67. Pore conductance and current measurements in secretory cells and SNARE-reconstituted nano-discs suggest that fusion machinery, including SNARE proteins, are pivotal in opening and expanding fusion pores at nanometer ranges1,67,68,69,70,71,72. STED imaging showed that cortical F-actin-supported membrane tension may expand fusion pores up to hundreds of nanometers (Fig. 2e)40,73.
Fusion pore constriction and closure
Early studies of vesicular spots implied dynamin in expanding26,74,75 or stabilizing fusion pores75,76,77. Recent studies showed that dynamin inhibition enhances quantal release, implying dynamin in controlling fusion pore78. STED imaging showed that dynamin inhibition blocks fusion pore constriction/closure, that dynamin is localized at fusion sites before fusion, and that dynamin scaffold surrounds and constricts Ω-profile’s pore in real time (Figs. 2e, 5cII)40,79.
How does dynamin know when to work? Calcium reduction or replacement with strontium blocked fusion pore constriction/closure, suggesting that calcium influx triggers fusion pore constriction/closure by activating dynamin (Fig. 2e)39,40,54. Since calcium-binding protein calmodulin, calcineurin, and protein kinase C may mediate calcium-triggered endocytosis80,81,82,83, they might activate dynamin by dephosphorylating and/or phosphorylating dynamin80, a proposal for future examination.
Fusion and fission machinery compete to decide pore dynamics
Since calcium influx may activate dynamin to mediate pore constriction and closure, a block of calcium influx or dynamin inhibits fusion pore constriction/closure and thus increases the initial pore size39,40. These effects can be antagonized by blocking F-actin- and tension-mediated fusion pore-expansion mechanisms, suggesting that dynamin-dependent pore constriction and SNARE/F-actin-dependent pore expansion compete to decide fusion pore and thus content release dynamics39,40. Unexpectedly, block of calcium influx or dynamin facilitates hemi-to-full fusion, suggesting that dynamin acts at the hemi-fusion stage before pore opening to compete with SNARE- and F-actin-dependent pore opening/expansion mechanisms39,40. In summary, dynamin-dependent pore constriction and SNARE/F-actin-dependent pore expansion compete to decide fusion dynamics, including hemi-to-full fusion, pore opening, expansion, constriction and closure (Fig. 2e). We suggest this competition scheme as a general principle governing fusion pore dynamics, where undiscussed (apology here) or future-learned mechanisms can be added to build a more complete model. Further supporting this principle, dynamic fusion pore expansion and constriction controlled by F-actin, myosin II and Bin-Amphiphysin-Rvs domain proteins were reported during micron-sized exocrine vesicle fusion84, and compared with smaller vesicles85.
Why shrink but not full-collapse fusion?
Experiments and realistic modeling suggest that a swelling osmotic pressure, the positive intra- to extracellular osmotic pressure difference, squeezes and thus abolishes membrane tension of the fusion-generated Ω-profile, producing a positive PM-to-Ω-profile tension gradient to reel the Ω-profile membrane into PM (Fig. 3dII)41. With squeezing and membrane-reeling-in force, Ω-profile shrinking is free energetically favored over full-collapse (Fig. 3d)41, explaining why full-collapse does not occur2,7. The PM-to-Ω-profile tension gradient depends on cortical F-actin, explaining why F-actin is crucial in mediating shrink fusion41,73. Since the swelling osmotic pressure and membrane-actin cortex adhesion required for shrink-fusion41,73 are general properties of the cell73,86,87,88,89, shrink-fusion may be of broad application.
The swelling osmotic pressure might contribute to shrinking micron-sized exocrine vesicles, which are compressed in minutes by a surrounding actomyosin network (Fig. 3aIII)56,84. This compression mechanism is too slow for rapid shrinking of much smaller endocrine vesicles73, but may work with the swelling osmotic pressure to underlie slower vesicle shrinking.
Rapid release site assembly at fused vesicles
Sequential compound fusion with a ~0.2-85 s interval suggests rapid assembly of release sites at the 1st fusing vesicle42. This finding suggests modifying the half-a-century concept—exocytosis occurs at preestablished release sites in excitable cells, such as active zones1,2—to include rapid release site assembly at fused vesicular Ω-profiles (Fig. 4c).
Endocytosis mechanics
Tens of proteins and lipids have been implicated in mediating endocytosis using various curvature generation mechanisms, such as hydrophobic insertion, scaffolding, crowding, and liquid-liquid phase separation3,90,91,92,93,94. Here we focus on mechanisms underlying the flat→Λ→Ω→Ο transition observed in real-time.
Pulling and constriction underlie flat-to-round transition
During flat→Λ transition, Λ’s height increases with a spike-like membrane protrusion attached at Λ’s tip while Λ’s base remains constant and is surrounded by F-actin and dynamin scaffold (Fig. 5b, c; Supplementary Movies 8, 12, 13)66,79. Λ’s tip and its spike-like protrusion are associated with growing actin filaments and dynamin puncta (Fig. 5b, c; Supplementary Movies 8, 12, 13)66,79. Block of F-actin or dynamin inhibits flat→Λ transition66,79. These results suggest that F-actin and dynamin pull at the endocytic zone’s center and Λ’s tip while constraining the boundary from growing, leading to flat→Λ transition (Fig. 5d).
During Λ→Ω→Ο transition, the Λ-shape is converted into a Ω-shape as Λ’s base width decreases; dynamin puncta surround Λ’s base and Ω’s pore, and constrict in parallel with the constriction of Λ’s base and Ω’s pore (Fig. 5b–d; Supplementary Movie 13)66,79. Furthermore, block of dynamin inhibits Λ→Ω→Ο transition66,79. These results suggest that dynamin surrounds and constricts Λ-profile’s base as large as hundreds of nanometers, transforming Λ- to Ω-profile, and then constricts Ω-profile’s pore from up to hundreds of nanometers to zero, converting Ω-profiles to vesicles (Fig. 5d).
Mathematical modeling show that two forces, a pulling force at the center and a periphery-to-centre constriction force, are sufficient to mediate flat→Λ→Ω→Ο transition (Fig. 5d, Supplementary Movie 14)79. It is concluded that F-actin and dynamin mediate flat→Λ→Ω→Ο transition by pulling at the center and constriction at the base/pore region79.
F-actin pulls membrane inward
Imaging revealed that F-actin filament attached at the growing Λ-profile’s tip may pull Λ-profile inward (Fig. 5cI, Supplementary Movie 12)79. Modeling suggests that a ~3 pN point-pulling force is sufficient to pull membrane inward (Supplementary Movie 14)79. Such a small force might involve a bundle of contractile complexes of actin and myosin filaments with an anchored in the cytoplasmic actin network95,96. It differs from the proposal for yeast and mammalian clathrin-mediated endocytosis, where actin polymerization from PM to cytosol along the clathrin cage’s surface may generate pushing forces to elongate the bud91,97,98,99. Since STED imaging also visualized F-actin recruitment to growing Λ’s base and side (Fig. 5cI)79, both tip pulling and side pushing may contribute to Λ formation. These mechanisms may explain why F-actin inhibition by latrunculin A or actin β-isoform knockout reduces endocytosis and membrane pits at nerve terminals and inhibits clathrin-mediated endocytosis79,86,100,101,102.
Dynamin: master player of flat→Λ, Λ→Ω and Ω→Ο
While dynamin-mediated narrow (~5–20 nm) pore fission is well known94,103, imaging revealed surprisingly that dynamin is involved in pulling membrane inward with F-actin, and in mediating Λ→Ω→Ο by constricting Λ’s base and Ω’s pore as large as hundreds of nanometers (Fig. 5cII, d; Supplementary Movie 13)79. Supporting this finding, dynamin interacts with F-actin at actin comets, podosomes, filopodia, and F-actin bundles103,104,105,106. How dynamin interacts with F-actin to generate pulling forces remains to be studied.
Dynamin alone may surround and constrict large Λ’s base and Ω’s pore because dynamin forms helices surrounding and constricting liposomes from hundreds of nanometers down to the nanometer range79. Current models where dynamin helix conformational changes may constrict ~5-10 nm pore94,103 seem difficult to explain constriction of hundreds of nanometers. Other molecules might also be involved. Endophilin or synaptojanin 1 knockout increases membrane pits’ base at synapses, implying their involvement in neck formation107.
Endocytosis principle: two forces make one vesicle
Dynamin and actin are involved in most endocytic modes reported2,100,101,102,108,109,110,111. Accordingly, F-actin- and dynamin-dependent pulling and constriction that mediate flat→Λ→Ω→Ο transition may mediate many clathrin-independent but dynamin/actin-dependent modes of endocytosis, such as clathrin-dispensable but vesicle recycling-essential ultrafast, fast, slow, bulk, and overshoot endocytosis at synapses2,9,100,101,102,108,109,110,111,112,113,114, and clathrin-independent endocytosis of extracellular ligands, receptors, viruses, bacteria, prions, and bacterial toxins90,115. Even for clathrin-mediated endocytosis, dynamin and actin may exert their pulling and constriction forces to generate clathrin-coated pits. Supporting this possibility, initiation and maturation of fluorescent clathrin spots, which presumably involve pit formation, depend on dynamin and actin91,92; dynamin can be pre-recruited to endocytic zones via interaction with syndapin 1116; dynamin is located at the periphery of flat or shallow clathrin patches117, consistent with dynamin’s ability to constrict Λ-profile’s base79. We propose a general principle that F-actin- and dynamin-dependent pulling and constriction underlie flat-to-round transformation, regardless of the involvement of coat proteins like clathrin (Fig. 5d).
Calcium: unified trigger of flat→Λ, Λ→Ω and Ω→Ο
Calcium influx triggers diverse endocytic modes, including fast, slow, overshoot, and bulk endocytosis in secretory cells2,81,83,118,119 (but see Ref. 120). Calcium reduction or replacement with strontium blocks flat→Λ, Λ→Ω and Ω→Ο, suggesting calcium triggers each of these modular transitions39,40,54,66. By triggering flat→Λ, Λ→Ω and Ω→Ο, calcium influx initiates diverse endocytic modes, including slow, fast, ultrafast, overshoot, and bulk endocytosis66. Calmodulin, calcineurin and protein kinase C have been suggested as calcium sensors underlying calcium-triggered endocytosis by dephosphorylation and/or phosphorylation of endocytic proteins80,81,82,83. Synaptotagmin 1, an exocytosis calcium sensor, may also be involved in exo-endocytosis coupling121,122,123,124. These calcium sensors are candidates for underlying calcium-triggered flat→Λ, Λ→Ω and Ω→Ο transition.
Dynamin- and/or actin-independent endocytosis
Studies attempting to abolish dynamin or actin functions suggest the existence of dynamin- and/or actin-independent endocytosis. For example, applying the non-hydrolyzable GTP analog, GTP-γS, which abolishes the GTPase dynamin-mediated endocytosis, reveals dynamin-independent synaptic vesicle endocytosis125. Knockout of all three dynamin isoforms in fibroblasts uncovers a dynamin-independent fluid-phase endocytosis126. Results from the use of F-actin inhibitors (e.g., latrunculin A) are not all consistent86,112,127,128,129,130,131,132,133,134,135. A study suggests that actin is only needed at high-tension PM86, which may explain conflicting results from different but not the same preparations. Another study offers an alternative explanation that latrunculin A may not access certain actin pools134. Consistent with this explanation, synaptic vesicle endocytosis is inhibited by actin β or γ isoform knockout but not by latrunculin A101,135.
Actin’s role is minimized by the reduction of PM tension during clathrin-mediated endocytosis in yeast or mammalian cells, suggesting mechanisms other than F-actin in generating membrane invagination86,136,137,138. In brief, dynamin- or actin-independent mechanisms might contribute to underlying endocytic curvature transitions3,93.
Liquid-liquid phase separation
Liquid-liquid phase separation might contribute to endocytic curvature generation93,138,139,140,141,142,143. Eps15 and Fcho1/2 rely on weak, liquid-like interactions to promote the assembly of protein droplets in vitro, which may support clathrin-mediated endocytosis in vivo139. Similarly, Ede1, the yeast Eps15 homolog, may generate a separate liquid phase to nucleate endocytic patches140. Endophilin may undergo a phase transition into liquid-like condensates to facilitate endocytic protein assembly during fast endophilin-mediated endocytosis141. Dynamin 1 interacts with syndapin 1 to form molecular condensates for mediating ultrafast endocytosis at synapses116. Endocytic coat proteins with prion-like domains in yeasts may form hemispherical puncta with the hallmarks of biomolecular condensates138. Modeling suggests that cohesive interactions within condensates and interfacial tensions among condensates, membranes, and the cytosol might contribute to membrane invagination during actin-dependent and -independent endocytosis138. Testing these effects on real-time observed flat→Λ→Ω→Ο transition may pinpoint the exact curvature transition controlled by liquid-liquid phase separation.
Functions
Exocytosis strength depends on many parameters, such as the vesicle release probability, release synchronization, single vesicle content release rate and amount, and availability of release sites2,7,144. Endocytosis efficiency depends on individual vesicle endocytosis’s speed, number and size. These key parameters are controlled by the exo-endocytosis membrane transformations. To give a bird’s view on this regulation, we synthesize a live-cell exo-endocytosis membrane transformation model (Fig. 6) based on recent real-time microscopic observations39,40,41,42,54,66,73,79. The transformation includes hemi-fusion, hemi-to-full fusion, fusion pore expansion, constriction, hemi-fission, hemi-to-full fission, fusing vesicular Ω-profile size enlargement or shrinking, sequential compound fusion and kiss-and-run, compound fusion (not being visualized), and endocytic flat→Λ→Ω→Ο transition (Fig. 6). These transformations offer many previously unrecognized or underappreciated mechanisms to control exo-endocytosis.
Exocytotic functions
Hemi-fusion pathway defines vesicle release probability
Since a significant fraction of hemi-fusion structures fail to reach full fusion39, we suggest redefining release probability as hemi-fusion probability times hemi-to-full fusion probability (Fig. 6). Regulation of the hemi-fusion pathway may thus regulate release probability, underlying various forms of synaptic plasticity145,146.
A dynamic pore theory governing vesicular content release
Visualization of membrane dynamics established a dynamic pore theory: fusion pore may expand up to the vesicle width and then constrict and close while the fused vesicular Ω-profile size may remain unchanged, enlarge, shrink partially, or shrink completely (Fig. 6)40,41,54. This new model (Fig. 6) differs from the classical framework (Fig. 1d) in three aspects: (1) full-collapse fusion is replaced with shrink fusion or shrink-collapse fusion (Fig. 3c), (2) kiss-and-run is redefined to include any pore size that may limit or promote release and formation of different vesicle sizes due to enlarge-close or shrink-close fusion, and (3) shrink and enlarge fusion, rather than classical full-collapse and kiss-and-run, employ large and small pore to promote and limit content release, respectively40,41,54.
Decades of studies interpreted rapid/complete release, pore conductance increase beyond detection limit, or release of ~20 nm quantum dots as full-collapse fusion, and otherwise as kiss-and-run using the classical framework (Fig. 1d)2,7,13,15,16,17,18,19,147 may be subject to significant errors. We suggest replacing the classical framework with the new dynamic pore theory (Figs. 2e, 3c, 6) to account for content release. Shrink (or shrink-collapse) and enlarged fusion (Fig. 6) may mediate fast and slow content release previously attributed to full-collapse and kiss-and-run, respectively. Regulation of shrink and enlarge fusion might explain how modulators regulate content release148,149,150,151.
Redefined kiss-and-run may open a large or small pore to promote or limit release, respectively (Fig. 6). Partial content release has been implicated by measurements of catecholamine-mediated slow/small amperometric currents13,152,153,154, estimation of transmitter released fractions per vesicle78,155, and assessment of vesicular dopamine via correlative imaging with transmission EM and nanoscale secondary ion mass spectrometry156. These studies implied partial catecholamine release as the overwhelming majority13,78,152,153,154,155,156. In contrast, imaging neuropeptide Y release and fusion pore dynamics in chromaffin cells showed much infrequent partial release40. The reason for this apparent conflict is unclear.
Kiss-and-run is not the only mechanism underlying partial release because stay fusion may occasionally keep neuropeptide Y from release, likely via a pore narrower than neuropeptide Y’s molecular size40. Thus, partial release is due to pore constriction until it is narrower than the released content’s molecular size.
Compound fusion enhances quantal size and synaptic plasticity
Compound fusion releases vesicular contents equivalent to multiple regular vesicles, leading to an increase in the quantal size (Figs. 4c, 6). This increase contributes to underlying a common short-term synaptic plasticity induced by repetitive firings, the post-tetanic potentiation23,157.
Asynchronized release via hemi-fusion and sequential compound fusion
Vesicle release is mostly synchronized to relay fast presynaptic firings to postsynaptic neurons158. However, release can be asynchronized with various delays, which may enhance the dynamic range of neuronal impulse relay, synaptic plasticity, and neuromodulation158. Mechanisms underlying asynchronized release remain poorly understood144. Imaging revealed a delay of milliseconds to tens of seconds between hemi and full fusion and between 1st and 2nd fusion of a sequential compound fusion (Figs. 2b, 4b, 6)39,42. Slow hemi-to-full fusion or sequential compound fusion may thus generate asynchronized release. Their regulation may modulate synchronized versus asynchronized release.
Sequential compound fusion enhances exocytosis capacity
Repetitive stimulation induces many fused vesicular Ω-profiles that may occupy and thus block release sites. Likely to overcome this problem, sequential compound fusion takes place at these Ω-profiles to enhance exocytosis capacity, and to save vesicles from traveling one-vesicle-length distance for docking at original release sites (Fig. 6)42.
Endocytic functions
Preformed Ω-profile closure and kiss-&-run underlie diverse endocytic modes
In excitable cells of the nervous or endocrine system, where exocytosis may deplete vesicles during repetitive firing, endocytosis must recycle fused vesicles rapidly to sustain exocytosis2,9. To meet this demand, cells employ various endocytic modes, including speed-specific slow (>~6 s), fast (<~6 s) or ultrafast (<~0.6 s) endocytosis, amount-specific compensatory (endocytosis = exocytosis) or overshoot (endocytosis > exocytosis) endocytosis, and size-specific bulk endocytosis (forming large endosome-like structures) or clathrin-mediated endocytosis (forming small vesicles)2,4,9,22,81,100,159,160,161,162,163,164,165. Many of these modes are also observed in non-excitable cells91,115,166,167.
These endocytic modes are thought to undergo flat-to-round transformation using different yet largely unclear molecular mechanisms to achieve their specificity2,24,166,168. Historically, fast endocytosis was considered too fast to be mediated by slow clathrin-mediated endocytosis2. Kiss-and-run was thus hypothesized, although not at consensus, to underlie fast endocytosis2,24. Ultrafast endocytosis is thought to undergo a flat-to-round transformation using endocytic machinery containing dynamin, actin, endophilin, and syndapin, but not clathrin100,107,112, and with dynamin primed at the endocytic site116. Pre-enrichment of endophilin might also contribute to generating fast endophilin-mediated endocytosis166,169.
The known differences in the molecular machinery seem difficult to explain different endocytic modes satisfactorily. Studies of real-time-observed membrane transformations offer a sound explanation for generating endocytic modes differing in speeds, amounts, and vesicle sizes with the same molecular machinery. In chromaffin cells, brief depolarization may induce ultrafast, fast, slow, compensatory, overshoot, and/or bulk endocytosis, as recorded with whole-cell capacitance measurements (Figs. 2a, 5e)54,66. The depolarization also induces exo-endocytic membrane transformation detected with imaging, including fusion pore opening and closure, flat→Λ→Ω→Ο, preformed-Λ→Ω→Ο and preformed-Ω→Ο transition54,66. Summing these membrane transitions yielded a reconstructed exo-endocytosis trace matching the capacitance-recorded exo-endocytic mode from the same cell54,66. Quantification revealed surprisingly that preformed-Ω→Ο and fusion pore closure (kiss-and-run), but not flat→Λ→Ω→Ο, are the primary mechanism underlying each endocytic mode, including ultrafast, fast, slow, compensatory, overshoot, and bulk endocytosis (Figs. 5e, 6)66. Preformed-Ω→Ο and kiss-and-run each contributes about half to each endocytic mode, except overshoot caused mainly by preformed-Ω→Ο66.
The only difference among these modes is the calcium current66, the trigger of each endocytic membrane transformation39,40,54,66, and each endocytic mode2,81,118,170. The calcium current increases in order as the capacitance-recorded endocytic mode changes from no-endocytosis to slow, fast, ultrafast, and overshoot endocytosis54,66. By controlling preformed-Ω and fusion pore closure’s speed, number, and vesicle size, low to high calcium influxes generate in order (1) slow, fast, and ultrafast endocytosis; (2) no-endocytosis, compensatory, and overshoot endocytosis; and (3) regular- and large-sized (bulk) vesicle endocytosis (Fig. 5e)54,66. Thus, with the same endocytic machinery, different amounts of the trigger signal, calcium influx, may generate endocytic modes differing in speeds, quantities, and vesicle sizes66.
These findings may explain the long-held mystery of how a ‘slow’ flat-to-round machinery produces fast/ultrafast endocytosis—by closing preformed or fusion-generated Ω-profiles that are fission-ready66. It explains the longstanding conundrum that secretory vesicle endocytosis measured after depolarization is much faster than receptor-mediated endocytosis measured from the entire flat-to-round transition. Preformed Ω-profile closure explains long-held mysteries at synapses that ‘readily retrievable’ vesicular proteins, but not newly exocytosed ones, are retrieved first171,172,173, and that a readily retrievable membrane pool is retrieved upon depolarization174. Preformed Ω-profile may constitute the readily retrievable membrane pool. Given that kiss-and-run2,13,15,17,18, preformed Ω-profiles, and endocytosis overshoot that reflects preformed Ω-profile closure are widely observed in endocrine cells, neurons, and beyond4,73,81,100,101,160,164,175,176, the new concept that preformed Ω-profile closure and kiss-and-run underlie diverse endocytic modes may have broad application. While emphasizing this new concept, the contribution of flat-to-round transition can be more significant if the low probability flat→Λ→Ω→O transition is enhanced in specific conditions or cell types yet to be visualized.
Controlling vesicle sizes
Vesicle size and transmitter concentration determine the quantal size in secretory cells23,177,178,179,180. Vesicular contents may regulate vesicle size via unknown mechanisms178,179. Imaging revealed five manners membrane transformations control vesicle size: (1) shrink-close fusion generates smaller vesicles, (2) enlarge-close fusion forms larger vesicles41,54, (3) sequential compound fusion followed by 1st fusing vesicle pore closure produces large vesicles42, (4) compound fusion generates large vesicles23,63,64,181, and (5) Λ- and Ω-profile may grow to different extents during flat→Λ→Ω→Ο transition, resulting in different vesicle sizes66 (Fig. 6). Shrink-close41,54 and sequential compound fusion42 may create elongated vesicles due to compression by the swelling osmotic pressure41, explaining elongated vesicles observed with EM2,4,165,182. These mechanisms may explain vesicle size changes caused by protein manipulations. For example, dynamin’s role in flat→Λ→Ω→Ο79 may explain why dynamin 1 controls synaptic vesicle size183. Regulating these mechanisms might underlie synaptic plasticity, as compound fusion contributes to mediating post-tetanic potentiation23.
Exo-endocytosis coupling
Exocytosis is followed by endocytosis often with a similar amount2. Two mechanisms may mediate such an exo-endocytosis coupling: (1) calcium influx that triggers both exo- and endocytosis2,81,83,118 (but see ref. 120), and (2) SNARE proteins that mediate exocytosis are also required for mediating endocytosis184,185,186. Membrane tension, which regulates endocytosis187, could be another potential coupling factor if exocytosis can change membrane tension188.
Imaging revealed that calcium influx triggers each membrane transformation, including fusion, fusion pore closure, flat→Λ, Λ→Ω and Ω→O transition40,54,66. Varying calcium influxes from low to high levels increase (1) the speed of preformed Ω-profile closure and fusion pore closure, generating speed-specific slow, fast and ultrafast endocytosis; (2) the probability of preformed Ω-profile closure and fusion pore closure, generating amount-specific no-endocytosis, compensatory and overshoot endocytosis, and (3) vesicle size, generating size-specific endocytic modes like bulk endocytosis66. Thus, while triggering more intense exocytosis, larger calcium influx triggers faster and more endocytosis by inducing preformed Ω-profile closure and fusion pore closure at higher speeds and quantities, explaining how calcium influx couples exo- to endocytosis with a matched intensity (Fig. 5e).
Concluding remarks, future challenges and opportunities
Based on real-time observed membrane transformations, we synthesize a new model (Fig. 6) replacing the classical framework of fusion and budding (Fig. 1d). In this new model, fusion involves hemi-fusion, hemi-to-full fusion, fusion pore expansion, constriction, hemi-fission, and hemi-to-full fission, while the fusing vesicular Ω-profiles may maintain its size, enlarge, shrink partially or completely, or become a new release site for sequential compound fusion; endocytosis involves modular Flat→Λ, Λ→Ω and Ω→O transition, each with a low transition probability (Fig. 6). Compound fusion may also occur. Kiss-and-run is redefined as rapid or slow closure of any size of fusion pores, which may generate different sizes of vesicles; full-collapse fusion is replaced with shrink fusion; a shrink-collapse fusion is proposed to reconcile the debate between shrink and full-collapse fusion.
Many mechanistic principles underlying fusion and budding have been suggested. First, competition between fusion and fission machinery determines fusion membrane dynamics, vesicle release probability, synchronized versus asynchronized release, vesicular content release rates/amounts, and quantal size. Furthermore, compound fusion also regulates quantal size, underlying synaptic post-tetanic potentiation. Second, cells’ swelling osmotic pressure and cytoskeleton-dependent membrane tension underlie fusing vesicle size changes, particularly shrink fusion. Third, rapid-release site assembly at fused Ω-profiles enables sequential compound fusion to enhance exocytosis capacity. Fourth, F-actin/dynamin-dependent pulling at the endocytic zone center and a dynamin-mediated constriction from the periphery are sufficient to mediate Flat→Λ→Ω→O transition. Fifth, preformed and fusion-generated Ω-profile pore closure, but not flat-to-round transition, primarily underlie all kinetically distinguishable endocytic modes, including ultrafast, fast, slow, bulk, compensatory, and overshoot endocytosis. Sixth, with the same endocytic machinery, low to high levels of the endocytosis trigger signal, the calcium influx, generates in order (1) speed-specific slow, fast, and ultrafast endocytosis, (2) amount-specific no-endocytosis, compensatory, and overshoot endocytosis, and (3) vesicle size-specific regular- and large-sized (bulk) vesicle endocytosis by controlling performed and fusion-generated Ω-profile pore closure’s speed, number, and vesicle size. Seventh, calcium influx couples exo- to endocytosis by triggering each exo-endocytosis membrane transition—larger calcium influx induces more intense exocytosis and a matched intensity of endocytosis. These principles may be conserved for fusion and budding in various cells and organelles.
The techniques developed for real-time visualization of membrane transformations40,66 open the door to examine fusion, budding, and, more generally, the curvature generation in live cells. However, time-lapse STED imaging was from single XZ-planes (Box 1)40,66, making data collection especially time-consuming189,190. A STED volume scan could help solve this problem, but it is practically too slow to catch fast events and may strongly bleach fluorophores189,190. Techniques with faster scanning, less bleaching, brighter labeling, and higher detection sensitivity are needed to make super-resolution volume scanning practical191,192,193,194. To resolve membrane transformation of small vesicles like synaptic vesicles and clathrin-coated vesicles, it requires a spatial-temporal resolution of ~10 nm or smaller at sub-second or even millisecond resolution. Developing such a microscopic technique seems extremely challenging, but is ultimately necessary for real-time visualization of small vesicles.
The model in Fig. 6 is in its early stage with many open questions, as dynamic protein structural changes at a nanometer-millisecond scale that underlie each membrane transformation are largely unclear. For example, it remains unclear how dynamin competes with SNARE proteins for the limited nanodomain to antagonize hemi-to-full fusion and pore expansion, how release sites are rapidly assembled at fused Ω-profiles to support sequential compound fusion, how F-actin works together with dynamin to pull membrane inward, how dynamin constricts large Λ-profiles’ base and Ω-profiles’ pore, how SNARE proteins open the fusion pore, how dynamin mediates hemi- and then hemi-to-full fission, how clathrin and other membrane coat proteins contribute to Ω-profile formation, how calcium influx triggers each exo-endocytic membrane transformation, how tens of exo-endocytosis proteins and lipids not discussed here contribute to each exo-endocytic membrane transformation, and how the principles summarized here apply to different cell types or organelles. Addressing these questions in the future will provide a molecular understanding of membrane fusion and budding. With the synthesized model as the backbone (Fig. 6), we suggest adding future-learned knowledge to this backbone to understand fusion and budding comprehensively.
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Acknowledgements
We thank Wonchul Shin for providing Supplementary Movies. This work was supported by the NINDS Research Program (ZIA NS003009-20 and ZIA NS003105-15).
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Wu, LG., Chan, C.Y. Membrane transformations of fusion and budding. Nat Commun 15, 21 (2024). https://doi.org/10.1038/s41467-023-44539-7
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DOI: https://doi.org/10.1038/s41467-023-44539-7
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