Cited by 790Neuroinflammation and Neurodegeneration MechanismsNeuroscience and Neuropharmacology ResearchNeurogenesis and neuroplasticity mechanisms

Microglia remodel synapses by presynaptic trogocytosis and spine head filopodia induction

Open access
Weinhard, Laetitia, di Bartolomei, Giulia, Bolasco, Giulia, Machado, Pedro, Schieber, Nicole L., Neniskyte, Urte, Exiga, Melanie, Vadisiute, Auguste +4 more·2018·Nature Communications

Published version of a preprint

Abstract

Microglia are highly motile glial cells that are proposed to mediate synaptic pruning during neuronal circuit formation. Disruption of signaling between microglia and neurons leads to an excess of immature synaptic connections, thought to be the result of impaired phagocytosis of synapses by microglia. However, until now the direct phagocytosis of synapses by microglia has not been reported and fundamental questions remain about the precise synaptic structures and phagocytic mechanisms involved. Here we used light sheet fluorescence microscopy to follow microglia–synapse interactions in developing organotypic hippocampal cultures, complemented by a 3D ultrastructural characterization using correlative light and electron microscopy (CLEM). Our findings define a set of dynamic microglia–synapse interactions, including the selective partial phagocytosis, or trogocytosis ( trogo -: nibble), of presynaptic structures and the induction of postsynaptic spine head filopodia by microglia. These findings allow us to propose a mechanism for the facilitatory role of microglia in synaptic circuit remodeling and maturation.

AI snapshot

Written from the paper’s full text.

TL;DR

Microglia directly interact with developing hippocampal synapses, but instead of phagocytosing whole synapses they partially nibble (trogocytose) presynaptic boutons and axons and induce postsynaptic spine head filopodia. These interactions are rapid, do not require CR3, and suggest a nuanced remodeling role rather than wholesale synapse elimination.

Key findings

  • In fixed P15 hippocampal tissue, 8,944 spines were analyzed; about 3% were contacted by microglia (n = 294), with 1.9% appositions and 1.4% encapsulations. No spine was found phagocytosed, and all contacted spines retained an intact neck. CLEM of 13 contacts confirmed 7/8 appositions; 3/5 confocal encapsulations appeared as simple appositions by EM, with only one showing >50% spine surface contact.
  • FIB-SEM of 56 µm³ microglial material (560 µm² surface, 8 cells) found 17 double-membrane inclusions, 2 containing 40 nm putative presynaptic vesicles, plus 20 engulfment structures: 8/20 axonal shafts, 3/20 presynaptic boutons, and 9/20 microglial self-engulfment. Inclusions averaged 253 ± 24 nm diameter and 0.01–0.05 µm³, indicating trogocytosis rather than whole-synapse phagocytosis.
  • Time-lapse imaging captured 11 presynaptic engulfment events from 8 microglia, frequently in <3 min; in 2/11 events most of the bouton was eliminated but presynaptic material remained at the original site. CR3-KO slices showed no deficit in trogocytosis (2.3 ± 0.7 vs 1.5 ± 0.6 events/cell/3 h, p = 0.37), latency (WT 6.0 ± 1.6 vs KO 3.9 ± 1.1, p = 0.28), or somatic inclusions (2.6 ± 0.4 vs 2.2 ± 0.6, p = 0.51).
  • Microglia–spine contacts were brief (4.2 ± 0.85 min). Among contacted persistent spines, 39% (13/31) formed spine head filopodia versus 7% of non-contacted spines; filopodia averaged 1.5 µm (range 0.4–3.1 µm, n = 21). Relocation occurred in 27% (5/21) of induced filopodia, and FIB-SEM found filopodia on 28% (5/18) of contacted mature PSD-containing spines.

Methods

  • Fixed hippocampal tissue from transgenic mice was analyzed by confocal microscopy for microglia–spine contacts at P15, with CD68/Iba1 staging across P8–P40. Correlative light and electron microscopy (CLEM) used FIB-SEM at 5 nm lateral pixel size and 8 nm section thickness for 3D ultrastructural reconstruction.
  • Organotypic hippocampal slice cultures (DIV10–19) were imaged by light sheet fluorescence microscopy for up to 3 h at 1 frame/45–90 s. Presynaptic CA3–CA1 Schaffer collaterals were labeled with AAV-Syn::iRFP; CR3-KO quadruple transgenic slices were compared with WT.
  • Analyses included 3D segmentation, morphometric and cross-correlation analysis, vectorial correlation, t-tests, and two-way ANOVA; data are mean ± SEM.

Limitations

  • Stated: postsynaptic elimination by microglia might occur in other brain regions, developmental stages, or at too low a frequency to detect; the multiple-synapse bouton EM observation is anecdotal; the mechanism of spine head filopodia induction is unclear; CR3 is not required, but other complement components or region-specific pruning pathways could be involved.
  • Stated/evident: live imaging relied on organotypic cultures, though microglia motility resembled in vivo and EM confirmed filopodia in fixed tissue; rapid events may be missed at 1 frame/90 s, as the paper notes some events within the frame rate went unnoticed.
  • Evident: several analyses rest on small event counts (e.g., 5 relocating filopodia, 2/11 bouton-elimination events), and the paper states its approach did not allow systematic assessment of spine-switching events.

Model-written summary. Check it against the paper before relying on it.

Integrity signals

Registry

Crossref · 10.1038/s41467-018-03566-5

Cites

69 of 69 references verified0 citation errors · 0 not checkable

Statistics

Nothing to recompute.

Claims the paper makes

0 of 31 cited sources checked · 0 supported · 0 flagged

  • Findingown data

    Using cytoplasmic markers, the authors were not able to confirm earlier evidence suggesting phagocytic engulfment of dendritic spines.

    “Thus, using cytoplasmic markers to visualize neuronal and microglia material, we were not able to confirm earlier evidence suggesting the phagocytic engulfment of dendritic spines.”
    Quote in the paperSubstantial claim
  • Findingown data

    CD68 immunoreactivity in Iba1-labelled microglia is high at P8-P15 with a peak at P15 and gradually decreases in the following weeks in fixed postnatal mouse hippocampal sections.

    “CD68 immunoreactivity was high at P8–P15 with a peak at P15 and a gradual decrease in the following weeks.”
    Quote in the paperSubstantial claim
  • Findingown data

    About 3% of spines from secondary dendrites of GFP+ neurons in the CA1 stratum radiatum at P15 are contacted by microglia.

    “We analyzed over 8900 spines from secondary dendrites of GFP + neurons in the CA1 stratum radiatum of fixed hippocampal tissue at P15 and found that about 3% of spines were contacted by microglia (n = 294).”
    Quote in the paperSubstantial claim
  • Findingown data

    Three-dimensional ultrastructural reconstruction confirmed microglia-spine apposition events where membranes were in contact or juxtaposed (7/8 apposed).

    “Three-dimensional ultrastructural reconstruction confirmed microglia–spine apposition events where microglia and spine membranes were in contact or juxtaposed (7/8 apposed; Fig. 2f).”
    Quote in the paperSubstantial claim
  • Findingown data

    In all encapsulation events, an intact GFP+ spine neck remains visible even when the entire spine surface appears contacted by microglia.

    “For each encapsulation event we carefully examined the integrity of the spine head, neck, and dendritic shaft, and found that in all cases, even in those where the entire spine surface appeared to be contacted by microglia, an intact GFP + spine neck remained visible (Fig. 1b–d).”
    Quote in the paperSubstantial claim
  • May combine two claims. 33
  • The quote only partly states this claim. 2
  • Classified as probably not a substantial claim. 15
  • May combine two claims.

    Findingown data

    Material engulfed from boutons and axons typically ranges between 0.01 and 0.05 μm3 with an average diameter of 253 ± 24 nm.

    “Analysis of the size distribution of inclusions revealed that the material being engulfed from boutons and axons typically ranged between 0.01 and 0.05 µm3 (Fig. 3d) with an average diameter of 253 ± 24 nm.”
    Quote in the paperNot a substantial claim
  • May combine two claims.

    Findingown data

    Microglia have 20 double-membrane structures in process of engulfment, many involving axonal shafts (8/20) and a smaller number involving presynaptic boutons (3/20).

    “In addition, we found 20 double-membrane structures that appeared to be in the process of engulfment. Many involved axonal shafts (8/20; Fig. 3b, c and Supplementary Movie 3) and a smaller number involved presynaptic boutons (3/20).”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    Among microglia-spine contacts, the majority are appositions (minor colocalization, 1.9% of spines) and the rest are encapsulations (>70% spine surface contacted, 1.4% of spines).

    “The majority of these contacts presented a relatively minor colocalization of spine and microglia fluorescence (apposition, Fig. 1a, c; n = 171, 1.9% of spines), whereas others were characterized by more extensive colocalization as defined by > 70% of the spine surface contacted by microglia (encapsulation, Fig. 1b, c; n = 123, 1.4% of spines).”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    Microglial inclusions contain presynaptic material: 17 double-membrane inclusion bodies were found, two of which contained putative presynaptic vesicles of 40 nm diameter.

    “We found 17 confirmed double-membrane inclusion bodies (Fig. 3c). Two of these contained putative presynaptic vesicles as indicated by their 40 nm diameter (Fig. 3a, c and Supplementary Movie 2), suggesting that presynaptic material is a substrate for elimination by microglia.”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    Most encapsulations observed by confocal microscopy appear as simple appositions by electron microscopy (3/5), with only one ROI showing >50% of spine surface contacted by microglia.

    “However, most encapsulations appeared as simple appositions (3/5) with only one ROI showing > 50% of the spine surface contacted by microglia (Fig. 2b–f).”
    Quote in the paperSubstantial claim
  • The quote only partly states this claim.

    Findingown data

    Microglia selectively trogocytose (partially phagocytose) presynaptic structures (boutons and axons) in developing mouse hippocampus.

    “Our findings define a set of dynamic microglia–synapse interactions, including the selective partial phagocytosis, or trogocytosis (trogo-: nibble), of presynaptic structures and the induction of postsynaptic spine head filopodia by microglia.”
    • Also stated in: § Microglia trogocytose presynaptic elements · hedged
      “These findings argue for the specific trogocytosis of presynaptic structures by microglia and suggest that this activity may be oriented indiscriminately toward axons and synaptic boutons rather than selectively targeting the presynaptic active zone.”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    All contacted spines were still attached to the dendritic shaft via a spine neck, and 3D FIB-SEM reconstructions did not support phagocytic engulfment of postsynaptic material by microglia.

    “using cytoplasmic labeling we noted that all contacted spines were still attached to the dendritic shaft via a spine neck and our 3D FIB-SEM reconstructions did not support the phagocytic engulfment of postsynaptic material by microglia.”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    Even when microglia eliminate most of a synaptic bouton (2/11 events), presynaptic material remains at the initial site, confirming partial elimination (trogocytosis) of presynaptic boutons.

    “Notably, even in those cases where microglia were seen to eliminate most of the synaptic bouton (2/11 events), presynaptic material remained at the initial site, confirming that microglia engage in partial elimination, or trogocytosis, of presynaptic boutons.”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    There is no difference between WT and CR3-KO in latency of elimination (WT: 6.0 ± 1.6, KO: 3.9 ± 1.1, p=0.28) or number of iRFP inclusions in microglia soma (WT: 2.6 ± 0.4, KO: 2.2 ± 0.6, p=0.51).

    “There was also no difference in the latency of elimination (WT: 6.0 ± 1.6, KO: 3.9 ± 1.1, p = 0.28, t-test; Fig. 5d) or in the number of iRFP inclusions found in microglia soma (WT: 2.6 ± 0.4, KO: 2.2 ± 0.6 min, p = 0.51, t-test; Fig. 5e).”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    Vectorial correlation confirmed that spine head filopodia extended toward the microglia process, varying in length from 0.4 to 3.1 μm with an average of 1.5 μm (n=21).

    “Vectorial correlation of spine head filopodia and microglia process movement direction confirmed that filopodia extended toward the microglia process, and varied in length from 0.4 to 3.1 µm with an average of 1.5 µm (n = 21 spine head filopodia formations analyzed, Fig. 6h).”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    The majority of filopodia induced by microglia originate from mature spine heads, confirmed in electron microscopy datasets.

    “we observed that the majority of filopodia induced by microglia originate from mature spine heads (Fig. 6), a finding confirmed in our electron microscopy datasets.”
    Quote in the paperNot a substantial claim
  • May combine two claims.

    Findingown data

    Microglia trogocytosis is restricted to presynaptic boutons and axons, with no evidence for elimination of postsynaptic material.

    “Importantly, microglia trogocytosis was restricted to presynaptic boutons and axons, with no evidence for elimination of postsynaptic material.”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    Microglia-induced spine head filopodia formation was frequently followed by relocation of the spine head to the tip of the filopodium and occasionally resulted in a new bouton contact.

    “Our time-lapse imaging study revealed that microglia-induced spine head filopodia formation was frequently followed by a relocation of the spine head to the tip of the filopodium and occasionally resulted in a new bouton contact (Fig. 7).”
    Quote in the paperSubstantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing). May combine two claims.

    Findingown data

    The speed of microglial process extension and retraction events in organotypic cultures is similar and stable over time (1.9 and 1.8 μm/min, respectively).

    “The speed of extension and retraction events was similar and stable over time (1.9 and 1.8 µm/min, respectively; Supplementary Fig. 3e, two-way ANOVA, main effect of time: F2, 12 = 3.48, p = 0.06; main effect of direction: F1, 12 = 0.10, p = 0.77, n = 4 cells) and consistent with previous in vivo imaging studies3.”
    Quote in the paperNot a substantial claim0 of 1 sources checked
    • cites [3] Nimmerjahn, A., Kirchhoff, F. & Helmchen, F. Resting microglial cells are highly dynamic surveillants of brain parenchyma in vivo. Science 308, 1314–1318 (2005). source

      Not checked in the free run.

  • May combine two claims.

    Findingown data

    Ten percent of microglia-contacted spines (3/31) disappeared during imaging, and 13% both appeared and disappeared (4/31) and were classified as transient spines.

    “Ten percent of microglia-contacted spines (3/31) disappeared during the imaging session (Fig. 6b), and 13% both appeared and disappeared (4/31), and were classified as transient spines.”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    Microglia do not phagocytose entire synapses; instead they trogocytose (nibble) synaptic structures.

    “However, contrary to previous assumptions, we found no evidence for the phagocytosis of entire synapses. Instead, we observed microglia trogocytosis—or nibbling—of synaptic structures.”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    The majority (9/15) of converging filopodia were spine head filopodia originating from mature, PSD-containing spines; the rest (6/15) were from dendritic shaft structures.

    “Consistent with our live-imaging data, the majority (9/15) were spine head filopodia originating from mature, PSD-containing spines (Fig. 7h), whereas the rest were filopodia extending from dendritic shaft structures (6/15; Fig. 7g).”
    Quote in the paperNot a substantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Findingreasoning

    No detectable iRFP signal was seen during 561 nm illumination.

    “Notably, no detectable iRFP signal was seen during 561 nm illumination, most likely to be because iRFP is significantly more dim than tdTomato.”
    Quote in the paperNot a substantial claim
    • Rests on an assumption: The 561 nm laser excites primarily tdTomato (<20% iRFP peak excitation) and the 638 nm laser excites exclusively iRFP.
  • Probably not a substantial claim: may not pass S3 (load-bearing). May combine two claims.

    Findingnone given

    iRFP expression was observed in CA3 neurons exclusively as early as 5 days post infection, and expression in CA3-CA1 Schaffer collaterals reached satisfactory expression level 10 days after infection.

    “iRFP was observed in CA3 neurons exclusively as early as 5 days post infection, and expression in CA3-CA1 Schaffer collaterals reached satisfactory expression level 10 days after infection.”
    Quote in the paperNot a substantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing). May combine two claims.

    Premisecitation

    Microglia initially respond to culturing by retracting processes and assuming an activated phenotype.

    “As shown previously, microglia initially respond to culturing by retracting their processes and assuming an activated phenotype33 (Supplementary Fig. 3b).”
    Quote in the paperNot a substantial claim0 of 1 sources checked
    • cites [33] Hailer, N. P., Jarhult, J. D. & Nitsch, R. Resting microglial cells in vitro: analysis of morphology and adhesion molecule expression in organotypic hippocampal slice cultures. Glia 18, 319–331 (1996). source

      Not checked in the free run.

  • May combine two claims.

    Premisecitation

    Organotypic hippocampal slice cultures undergo key developmental steps similar to in vivo, including synapse maturation.

    “Organotypic hippocampal slice cultures are known to undergo key developmental steps similar to those observed in vivo, including synapse maturation28–31, and have been previously used to study ramified microglia function32.”
    Quote in the paperSubstantial claim0 of 5 sources checked
    • cites [28] Bonhoeffer, T. & Yuste, R. Spine motility: phenomenology, mechanisms, and function. Neuron 35, 1019–1027 (2002). source

      Not checked in the free run.

    • cites [29] Hasegawa, S., Sakuragi, S., Tominaga-Yoshino, K. & Ogura, A. Dendritic spine dynamics leading to spine elimination after repeated inductions of LTD. Sci. Rep. 5, 7707 (2015). source

      Not checked in the free run.

    • cites [30] Nägerl, U. V., Willig, K. I., Hein, B., Hell, S. W. & Bonhoeffer, T. Live-cell imaging of dendritic spines by STED microscopy. Proc. Natl Acad. Sci. USA 105, 18982–18987 (2008). source

      Not checked in the free run.

    • cites [31] Verkuyl, J. M. & Matus, A. Time-lapse imaging of dendritic spines in vitro. Nat. Protoc. 1, 2399–2405 (2006). source

      Not checked in the free run.

    • cites [32] Vinet, J. et al. Neuroprotective function for ramified microglia in hippocampal excitotoxicity. J. Neuroinflamm. 9, 27 (2012). source

      Not checked in the free run.

  • May combine two claims.

    Interpretationown data

    Microglia have a broad role in synaptic remodeling via the trogocytosis of axonal structures, and the induction and reorganization of postsynaptic sites, to achieve appropriate maturation of circuits.

    “Instead, they suggest a broad role for microglia in synaptic remodeling via the trogocytosis of axonal structures, and the induction and reorganization of postsynaptic sites, so as to achieve an appropriate maturation of circuits.”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Premisecitation

    During early postnatal development, microglia undergo morphological maturation that matches synaptic maturation and express receptors for neuronal signaling factors upregulated during this period.

    “Clues to this activity come from observations that during early postnatal development microglia undergo morphological maturation that matches synaptic maturation4, and that they express receptors for neuronal signaling factors that are upregulated during this period5.”
    Quote in the paperSubstantial claim0 of 2 sources checked
    • cites [4] Dalmau, I., Finsen, B., Zimmer, J., González, B. & Castellano, B. Development of microglia in the postnatal rat hippocampus. Hippocampus 8, 458–474 (1998). source

      Not checked in the free run.

    • cites [5] Mody, M. et al. Genome-wide gene expression profiles of the developing mouse hippocampus. Proc. Natl Acad. Sci. USA 98, 8862–8867 (2001). source

      Not checked in the free run.

  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    Inhibitory synapses in hippocampus appear to be unaffected by disruptions of neuron-microglia signaling.

    “Notably, inhibitory synapses in hippocampus appear to be unaffected by disruptions of neuron–microglia signaling11 (but see ref. 13).”
    Quote in the paperNot a substantial claim0 of 2 sources checked
    • cites [11] Zhan, Y. et al. Deficient neuron-microglia signaling results in impaired functional brain connectivity and social behavior. Nat. Neurosci. 17, 400–406 (2014). source

      Not checked in the free run.

    • cites [13] Cantaut-Belarif, Y. et al. Microglia control the glycinergic but not the GABAergic synapses via prostaglandin E2 in the spinal cord. J. Cell. Biol. 216, 2979–2989 (2017). source

      Not checked in the free run.

  • May combine two claims.

    Interpretationown data

    Microglia facilitate circuit maturation by a combination of trogocytosis of the axonal compartment and remodeling of postsynaptic sites.

    “suggest that microglia facilitate circuit maturation by a combination of trogocytosis of the axonal compartment and the remodeling of postsynaptic sites.”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Interpretationown data

    Microglia frequently re-contact the same spine, suggesting that microglia-spine contacts are non-random.

    “microglia frequently re-contacted the same spine, suggesting that the contacts were non-random.”
    Quote in the paperNot a substantial claim
  • May combine two claims.

    Interpretationown data

    Microglia are broadly involved in structural synaptic plasticity and circuit maturation, both by trogocytosis of presynaptic boutons and axons, and by induction of filopodia from postsynaptic sites.

    “Together, these data suggest that microglia are broadly involved in structural synaptic plasticity and circuit maturation, both by the trogocytosis of presynaptic boutons and axons, as well as by the induction of filopodia from postsynaptic sites (Supplementary Fig. 6).”
    Quote in the paperSubstantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Interpretationcitation

    Microglia have a complex role in shaping maturing circuits.

    “Together, these studies suggest that microglia have a complex role in shaping maturing circuits.”
    Quote in the paperNot a substantial claim
  • May combine two claims.

    Interpretationown data

    Microglia can induce profound changes in spine morphology, as occasionally the entire spine stretched during microglial contact (2/31).

    “Occasionally, we noted stretching of the entire spine during microglial contact, suggesting that the microglia process was able to induce profound changes in spine morphology (2/31; Fig. 6a, f, i).”
    Quote in the paperNot a substantial claim
  • May combine two claims.

    Interpretationown data

    These observations confirm that spine head filopodia induction might trigger spine switching and potentially the replacement of inefficient with more efficient synapses.

    “These observations confirm that spine head filopodia induction might trigger spine switching and potentially the replacement of inefficient with more efficient synapses41,42,53.”
    Quote in the paperSubstantial claim0 of 3 sources checked
    • cites [41] Richards, D. A. et al. Glutamate induces the rapid formation of spine head protrusions in hippocampal slice cultures. Proc. Natl Acad. Sci. USA 102, 6166–6171 (2005). source

      Not checked in the free run.

    • cites [42] Breton-Provencher, V. et al. Principal cell activity induces spine relocation of adult-born interneurons in the olfactory bulb. Nat. Commun. 7, 12659 (2016). source

      Not checked in the free run.

    • cites [53] Schätzle, P. et al. Rapid and reversible formation of spine head filopodia in response to muscarinic receptor activation in CA1 pyramidal cells. J. Physiol. 589, 4353–4364 (2011). source

      Not checked in the free run.

  • May combine two claims.

    Premisecitation

    KO mice lacking fractalkine receptor show transient excitatory hyperconnectivity followed by weak synaptic multiplicity and reduced functional brain connectivity in adulthood, suggesting that failure to eliminate synapses at correct developmental time prevents normal strengthening of synaptic connections.

    “KO mice lacking fractalkine receptor show transient excitatory hyperconnectivity followed by weak synaptic multiplicity and reduced functional brain connectivity in adulthood11,12, suggesting that a failure to eliminate synapses at the correct developmental time prevents the normal strengthening of synaptic connections.”
    Quote in the paperSubstantial claim0 of 2 sources checked
    • cites [11] Zhan, Y. et al. Deficient neuron-microglia signaling results in impaired functional brain connectivity and social behavior. Nat. Neurosci. 17, 400–406 (2014). source

      Not checked in the free run.

    • cites [12] Hoshiko, M., Arnoux, I., Avignone, E., Yamamoto, N. & Audinat, E. Deficiency of the microglial receptor CX3CR1 impairs postnatal functional development of thalamocortical synapses in the barrel cortex. J. Neurosci. 32, 15106–15111 (2012). source

      Not checked in the free run.

  • May combine two claims.

    Interpretationown data

    None of the disappearing spines were in contact with microglia at the time of disappearance, arguing for a microglia-independent spine elimination process.

    “However, none of these spines were in contact with microglia at the time of disappearance, arguing for a microglia-independent spine elimination process.”
    Quote in the paperSubstantial claim
  • Classified as probably not a substantial claim.

    Premisecitation

    Microglia are highly motile in the uninjured brain, continuously extending and retracting processes through extracellular space.

    “The recent discovery that microglia are also highly motile in the uninjured brain2,3, continuously extending and retracting processes through the extracellular space, suggests that they may monitor and contribute to synaptic maturation and function.”
    Quote in the paperSubstantial claim0 of 2 sources checked
    • cites [2] Davalos, D. et al. ATP mediates rapid microglial response to local brain injury in vivo. Nat. Neurosci. 8, 752–758 (2005). source

      Not checked in the free run.

    • cites [3] Nimmerjahn, A., Kirchhoff, F. & Helmchen, F. Resting microglial cells are highly dynamic surveillants of brain parenchyma in vivo. Science 308, 1314–1318 (2005). source

      Not checked in the free run.

  • May combine two claims.

    Premisecitation

    KO mice lacking complement factors show cortical excitatory hyperconnectivity, supporting a role for microglia in elimination of excess synapses in mammalian neocortex.

    “Knockout (KO) mice lacking complement factors show cortical excitatory hyperconnectivity10, supporting a role for microglia in the elimination of excess synapses in the mammalian neocortex.”
    Quote in the paperNot a substantial claim0 of 1 sources checked
    • cites [10] Chu, Y. et al. Enhanced synaptic connectivity and epilepsy in C1q knockout mice. Proc. Natl Acad. Sci. USA 107, 7975–7980 (2010). source

      Not checked in the free run.

  • May combine two claims.

    Interpretationreasoning

    Filopodia induction by microglia may be a widespread phenomenon and a possible trigger mechanism for the formation of functional synapses.

    “Together, these observations argue that filopodia induction by microglia may be a widespread phenomenon and a possible trigger mechanism for the formation of functional synapses.”
    Quote in the paperSubstantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Interpretationown data

    The architecture of the case where most filopodia shared their dendrite of origin supports the hypothesis that microglia might promote the formation of class I MSBs.

    “the architecture of this particular case where most of the filopodia shared their dendrite of origin supports the hypothesis that microglia might promote the formation of class I MSBs.”
    Quote in the paperNot a substantial claim
  • Classified as probably not a substantial claim. May combine two claims.

    Premisecitation

    Trogocytosis is a non-apoptotic mechanism for rapid capture of membrane components and differs from phagocytosis, which involves engulfment and elimination of larger cellular structures (>1 μm).

    “Trogocytosis has been described in the immune system as a non-apoptotic mechanism for the rapid capture of membrane components and differs from phagocytosis, which involves the engulfment and elimination of larger cellular structures (> 1 µm)17–19.”
    Quote in the paperSubstantial claim0 of 3 sources checked
    • cites [17] Dopfer, E. P., Minguet, S. & Schamel, W. W. A. A new vampire saga: the molecular mechanism of T cell trogocytosis. Immunity 35, 151–153 (2011). source

      Not checked in the free run.

    • cites [18] Pham, T., Mero, P. & Booth, J. W. Dynamics of macrophage trogocytosis of rituximab-coated B cells. PLoS. One. 6, e14498 (2011). source

      Not checked in the free run.

    • cites [19] Joly, E. & Hudrisier, D. What is trogocytosis and what is its purpose? Nat. Immunol. 4, 815 (2003). source

      Not checked in the free run.

  • Probably not a substantial claim: may not pass S3 (load-bearing). May combine two claims.

    Premisecitation

    Microglia can elicit calcium transients and formation of filopodia from dendritic branches, and are required for learning-induced synapse formation.

    “At the same time, studies have pointed to a role for microglia in synapse formation in the adult brain, showing that they can elicit calcium transients and the formation of filopodia from dendritic branches15, and that they are required for learning-induced synapse formation16.”
    Quote in the paperNot a substantial claim0 of 2 sources checked
    • cites [15] Miyamoto, A. et al. Microglia contact induces synapse formation in developing somatosensory cortex. Nat. Commun. 7, 12540 (2016). source

      Not checked in the free run.

    • cites [16] Parkhurst, C. N. et al. Microglia promote learning-dependent synapse formation through brain-derived neurotrophic factor. Cell 155, 1596–1609 (2013). source

      Not checked in the free run.

  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Study design and conductreasoning

    tdTomato and iRFP were imaged separately by alternating exposure to 561 and 638 nm light sources with a fixed 585 nm long-pass filter detection system.

    “This allowed us to image iRFP and tdTomato separately by alternating exposure to 561 and 638 nm light sources with a fixed 585 nm long-pass filter detection system.”
    Quote in the paperNot a substantial claim
    • Rests on an assumption: The 561 nm laser excites primarily tdTomato (<20% iRFP peak excitation) and the 638 nm laser excites exclusively iRFP.
  • Probably not a substantial claim: may not pass S3 (load-bearing), S4 (based).

    Interpretationown data

    iRFP is significantly more dim than tdTomato.

    “Notably, no detectable iRFP signal was seen during 561 nm illumination, most likely to be because iRFP is significantly more dim than tdTomato.”
    Quote in the paperNot a substantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing). May combine two claims.

    Premisecitation

    Following incubation at 4 °C for longer than 30 min, microglia soma enlarged, but recovered normal morphology within 2 h.

    “it has been reported that following incubation at 4 °C for longer periods of time (> 30 min) microglia soma enlarged, but recovered normal morphology within 2 h64.”
    Quote in the paperNot a substantial claim0 of 1 sources checked
    • cites [64] Sugama, S., Takenouchi, T., Fujita, M., Kitani, H. & Hashimoto, M. Cold stress induced morphological microglial activation and increased IL-1beta expression in astroglial cells in rat brain. J. Neuroimmunol. 233, 29–36 (2011). source

      Not checked in the free run.

  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Study design and conductown data

    The 3D model generated from manual segmentation was matched to the confocal dataset to confirm perfect correlation.

    “The segmentation was carried out manually using iMOD software (http://bio3d.colorado.edu/imod/) and 3D model was generated and matched to the confocal dataset to confirm perfect correlation.”
    Quote in the paperNot a substantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing). The quote only partly states this claim.

    Study design and conductown data

    Fiducial features (vasculature and laser etched markings) were used to register the various microscopy modalities.

    “This vasculature, which could also be seen by negative contrast in confocal datasets, acted as fiducial features to register the various microscopy modalities (MicroCT, and low- and high-magnification confocal data).”
    Quote in the paperNot a substantial claim
43 of 43
  • The paper relies on this without support.

    The tissue temperature did not drop to 4 °C during agarose polymerization.

    “Although it is very unlikely that the tissue temperature dropped to this temperature”
  • The paper relies on this without support.

    The emission spectra of tdTomato and iRFP overlap significantly and are both efficiently detected in the presence of the 585 nm long-pass filter.

    “The emission spectra of tdTomato and iRFP overlap significantly and are both efficiently detected in the presence of the 585 nm long-pass filter.”
  • The paper relies on this without support.

    The 561 nm laser excites primarily tdTomato (<20% iRFP peak excitation) and the 638 nm laser excites exclusively iRFP.

    “with the 561 nm laser exciting primarily tdTomato (< 20% iRFP peak excitation) and the 638 nm laser exciting exclusively iRFP.”
3 of 3

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

  • Microglial contacts with dendrites induce spine formation in hippocampal cultures.

    “Time-lapse imaging of microglia has shown that microglial contacts with dendrites induce spine formation in hippocampal cultures (Weinhard et al., 2018), suggesting that microglia may aid in reorganization of postsynaptic sites to produce more efficient synapses.”

    From Adult neurogenesis, glia, and the extracellular matrix (2019) · cites this paper as Weinhard et al., 2018

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

Each contradiction between two passages listed here was confirmed by an independent check.

  • Spine-head relocation percentage does not match its count

    Minor

    Five of 21 filopodia is 23.8%, not 27%.

    Reported 27 · recomputed 23.809524

  • Inclusion counts are reported in minutes

    Minor

    The results attach "min" to the reported numbers of iRFP inclusions, whereas the figure caption identifies this measure as inclusions per cell.

  • Spine-head filopodia percentage does not match its count

    Minor

    Thirteen of 31 contacted spines is 41.9%, not 39%.

    Reported 39 · recomputed 41.935484

3 of 3

Cites

Flagged first, then by citations

Cited by

Sorted by citations

Authors
Weinhard, L., di Bartolomei, G., Bolasco, G., Machado, P., Schieber, N. L., Neniskyte, U., Exiga, M., Vadisiute, A., Raggioli, A., Schertel, A., Schwab, Y., & Gross, C. T.
Affiliations
  • European Molecular Biology Laboratory (IT)
  • European Molecular Biology Laboratory (DE)
  • Carl Zeiss (Germany) (DE)
Corresponding author
Gross, Cornelius T.
Venue
Nature Communications
Published
2018-03-26
Volume
9
Issue
1
Pages
1228-1228
ISSN
2041-1723 (ISSN-L)
OpenAlex
W2951541013
Cited by
790
References
69
Citations by year
2026: 59 · 2025: 76 · 2024: 93 · 2023: 104 · 2022: 103 · 2021: 122 · 2020: 108 · 2019: 87 · 2018: 35
FWCI
39.30
Type
journal article
Language
en
Open access
Locations
  • Nature Communications (publishedVersion, cc-by)
  • bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion)
  • Europe PMC (PubMed Central) (publishedVersion, other-oa)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
  • RePEc: Research Papers in Economics (submittedVersion)
  • DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
  • DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion)
Funders
European Commission (2007–2013, 327409, FP7 2007-2013, FP7/2007)
Topics
  • Life Sciences › Neuroscience › Neurology › Neuroinflammation and Neurodegeneration Mechanisms
  • Life Sciences › Neuroscience › Cellular and Molecular Neuroscience › Neuroscience and Neuropharmacology Research
  • Life Sciences › Neuroscience › Developmental Neuroscience › Neurogenesis and neuroplasticity mechanisms
Keywords
microglia, synaptic pruning, trogocytosis, hippocampal development, organotypic hippocampal slice cultures, correlative light and electron microscopy
MeSH terms
Animals, Hippocampus, Mice, Inbred C57BL, Mice, Transgenic, Models, Biological, Neuronal Plasticity, Phagocytosis, Pseudopodia, Synapses, Signal Transduction, Macrophage-1 Antigen, Microglia, Presynaptic Terminals

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Claims read by deepseek-v4.1-flash under definition version 3 (extract-v3) on 2026-10-09.

Classified by jev-1.13-20260917 (gold-guideline-v0.2) on 2026-10-09.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

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