Cited by 4,089Neuroinflammation and Neurodegeneration MechanismsNeuroscience and Neuropharmacology ResearchPhagocytosis and Immune Regulation

Microglia Sculpt Postnatal Neural Circuits in an Activity and Complement-Dependent Manner

Open access
Schafer, Dorothy P., Lehrman, Emily K., Kautzman, Amanda G., Koyama, Ryuta, Mardinly, Alan R., Yamasaki, Ryo, Ransohoff, Richard M., Greenberg, Michael E. +2 more·2012·Neuron

Abstract

Microglia are the resident CNS immune cells and active surveyors of the extracellular environment. While past work has focused on the role of these cells during disease, recent imaging studies reveal dynamic interactions between microglia and synaptic elements in the healthy brain. Despite these intriguing observations, the precise function of microglia at remodeling synapses and the mechanisms that underlie microglia-synapse interactions remain elusive. In the current study, we demonstrate a role for microglia in activity-dependent synaptic pruning in the postnatal retinogeniculate system. We show that microglia engulf presynaptic inputs during peak retinogeniculate pruning and that engulfment is dependent upon neural activity and the microglia-specific phagocytic signaling pathway, complement receptor 3(CR3)/C3. Furthermore, disrupting microglia-specific CR3/C3 signaling resulted in sustained deficits in synaptic connectivity. These results define a role for microglia during postnatal development and identify underlying mechanisms by which microglia engulf and remodel developing synapses.

AI snapshot

Written from the paper’s full text.

TL;DR

This study shows that microglia phagocytose retinal ganglion cell presynaptic inputs in the developing mouse retinogeniculate system during peak pruning, and that this engulfment depends on neuronal activity and microglial CR3/C3 complement signaling. Disrupting CR3/C3 signaling or microglial function produces lasting deficits in eye-specific segregation and synaptic connectivity.

Key findings

  • Microglia engulfed presynaptic RGC inputs at P5, when retinogeniculate pruning is robust; engulfment dropped significantly by P9, when pruning is largely complete.
  • Engulfment was activity-dependent: after intraocular TTX (0.5 µM) or forskolin (10 mM), microglia preferentially engulfed inputs from the less active eye.
  • CR3 and its ligand C3 were enriched in the P5 dLGN and downregulated by P9; CR3 or C3 knockout reduced microglial engulfment to about 50% of wild-type levels.
  • CR3 knockout mice showed increased ipsilateral/contralateral overlap at P10 and P30, and adult CR3 or C3 knockouts had a 1.3-fold increase in VGlut2-containing retinogeniculate synapses; CR3 knockouts also had a 1.8-fold increase in total VGlut2-positive puncta. Minocycline treatment (75 mg/kg, P4–P8) similarly reduced engulfment and impaired eye-specific segregation at P10.

Methods

  • Mouse retinogeniculate system with CX3CR1+/GFP microglia labeling, intraocular anterograde tracers, and confocal imaging with 3D reconstruction to quantify engulfed RGC input volume relative to microglial volume.
  • Activity manipulation by intraocular TTX or forskolin versus vehicle, plus genetic loss-of-function in CR3 and C3 knockout mice and pharmacological microglial inhibition with minocycline.
  • Validation used CD68 lysosomal colocalization, pHrodo-dextran, Chx10-cre/Rosa26-tdTomato labeling, electron microscopy and immunoEM, 3D structured illumination microscopy, eye-segregation assays, and array tomography for synapse density.

Limitations

  • The paper states that CR3/C3 may act through pathways independent of phagocytosis or downstream of other signals, and that the roughly 50% residual engulfment in CR3/C3 knockouts suggests other complement receptor-dependent or independent mechanisms contribute.
  • The paper notes that it cannot rule out axonal material being engulfed alongside presynaptic elements, and that postsynaptic structures were rarely observed, possibly due to rapid degradation.
  • Evident from the text: the work is limited to the mouse retinogeniculate system, so whether complement- and microglia-dependent engulfment generalizes to other developing or diseased CNS circuits remains to be tested; minocycline is also less specific than the genetic manipulations.

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

Integrity signals

Registry

Crossref · 10.1016/j.neuron.2012.03.026

Cites

98 of 98 references verified0 citation errors · 0 not checkable

Statistics

Nothing to recompute.

Claims the paper makes

24 of 61 cited sources checked · 10 supported · 0 flagged · accuracy not yet measured

  • Premisecitation

    RGC normal programmed cell death is essentially complete by P4/P5.

    “previous work has demonstrated that RGC normal programmed cell death is essentially complete by P4/P5 (Farah and Easter, 2005).”
    Quote in the paperSubstantial claim1 of 1 sources checked
    • cites Farah and Easter, 2005 source

      The Postnatal cell death section compares the predominantly ganglion-cell early cohort at P0 and P30, establishing postnatal loss but not when that loss ended. The Developmental cell death section reports dying older GCL cells during P0–P5, but does not establish that RGC death was essentially complete by P4/P5. Searches for P4/P5 and the timing of ganglion-cell death found no passage resolving that endpoint. (LLM, conf=0.72)

      Experimental — accuracy not yet measured
  • Premisecitation

    Deficits in complement component C1q result in an increase in the number of presynaptic boutons and exuberant excitatory connectivity in the cortex.

    “Consistent with this idea, deficits in complement component C1q results in an increase in the number of presynaptic boutons and exuberant excitatory connectivity in the cortex (Chu et al., 2010).”
    Quote in the paperSubstantial claim1 of 1 sources checked
    • cites Chu et al., 2010 source
  • Premisecitation

    Abnormal microglia function and complement cascade activation have been associated with neurodegeneration of the CNS.

    “Consistent with this idea, abnormal microglia function and complement cascade activation have been associated with neurodegeneration of the CNS (Alexander et al., 2008; Beggs and Salter, 2010; Rosen and Stevens, 2010; Schafer and Stevens, 2010; Stephan et al. 2012).”
    Quote in the paperSubstantial claim2 of 3 sources checked
    • cites Alexander et al., 2008 source
    • cites Beggs and Salter, 2010 source

      The discussion of microglial signalling (p. 2) concerns pain hypersensitivity after peripheral nerve injury, while the Conclusions (p. 6) mention protective and pathological microglial roles in responses to CNS injury. Neither passage addresses complement cascade activation or an association with CNS neurodegeneration; searches for those terms found no supporting passage in our copy. (LLM, conf=0.76)

      Experimental — accuracy not yet measured
    • cites Rosen and Stevens, 2010 source
  • Findingown data

    In mice with disrupted microglia function (C3 KO, CR3 KO, and minocycline-treated mice), there were sustained increases in the number of intact, structural synapses by eye-specific segregation and array tomography analyses.

    “Lastly, we observed sustained increases in the number of intact, structural synapses by eye specific segregation and array tomography analyses in mice with disrupted microglia function (C3 KO, CR3 KO, and minocycline-treated mice).”
    Quote in the paperSubstantial claim
  • Findingown data

    Cumulative probability calculations demonstrated an increased probability of VGlut2 localized to an RGC terminal or microglia as compared to random immunoreactivity throughout the neuropil.

    “cumulative probability calculations demonstrated an increased probability of VGlut2 localized to an RGC terminal or microglia as compared to random immunoreactivity throughout the neuropil (Figure 5H).”
    Quote in the paperSubstantial claim
  • Classified as probably not a substantial claim. 20
  • May combine two claims. 15
  • Classified as probably not a substantial claim.

    Premisecitation

    Microglia may play a role in synaptic remodeling and plasticity in the healthy brain.

    “recent studies suggest that microglia may play a role in synaptic remodeling and plasticity in the healthy brain (Davalos et al., 2005; Nimmerjahn et al., 2005; Paolicelli et al., 2011; Tremblay et al., 2010a; Wake et al., 2009; Schafer et al., 2012).”
    Quote in the paperSubstantial claim1 of 3 sources checked
    • cites Davalos et al., 2005 source
    • cites Nimmerjahn et al., 2005 source
    • cites Paolicelli et al., 2011 source
  • Classified as probably not a substantial claim.

    Premisecitation

    Sensory deprivation or TTX reduces mitochondria in presynaptic terminals known to undergo subsequent elimination.

    “Previous work has suggested that sensory deprivation or pharmacological blockade of neuronal activity (i.e., TTX) results in reduced mitochondria in presynaptic terminals known to undergo subsequent elimination (Hevner and Wong-Riley, 1993; Tieman, 1984).”
    Quote in the paperSubstantial claim1 of 2 sources checked
    • cites Hevner and Wong-Riley, 1993 source

      The COW mRNA section (page unavailable) reports that mitochondrial volume fraction decreases in specific cortical regions after TTX treatment. It also says the authors’ data do not establish whether the number of mitochondria changes. The paper does not place the decrease in presynaptic terminals or link those terminals to subsequent elimination, and the cited passage does not address sensory deprivation. (LLM, conf=0.85)

      Experimental — accuracy not yet measured
    • cites Tieman, 1984 source
  • Classified as probably not a substantial claim.

    Study design and conductcitation

    Microglia were labeled using the CX3CR1+/GFP mouse line in which all microglia express EGFP under CX3CR1.

    “Microglia were labeled using the CX3CR1+/GFP mouse line in which all microglia express EGFP under the control of fractalkine receptor, CX3CR1, expression (Figure 1, S1, and S5) (Cardona et al., 2006; Jung et al., 2000; Saederup et al., 2010).”
    Quote in the paperSubstantial claim2 of 3 sources checked
    • cites Cardona et al., 2006 source
    • cites Jung et al., 2000 source

      The Results and Discussion describe the CX3CR1+/GFP reporter mouse and show GFP expression in its microglia. They state that all CX3CR1-expressing cells are GFP-positive, but do not establish that all microglia express CX3CR1 or EGFP; the claim’s universal qualifier is therefore unsupported. (LLM, conf=0.82)

      Experimental — accuracy not yet measured
    • cites Saederup et al., 2010 source
  • Probably not a substantial claim: may not pass S3 (load-bearing). May combine two claims.

    Premisecitation

    Competition between inputs from the two eyes results in decreased territory of the weaker inputs and increased territory of stronger inputs within the dLGN.

    “these data are consistent with previous work demonstrating that such a competition results in decreased territory of the ‘weaker’ inputs and increased territory of ‘stronger’ inputs within the dLGN (Del Rio and Feller, 2006; Huberman et al., 2008; McLaughlin et al., 2003; Penn et al., 1998; Shatz, 1990; Shatz and Stryker, 1988; Stellwagen and Shatz, 2002; Stellwagen et al., 1999; Torborg and Felle”
    Quote in the paperNot a substantial claim1 of 3 sources checked
    • cites Del Rio and Feller, 2006 source
    • cites Huberman et al., 2008 source
    • cites McLaughlin et al., 2003 source
  • May combine two claims.

    Premisecitation

    pHrodo only fluoresces once it enters acidic compartments of lysosomes, so pHrodo-positive fluorescence within microglia confirms phagocytosis of RGC inputs.

    “Because pHrodo only fluoresces once it enters acidic compartments of lysosomes, any pHrodo-positive fluorescence within a microglia confirms phagocytosis of RGC inputs.”
    Quote in the paperSubstantial claim2 of 2 sources checked
    • cites Deriy et al., 2009 source

      The Results (page not available in our copy) state that pHrodo fluorescence increases as the compartment containing it acidifies. The Time Course of Phagosomal Acidification section (page not available) describes that acidification follows particle uptake in alveolar macrophages. The paper does not establish that pHrodo fluoresces only in lysosomes or that fluorescence in microglia confirms phagocytosis of RGC inputs. (LLM, conf=0.88)

      Experimental — accuracy not yet measured
    • cites Miksa et al., 2009 source

      The Results (page not provided) show that pHrodo-labeled cells become much brighter after macrophage engulfment as phagosomes acidify. But the paper also reports dim fluorescence before engulfment, so “only fluoresces once” is too absolute; it tests macrophages engulfing apoptotic cells, not microglia engulfing RGC inputs. (LLM, conf=0.88)

      Experimental — accuracy not yet measured
  • Classified as probably not a substantial claim.

    Premisecitation

    In the retina, spontaneous, correlated neuronal activity from both eyes (retinal waves) drives the elimination of synapses and segregation of inputs into eye-specific territories in the dLGN.

    “In the retina, spontaneous, correlated neuronal activity from both eyes (i.e., retinal waves) drives the elimination of synapses and segregation of inputs into eye-specific territories in the dLGN (Del Rio and Feller, 2006; Feller, 1999; Huberman et al., 2008; McLaughlin et al., 2003; Penn et al., 1998; Stellwagen and Shatz, 2002; Torborg and Feller, 2005).”
    Quote in the paperSubstantial claim1 of 3 sources checked
    • cites Del Rio and Feller, 2006 source
    • cites Feller, 1999 source
    • cites Huberman et al., 2008 source
  • Classified as probably not a substantial claim.

    Premisecitation

    In the immune system, C3 is cleaved into an activated form, iC3b, which covalently binds to the surface of cells or debris and targets them for elimination by macrophages via specific phagocytic receptor signaling (e.g., CR3).

    “In the immune system, C3 is cleaved into an activated form, iC3b, which covalently binds to the surface of cells or debris and targets them for elimination by macrophages via specific phagocytic receptor signaling (e.g., CR3) (Lambris and Tsokos, 1986; van Lookeren Campagne et al., 2007).”
    Quote in the paperSubstantial claim1 of 2 sources checked
    • cites Lambris and Tsokos, 1986
    • cites van Lookeren Campagne et al., 2007 source

      The “Complement C3 opsonization” section says C3 is first cleaved to C3b, which covalently binds a surface; subsequent cleavage of bound C3b produces iC3b. The receptor sections support iC3b recognition and phagocytosis through CR3, but the claim incorrectly presents iC3b as the direct product of C3 cleavage and the form that initially binds covalently. The discussion of cell-debris removal identifies CRIg as a possible receptor, rather than specifically CR3. (LLM, conf=0.88)

      Experimental — accuracy not yet measured
  • Classified as probably not a substantial claim.

    Premisecitation

    Microglia have the capacity to interact with synaptic elements in response to neurotransmitter release and/or sensory experience.

    “Previous work has demonstrated that microglia have the capacity to interact with synaptic elements in response to neurotransmitter release and/or sensory experience (Biber et al., 2007; Fontainhas et al., 2011; Nimmerjahn et al., 2005; Ransohoff and Perry, 2009; Tremblay et al., 2010a; Wake et al., 2009).”
    Quote in the paperSubstantial claim1 of 3 sources checked
    • cites Biber et al., 2007 source
    • cites Fontainhas et al., 2011 source

      The Introduction reports that microglial processes repeatedly contact nearby neurons, and the Discussion says neurotransmission rapidly regulates microglial morphology and behavior in retinal explants. The paper does not demonstrate that neurotransmitter release causes microglia to interact specifically with synaptic elements; it discusses synaptic pruning as a finding suggested by earlier studies. It does not test sensory experience. (LLM, conf=0.84)

      Experimental — accuracy not yet measured
    • cites Nimmerjahn et al., 2005 source
  • Classified as probably not a substantial claim.

    Premisecitation

    Array tomography is a powerful tool for high resolution imaging and quantification of synaptic density in vivo.

    “using array tomography (AT), a powerful tool for high resolution imaging and quantification of synaptic density in vivo (Greer et al., 2010; Margolis et al., 2010; Micheva and Smith, 2007; Ross et al., 2010).”
    Quote in the paperSubstantial claim2 of 3 sources checked
    • cites Greer et al., 2010 source

      The Results section describes array tomography as imaging ultrathin brain sections to visualize synapses in 3-D, and reports synaptic-puncta densities in mouse hippocampi. Experimental Procedures (Array Tomography) specifies 100 nm sections and synapse counting. The imaging was performed on fixed, excised tissue, however, not in vivo. (LLM, conf=0.84)

      Experimental — accuracy not yet measured
    • cites Margolis et al., 2010 source

      The Results section (‘Ephexin5 negatively regulates excitatory synapse number’; page unavailable) reports using array tomography to quantify excitatory synapses in mouse hippocampus in vivo. The Experimental Procedures confirm use of the method, but our copy does not characterize its imaging resolution or describe it as a ‘powerful tool.’ (LLM, conf=0.82)

      Experimental — accuracy not yet measured
    • cites Micheva and Smith, 2007 source
  • Probably not a substantial claim: may not pass S3 (load-bearing). May combine two claims.

    Premisecitation

    MHC class I molecules have been shown to be activity-dependent, localized to synapses, and co-localized with C1q.

    “For example, MHC class I molecules, another class of immune molecules demonstrated to play a role in retinogeniculate pruning, have been shown to be activity-dependent, localized to synapses, and co-localized with C1q leaving the possibility that MHC class I molecules may play an upstream role in microglia-mediated pruning of synapses (Corriveau et al., 1998; Datwani et al., 2009; Goddard et al.,”
    Quote in the paperNot a substantial claim2 of 3 sources checked
    • cites Corriveau et al., 1998 source

      The section on activity-regulated genes reports that blocking neural activity reduces class I MHC expression in the LGN, supporting the activity-dependent part of the claim. The passages on neuronal protein expression and the proposed synaptic role do not establish localization to synapses, and our copy does not report co-localization with C1q. Page numbers were not available in the indexed passages. (LLM, conf=0.88)

      Experimental — accuracy not yet measured
    • cites Datwani et al., 2009 source
    • cites Goddard et al., 2007 source
  • Probably not a substantial claim: may not pass S3 (load-bearing). May combine two claims.

    Premisecitation

    Microglia can contribute to synaptic plasticity in the adult CNS and in the context of the normal developing hippocampus.

    “Furthermore, microglia can contribute to synaptic plasticity in the adult CNS and, more recently, in the context of the normal developing hippocampus (Paolicelli et al., 2011; Pascual et al., 2011; Roumier et al., 2008).”
    Quote in the paperNot a substantial claim2 of 3 sources checked
    • cites Paolicelli et al., 2011 source
    • cites Pascual et al., 2011

      Couldn’t be matched to a paper in Crossref, so it can’t be checked.

    • cites Roumier et al., 2008 source

      The Discussion reports altered adult hippocampal synaptic function after prenatal microglial activation, and describes enhanced long-term potentiation in mice with a mutation affecting a microglial gene. The Results also describe microglia in the developing hippocampus, but the paper does not establish that microglia contribute to synaptic plasticity during normal hippocampal development; its functional findings concern mutation or inflammation. (LLM, conf=0.87)

      Experimental — accuracy not yet measured
  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    Recent data from genome-wide association studies and analyses of postmortem human brain tissue have suggested that microglia and/or the complement cascade may also be involved in the development and pathogenesis of neurodevelopmental and psychiatric disorders.

    “In addition to diseases associated with neurodegeneration, recent data from genome-wide association studies and analyses of postmortem human brain tissue have suggested that microglia and/or the complement cascade may also be involved in the development and pathogenesis of neurodevelopmental and psychiatric disorders (e.g., autism, obsessive compulsive disorder, schizophrenia, etc.) (Chen et al.,”
    Quote in the paperNot a substantial claim1 of 3 sources checked
    • cites Chen et al., 2010 source

      The Introduction (page unavailable) reports that genome-wide association studies implicate immune-related genes in susceptibility to psychiatric disorders, and the Discussion links defective microglia to pathological grooming in mice. The paper does not report analyses of postmortem human brain tissue or implicate the complement cascade, so it supports only part of the attributed claim. (LLM, conf=0.88)

      Experimental — accuracy not yet measured
    • cites Havik et al., 2011 source
    • cites Monji et al., 2009 source
  • May combine two claims.

    Premisecitation

    In a mouse model of glaucoma, C1q and C3 are highly upregulated and deposited on retinal synapses, and C1q deficiency or microglial inactivation with minocycline provides significant neuroprotection.

    “Indeed, in a mouse model of glaucoma, a neurodegenerative disease associated with RGC loss and gliosis, C1q and C3 are highly upregulated and deposited on retinal synapses and C1q deficiency or microglial ‘inactivation’ with minocycline provide significant neuroprotection (Howell et al., 2011; Steele et al., 2006; Stevens et al., 2007).”
    Quote in the paperSubstantial claim1 of 3 sources checked
    • cites Howell et al., 2011 source

      The research article (p. 6) reports early retinal upregulation of C1qa, C1qb and C1qc and says C1qa localizes to retinal synapses. Table 1 (p. 7) and Figure 8 (p. 11) show substantial protection in C1qa-deficient mice. Our copy does not establish C3 deposition on retinal synapses or neuroprotection from microglial inactivation with minocycline. (LLM, conf=0.89)

      Experimental — accuracy not yet measured
    • cites Steele et al., 2006 source
    • cites Stevens et al., 2007 source
  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    In at least one other developing system, local axonal retraction and synapse elimination appear to occur independent of microglia.

    “While in at least one other developing system local axonal retraction and synapse elimination appear to occur independent of microglia (Cheng et al., 2010), recent work describes a role for microglia at developing hippocampal synapses (Paolicelli et al., 2011).”
    Quote in the paperNot a substantial claim1 of 1 sources checked
    • cites Cheng et al., 2010 source
  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    Recent work describes a role for microglia at developing hippocampal synapses.

    “While in at least one other developing system local axonal retraction and synapse elimination appear to occur independent of microglia (Cheng et al., 2010), recent work describes a role for microglia at developing hippocampal synapses (Paolicelli et al., 2011).”
    Quote in the paperNot a substantial claim1 of 1 sources checked
    • cites Paolicelli et al., 2011 source
  • May combine two claims.

    Findingown data

    The increase in overlap in CR3 KOs was attributed to a significantly broader ipsilateral projection territory and a small, but not significant, increase in the contralateral projection territory.

    “This increase in overlap was attributed to a significantly broader ipsilateral projection territory (Figure 7D) and a small, but not significant, increase in the contralateral projection territory (Figure 7E).”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    C3 was enriched in synaptic regions of P5 dLGN and downregulated by P9.

    “immunohistochemistry for CR3 ligand, C3 was enriched in synaptic regions of P5 dLGN and downregulated by P9, an age when pruning is largely complete (Figure 6B)”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    CR3 was specifically upregulated in microglia in P5 dLGN and downregulated at later developmental time points.

    “CR3, a high affinity receptor for activated C3 (Akiyama and McGeer, 1990; Perry et al., 1985), was specifically upregulated in microglia in the P5 dLGN and downregulated at later developmental time points (Figure 6A).”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    Microglia-mediated engulfment of RGC inputs is developmentally regulated, being high at P5 and significantly reduced at P9.

    “engulfment of RGC inputs was developmentally regulated. During a developmental period of robust pruning (P5), engulfment was high (Figure 2B, Di). As few as 4 days later (P9), when much of the pruning is nearly complete, engulfment of RGC inputs was significantly reduced (Figure 2B,Dii).”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    Engulfed material as well as surrounding dLGN neuropil did not appear to have classic signs of axonal or synaptic degeneration.

    “our EM experiments demonstrated that engulfed material as well as surrounding dLGN neuropil did not appear to have classic signs of axonal or synaptic degeneration such as multilamellar bodies, electron-dense cytoplasm, lack of synaptic vesicles within presynaptic terminals, etc.”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    Minocycline treatment during peak pruning resulted in reduced microglial phagocytic function at P5 and a statistically significant deficit in eye-specific segregation at P10.

    “minocycline (P4–P8; 75 mg/kg) treatment during the peak of the pruning period resulted in reduced microglial phagocytic function (i.e., reduced RGC input engulfment) at P5 and a statistically significant deficit in eye-specific segregation at P10 (Figure S6C–E).”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Premisecitation

    Complement cascade components C1q and C3 localize to immature synapses and are necessary for developmental pruning of retinogeniculate synapses.

    “Complement cascade components C1q and C3 localize to immature synapses and are necessary for the developmental pruning of retinogeniculate synapses (Stevens et al., 2007; Stephan et al., 2012).”
    Quote in the paperSubstantial claim0 of 2 sources checked
    • cites Stevens et al., 2007 source
    • cites Stephan et al., 2012 source
  • Classified as probably not a substantial claim.

    Premisecitation

    Synaptic pruning is an activity-dependent developmental program in which many synapses formed early are eliminated while a subset are maintained and strengthened.

    “Synaptic pruning is an activity-dependent developmental program in which a large number of synapses that form in early development are eliminated while a subset of synapses are maintained and strengthened (Hua and Smith, 2004; Katz and Shatz, 1996; Sanes and Lichtman, 1999).”
    Quote in the paperSubstantial claim0 of 3 sources checked
    • cites Hua and Smith, 2004 source
    • cites Katz and Shatz, 1996 source
    • cites Sanes and Lichtman, 1999 source
  • Classified as probably not a substantial claim.

    Premisecitation

    Minocycline is an established inhibitor of microglial activation.

    “minocycline, an established inhibitor of microglial ‘activation’ (Buller et al., 2009)”
    Quote in the paperSubstantial claim0 of 1 sources checked
    • cites Buller et al., 2009 source
  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    3D-SIM enables 2X the resolution of light microscopy.

    “3D structural illumination microscopy (3D-SIM), a technique enabling 2X the resolution of light microscopy (Gustafsson, 2000), was used to assess the P5 dLGN of CX3CR1+/EGFP mice immunolabeled for VGlut2.”
    Quote in the paperNot a substantial claim0 of 1 sources checked
    • cites Gustafsson, 2000 source
  • May combine two claims.

    Interpretationown data

    Microglia are mediators of anatomical pruning and CR3/C3-dependent signaling is an underlying molecular mechanism.

    “our data directly implicate microglia as mediators of anatomical pruning and identify CR3/C3-dependent signaling as an underlying molecular mechanism.”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Interpretationreasoning

    Engulfed presynaptic elements were healthy, intact, and specifically engulfed by microglia.

    “Taken together, our data suggest that engulfed presynaptic elements were healthy, intact, and specifically engulfed by microglia.”
    Quote in the paperSubstantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Study design and conductcitation

    Microglia were identified by EM using criteria previously described.

    “Microglia were identified by EM using criteria previously described including a small, irregular-shaped nucleus containing substantial amounts of coarse chromatin and a cytoplasm rich in free ribosomes, vacuoles, and lysosomes (Mori and Leblond, 1969; Sturrock, 1981).”
    Quote in the paperNot a substantial claim0 of 2 sources checked
    • cites Mori and Leblond, 1969 source
    • cites Sturrock, 1981

      Couldn’t be matched to a paper in Crossref, so it can’t be checked.

  • Classified as probably not a substantial claim.

    Premisereasoning

    A precise function and molecular mechanism(s) underlying microglia-synapse interactions in these brain regions was unknown.

    “While these studies describe microglia dynamics at synapses, a precise function and molecular mechanism(s) underlying microglia-synapse interactions in these brain regions was unknown.”
    Quote in the paperSubstantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Study design and conductnone given

    Only those brains with sufficient dye fills were analyzed.

    “Only those brains with sufficient dye fills were analyzed (see Supplementary Methods for details).”
    Quote in the paperNot a substantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing). May combine two claims.

    Study design and conductnone given

    All analyses were performed blind with littermate controls.

    “All analyses were performed blind with littermate controls.”
    Quote in the paperNot a substantial claim
31 of 31
  • The paper relies on this without support.

    CD68 is a marker of lysosomes specific to microglia.

    “colocalization with CD68, a marker of lysosomes specific to microglia, was assessed in P5 dLGN.”
  • The paper relies on this without support.

    The precise cellular and molecular mechanisms underlying developmental synaptic pruning remain to be elucidated.

    “While it is clear that neuronal activity plays a role, the precise cellular and molecular mechanisms underlying this developmental process remain to be elucidated.”
  • The paper relies on this without support.

    The precise function of microglia at synaptic sites, the molecular mechanism(s) underlying microglia-mediated synaptic engulfment, and the long term consequence(s) of disrupting microglia function on synaptic circuits remain a mystery.

    “The precise function of microglia at synaptic sites, the molecular mechanism(s) underlying microglia-mediated synaptic engulfment, and the long term consequence(s) of disrupting microglia function on synaptic circuits remain a mystery.”
  • The paper relies on this without support.

    The mechanism by which complement mediates synaptic pruning has remained completely unknown.

    “While provocative, the mechanism by which complement mediates synaptic pruning has remained completely unknown.”
  • The paper relies on this without support.

    Synaptic pruning involves several mechanisms that cooperatively interact to establish precise synaptic circuits.

    “Synaptic pruning likely involves several mechanisms that cooperatively interact to establish precise synaptic circuits.”
  • The paper relies on this without support.

    CR3/C3 signaling involved in developmental synaptic pruning is specific to microglia.

    “While our data demonstrate that CR3/C3 signaling specific to microglia is involved in the pruning of developing circuits and suggest that engulfment is the underlying mechanism, CR3 and C3 may be acting through other pathways independent of phagocytosis or may be downstream of other signaling pathways to mediate pruning.”
6 of 6

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?

  • During development, C1q and C3 localize to synapses and mediate synapse elimination by phagocytic microglia.

    “During development, C1q and C3 localize to synapses and mediate synapse elimination by phagocytic microglia (5-7).”

    From Complement and microglia mediate early synapse loss in Alzheimer mouse models (2016) · cites this paper as [6]

    The Introduction states that C1q and C3 localize to immature synapses and are necessary for developmental pruning. The Discussion and Results identify microglial engulfment and CR3/C3-dependent signaling, but do not establish that C1q specifically mediates elimination by phagocytic microglia; the Discussion also leaves open mechanisms other than phagocytosis. Our copy provides no page numbers for these passages. (LLM, conf=0.85)

    Experimental — accuracy not yet measured
  • Adolescent cannabis exposure is known to activate microglia, which are responsible for much of the synaptic pruning that reduces gray matter volume during adolescence, potentially leading to unhealthy amounts of synaptic pruning and loss of cortical gray matter.

    “Indeed, ACE is known to activate microglia [118, 119], which are responsible for much of the synaptic pruning that reduces GMV during adolescence [120], potentially leading to unhealthy amounts of synaptic pruning and loss of cortical gray matter [117].”

    From Consequences of adolescent drug use (2023) · cites this paper as [120]

    Split into 2 atoms — 0 confirmed, 2 partially supported, 0 disputed, 0 misattributed, 0 unverifiable. Expand the claim to see per-atom verdicts.

    Experimental — accuracy not yet measured
  • At postnatal day 44, microglia are in a stable homeostatic state.

    “Experiments were carried out, 2 wk after the second administration, at P44. This is an age at which microglia are in a stable homeostatic state (78, 82, 83).”

    From Control of microglial dynamics by the Arp2/3 complex and the autism- and schizophrenia-associated protein CYFIP1 (2026) · cites this paper as [78]

    The Results section (‘Microglia-mediated engulfment of RGC inputs is developmentally regulated’; page unavailable) contrasts activated early-postnatal microglia with those at P30 and describes resting microglia in the healthy adult brain. It does not assess P44 or establish that microglia are in a stable homeostatic state at that age. (LLM, conf=0.79)

    Experimental — accuracy not yet measured
  • Engulfed synapses are internalized into lysosomal compartments in a manner similar to developmental synaptic pruning.

    “suggesting that the engulfed synapses are internalized into lysosomal compartments in a manner similar to developmental synaptic pruning (6).”
  • The paper's data suggest a local activation of a developmental pruning pathway as a key mechanism underlying oAβ-induced synapse loss in pre-plaque Alzheimer's disease brain.

    “Our data suggest a local activation of a developmental pruning pathway (5, 6) as a key mechanism underlying oAβ-induced synapse loss in pre-plaque AD brain.”

Cites

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4 of the 102 references couldn’t be matched to a known paper.

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Authors
Schafer, D. P., Lehrman, E. K., Kautzman, A. G., Koyama, R., Mardinly, A. R., Yamasaki, R., Ransohoff, R. M., Greenberg, M. E., Barres, B. A., & Stevens, B.
Affiliations
  • Harvard University (US)
  • Cleveland Clinic (US)
  • Stanford Medicine (US)
Corresponding author
Stevens, Beth
Venue
Neuron
Publisher
Elsevier BV
Published
2012-05
Volume
74
Issue
4
Pages
691-705
ISSN
0896-6273 (ISSN-L)
OpenAlex
W2033617297
Cited by
4,089
References
102
Citations by year
2026: 358 · 2025: 344 · 2024: 395 · 2023: 389 · 2022: 376 · 2021: 409 · 2020: 334 · 2019: 314 · 2018: 281 · 2017: 235 · 2016: 187 · 2015: 165 · 2014: 158 · 2013: 116 · 2012: 20
FWCI
73.84
Type
journal article
Language
en
Open access
Locations
  • Neuron (publishedVersion)
  • PubMed (publishedVersion)
  • Europe PMC (PubMed Central) (acceptedVersion)
  • PubMed Central (acceptedVersion)
Funders
  • Richard and Susan Smith Family Foundation
  • National Institutes of Health (5r01ns045500-29, 1f32ns066698-01a1)
  • National Institute of Mental Health (T32MH020017)
  • National Institute on Drug Abuse (R01DA015043)
  • National Institute of Neurological Disorders and Stroke (R01-NS-045500, R01-NS-07100801, R01NS071008, F32-NS-066698, RO1-NS-07100801, R01NS032151)
  • Eunice Kennedy Shriver National Institute of Child Health and Human Development (P30HD018655)
Topics
  • Life Sciences › Neuroscience › Neurology › Neuroinflammation and Neurodegeneration Mechanisms
  • Life Sciences › Neuroscience › Cellular and Molecular Neuroscience › Neuroscience and Neuropharmacology Research
  • Life Sciences › Immunology and Microbiology › Immunology › Phagocytosis and Immune Regulation
Keywords
microglia, synaptic pruning, postnatal development, complement receptor 3, complement C3, phagocytosis, neuronal activity, synaptic remodeling, synaptic connectivity
MeSH terms
Animals, Brain, Neuronal Plasticity, Retinal Ganglion Cells, Synapses, Macrophage-1 Antigen, Microglia, Mice, Knockout, Mice

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 2026-10-12.

Classified by jev-1.13-20260917 (gold-guideline-v0.2) on 2026-10-12.

Cited sources are checked by gpt-6-sol.

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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