Lipopolysaccharide-induced neuroinflammation disrupts functional connectivity and community structure in primary cortical microtissues
Open accessPublished version of a preprint
Abstract
Three-dimensional (3D) neural microtissues are a powerful in vitro paradigm for studying brain development and disease under controlled conditions, while maintaining many key attributes of the in vivo environment. Here, we used primary cortical microtissues to study the effects of neuroinflammation on neural microcircuits. We demonstrated the use of a genetically encoded calcium indicator combined with a novel live-imaging platform to record spontaneous calcium transients in microtissues from day 14–34 in vitro. We implemented graph theory analysis of calcium activity to characterize underlying functional connectivity and community structure of microcircuits, which are capable of capturing subtle changes in network dynamics during early disease states. We found that microtissues cultured for 34 days displayed functional remodeling of microcircuits and that community structure strengthened over time. Lipopolysaccharide, a neuroinflammatory agent, significantly increased functional connectivity and disrupted community structure 5–9 days after exposure. These microcircuit-level changes have broad implications for the role of neuroinflammation in functional dysregulation of neural networks.
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
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?
The study accounted for established pathways of astrocyte-microglia cross-talk by using direct cytokine stimulation in 2D cultures lacking microglia and LPS-induced microglial activation in organoids.
“Our approach accounted for established pathways of astrocyte-microglia cross-talk (8, 9, 15, 40), using direct cytokine stimulation (TNF-α and IL-1β) in 2D cultures lacking microglia and LPS-induced microglial activation in organoids (41)”
From Varicose projection astrocytes: Conserved reactive cells in brain pathology (2026) · cites this paper as [41]
The Methods (Lipopolysaccharide challenge; page unavailable) report exposing 3D cortical microtissues to LPS, and the Discussion describes LPS-induced changes in glia, including microglia. The paper does not demonstrate microglial activation specifically; its reported outcome is neuronal network activity. It calls the cultures primary cortical microtissues, not organoids. Citation 41 is attached to the LPS portion of the citing sentence, not its separate description of cytokine stimulation in 2D cultures. (LLM, conf=0.86)
Experimental — accuracy not yet measured
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Cites
Cell diversity and network dynamics in photosensitive human brain organoids
Quadrato, G., Nguyen, T., Macosko, E. Z., Sherwood, J. L., Min Yang, S., Berger, D. R., Maria, N., Scholvin, J., Goldman, M., Kinney, J. P., et al. (2017) · Nature · doi:10.1038/nature22047 · Cited by 1,321 · see citing works
Spheroid culture as a tool for creating 3D complex tissues
Fennema, E., Rivron, N., Rouwkema, J., van Blitterswijk, C., & de Boer, J. (2013) · Trends in Biotechnology · doi:10.1016/j.tibtech.2012.12.003 · Cited by 1,054 · see citing works
Trujillo, C. A., Gao, R., Negraes, P. D., Gu, J., Buchanan, J., Preissl, S., Wang, A., Wu, W., Haddad, G. G., Chaim, I. A., et al. (2019) · Cell Stem Cell · doi:10.1016/j.stem.2019.08.002 · Cited by 974 · see citing works
Microglia: Dynamic Mediators of Synapse Development and Plasticity
Wu, Y., Dissing-Olesen, L., MacVicar, B. A., & Stevens, B. (2015) · Trends in Immunology · doi:10.1016/j.it.2015.08.008 · Cited by 661 · see citing works
Began, J., Cordier, B., Březinová, J., Delisle, J., Hexnerová, R., Srb, P., Rampírová, P., Kožíšek, M., Baudet, M., Couté, Y., et al. (2020) · The EMBO Journal · doi:10.15252/embj.2019102935 · Cited by 55 · see citing works
Flagged first, then by citations
Research works printed but not linked: 62
- [1]Rubashkin MG Ou G Weaver VM Deconstructing signaling in three dimensions Biochemistry 2014 53 2078 2090 10.1021/bi401710d 24649923 PMC3985742 · DOI
- [2]Sorokin L The impact of the extracellular matrix on inflammation Nat. Rev. Immunol. 2010 10 712 723 10.1038/nri2852 20865019 · DOI
- [3]Xiang Y Fusion of regionally specified hPSC-derived organoids models human brain development and interneuron migration Cell Stem Cell 2017 21 383 398.e7 10.1016/j.stem.2017.07.007 28757360 PMC5720381 · DOI
- [5]Severino FPU The role of dimensionality in neuronal network dynamics Sci. Rep. 2016 6 1 14 10.1038/s41598-016-0001-8 27404281 PMC4939604 · DOI · Paper page
- [6]Lancaster MA Cerebral organoids model human brain development and microcephaly Nature 2013 501 373 379 10.1038/nature12517 23995685 PMC3817409 · DOI · Paper page
- [7]Dingle YTL Functional characterization of three-dimensional cortical cultures for in vitro modeling of brain networks Science 2020 23 101434 PMC7452433 32805649
- [8]Frampton JP Hynd MR Shuler ML Shain W Fabrication and optimization of alginate hydrogel constructs for use in 3D neural cell culture Biomed. Mater. 2011 6 015002 10.1088/1748-6041/6/1/015002 21205998 · DOI
- [9]Kim YH A 3D human neural cell culture system for modeling Alzheimer’s disease Nat. Protoc. 2015 10 985 1006 10.1038/nprot.2015.065 26068894 PMC4499058 · DOI · Paper page
- [10]Bar-Kochba E Scimone MT Estrada JB Franck C Strain and rate-dependent neuronal injury in a 3D in vitro compression model of traumatic brain injury Sci. Rep. 2016 6 1 11 10.1038/srep30550 27480807 PMC4969749 · DOI
- [11]Adewole DO Development of optically controlled ‘living electrodes’ with long-projecting axon tracts for a synaptic brain-machine interface Sci. Adv. 2021 7 1 16 10.1126/sciadv.aay5347 33523957 · DOI
- [12]Sarker MD Naghieh S Sharma NK Chen X 3D biofabrication of vascular networks for tissue regeneration: A report on recent advances J. Pharm. Anal. 2018 8 277 296 10.1016/j.jpha.2018.08.005 30345141 PMC6190507 · DOI
- [13]Dingle YL Three-dimensional neural spheroid culture: An in vitro model for cortical studies Tissue Eng. Part C Methods 2015 21 1274 1283 10.1089/ten.tec.2015.0135 26414693 PMC4663656 · DOI
- [14]Boutin ME A three-dimensional neural spheroid model for capillary-like network formation J. Neurosci. Methods 2016 10.1016/j.jneumeth.2017.01.014 28143748 · DOI
- [15]Lam D Tissue-specific extracellular matrix accelerates the formation of neural networks and communities in a neuron-glia co-culture on a multi-electrode array Sci. Rep. 2019 9 1 15 10.1038/s41598-018-37186-2 30858401 PMC6411890 · DOI · Paper page
- [17]Anderl JL Redpath S Ball AJ A neuronal and astrocyte co-culture assay for high content analysis of neurotoxicity cell preparation: Cell fixation and immunofluorescent staining: Image acquisition and analysis: Analysis J. Vis. Exp. 2009 10.3791/1173 19417729 PMC3253581 · DOI
- [18]Goshi N Morgan RK Lein PJ Seker E A primary neural cell culture model for neuroinflammation biorxiv 2020 10.1101/2020.01.23.914226 PMC7216677 32393376 · DOI
- [19]Poli D Pastore VP Massobrio P Functional connectivity in in vitro neuronal assemblies Front. Neural Circuits 2015 9 1 14 10.3389/fncir.2015.00057 26500505 PMC4595785 · DOI
- [20]Wagenaar DA Pine J Potter SM An extremely rich repertoire of bursting patterns during the development of cortical cultures BMC Neurosci. 2006 7 11 10.1186/1471-2202-7-11 16464257 PMC1420316 · DOI
- [22]Kang WH Alterations in hippocampal network activity after in vitro traumatic brain injury J. Neurotrauma 2015 32 1011 1019 10.1089/neu.2014.3667 25517970 PMC5685195 · DOI
- [23]Li Y Characterization of synchronized bursts in cultured hippocampal neuronal networks with learning training on microelectrode arrays Biosens. Bioelectron. 2007 22 2976 2982 10.1016/j.bios.2006.12.018 17240134 · DOI
- [24]Chen TW Ultrasensitive fluorescent proteins for imaging neuronal activity Nature 2013 499 295 300 10.1038/nature12354 23868258 PMC3777791 · DOI · Paper page
- [25]Sakaguchi H Self-organized synchronous calcium transients in a cultured human neural network derived from cerebral organoids Stem Cell Rep. 2019 13 458 473 10.1016/j.stemcr.2019.05.029 PMC6739638 31257131 · DOI
- [26]Tian Y An excitatory neural assembly encodes short-term memory in the prefrontal cortex Cell Rep. 2018 22 1734 1744 10.1016/j.celrep.2018.01.050 29444427 · DOI
- [27]Ellwardt E Maladaptive cortical hyperactivity upon recovery from experimental autoimmune encephalomyelitis Nat. Neurosci. 2018 21 1392 1403 10.1038/s41593-018-0193-2 30258239 · DOI
- [28]Rosales Jubal E Acitretin reverses early functional network degradation in a mouse model of familial Alzheimer’s disease Sci. Rep. 2021 11 1 16 10.1038/s41598-021-85912-0 33758244 PMC7988040 · DOI · Paper page
- [29]Palazzolo G Fast wide-volume functional imaging of engineered in vitro brain tissues Sci. Rep. 2017 7 8499 10.1038/s41598-017-08979-8 28819205 PMC5561227 · DOI
- [30]Clarkson BDS Kahoud RJ McCarthy CB Howe CL Inflammatory cytokine-induced changes in neural network activity measured by waveform analysis of high-content calcium imaging in murine cortical neurons Sci. Rep. 2017 7 1 13 10.1038/s41598-016-0028-x 28831096 PMC5567248 · DOI · Paper page
- [31]Bullmore E Sporns O Complex brain networks: Graph theoretical analysis of structural and functional systems Nat. Rev. Neurosci. 2009 10 186 198 10.1038/nrn2575 19190637 · DOI · Paper page
- [32]Feldt S Bonifazi P Cossart R Dissecting functional connectivity of neuronal microcircuits: Experimental and theoretical insights Trends Neurosci. 2011 34 225 236 10.1016/j.tins.2011.02.007 21459463 · DOI
- [33]Arnoux I Metformin reverses early cortical network dysfunction and behavior changes in Huntington’s disease Elife 2018 7 1 32 10.7554/eLife.38744 PMC6156080 30179155 · DOI
- [34]Schell JY Harnessing cellular-derived forces in self-assembled microtissues to control the synthesis and alignment of ECM Biomaterials 2016 77 120 129 10.1016/j.biomaterials.2015.10.080 26610075 · DOI
- [35]Redondo-Castro E Changes in the secretome of tri-dimensional spheroid-cultured human mesenchymal stem cells in vitro by interleukin-1 priming Stem Cell Res. Ther. 2018 9 1 11 10.1186/s13287-017-0753-5 29343288 PMC5773162 · DOI
- [36]Smith PLP Hagberg H Naylor AS Mallard C Neonatal peripheral immune challenge activates microglia and inhibits neurogenesis in the developing murine hippocampus Dev. Neurosci. 2014 36 119 131 10.1159/000359950 24642725 · DOI
- [37]Qin L Systemic LPS causes chronic neuroinflammation and progressive neurodegeneration Glia 2007 55 453 462 10.1002/glia.20467 17203472 PMC2871685 · DOI · Paper page
- [38]Leary E Rhee C Wilks BT Morgan JR Quantitative live-cell confocal imaging of 3d spheroids in a high-throughput format SLAS Technol. 2018 23 231 242 10.1177/2472630318756058 29412762 PMC5962438 · DOI
- [39]Kügler S Kilic E Bähr M Human synapsin 1 gene promoter confers highly neuron-specific long-term transgene expression from an adenoviral vector in the adult rat brain depending on the transduced area Gene Ther. 2003 10 337 347 10.1038/sj.gt.3301905 12595892 · DOI
- [40]Patel TP Man K Firestein BL Meaney DF Automated quantification of neuronal networks and single-cell calcium dynamics using calcium imaging J. Neurosci. Methods 2015 243 26 38 10.1016/j.jneumeth.2015.01.020 25629800 PMC5553047 · DOI
- [41]Nelson CJ Bonner S Neuronal graphs: A graph theory primer for microscopic, functional networks of neurons recorded by Calcium imaging Front. Neural Circuits 2020 15 1 28 PMC8222695 34177469
- [42]Watts DJ Strogatz SH Collective dynamics of ‘small-world’ networks Nature 1998 393 440 442 10.1038/30918 9623998 · DOI · Paper page
- [43]Onnela JP Saramäki J Kertész J Kaski K Intensity and coherence of motifs in weighted complex networks Phys. Rev. E Stat. Nonlinear Soft Matter Phys. 2005 71 1 4 10.1103/PhysRevE.71.065103 16089800 · DOI
- [44]Muldoon SF Bridgeford EW Bassett DS Small-world propensity and weighted brain networks Sci. Rep. 2016 6 1 13 10.1038/srep22057 26912196 PMC4766852 · DOI
- [45]Downes JH Emergence of a small-world functional network in cultured neurons PLoS Comput. Biol. 2012 8 e1002522 10.1371/journal.pcbi.1002522 22615555 PMC3355061 · DOI
- [46]Shahaf G Marom S Learning in networks of cortical neurons J. Neurosci. 2001 21 8782 8788 10.1523/JNEUROSCI.21-22-08782.2001 11698590 PMC6762268 · DOI
- [47]Newman MEJ Modularity and community structure in networks Proc. Natl. Acad. Sci. U. S. A. 2006 103 8577 8582 10.1073/pnas.0601602103 16723398 PMC1482622 · DOI · Paper page
- [48]Pulido-Salgado M Vidal-Taboada JM Barriga GGD Solà C Saura J RNA-Seq transcriptomic profiling of primary murine microglia treated with LPS or LPS + IFNγ Sci. Rep. 2018 8 1 21 10.1038/s41598-018-34412-9 30382133 PMC6208373 · DOI
- [49]Labrenz F Alterations in functional connectivity of resting state networks during experimental endotoxemia: An exploratory study in healthy men Brain. Behav. Immun. 2016 54 17 26 10.1016/j.bbi.2015.11.010 26597151 · DOI
- [50]Liu Y Elamipretide (SS-31) improves functional connectivity in hippocampus and other related regions following prolonged neuroinflammation induced by lipopolysaccharide in aged rats Front. Aging Neurosci. 2021 13 1 19 PMC7956963 33732135
- [51]Albrecht MA Vaughn CN Erickson MA Clark SM Tonelli LH Time and frequency dependent changes in resting state EEG functional connectivity following lipopolysaccharide challenge in rats PLoS ONE 2018 13 1 19 10.1371/journal.pone.0206985 PMC6231634 30418990 · DOI
- [52]Gao F Liu Z Ren W Jiang W Acute lipopolysaccharide exposure facilitates epileptiform activity via enhanced excitatory synaptic transmission and neuronal excitability in vitro Neuropsychiatr. Dis. Treat. 2014 10 1489 1495 10.2147/NDT.S65695 25170268 PMC4144925 · DOI
- [53]Zhao J Neuroinflammation induced by lipopolysaccharide causes cognitive impairment in mice Sci. Rep. 2019 9 1 12 10.1038/s41598-018-37186-2 30962497 PMC6453933 · DOI · Paper page
- [54]Sheppard O Coleman MP Durrant CS Lipopolysaccharide-induced neuroinflammation induces presynaptic disruption through a direct action on brain tissue involving microglia-derived interleukin 1 beta J. Neuroinflammation 2019 16 1 13 10.1186/s12974-019-1490-8 31103036 PMC6525970 · DOI
- [55]Scott-Hewitt N Local externalization of phosphatidylserine mediates developmental synaptic pruning by microglia EMBO J. 2020 39 1 20 10.15252/embj.2020105380 PMC7429741 32657463 · DOI
- [56]Schroeter MS Charlesworth P Kitzbichler MG Paulsen O Bullmore ET Emergence of rich-club topology and coordinated dynamics in development of hippocampal functional networks In vitro J. Neurosci. 2015 35 5459 5470 10.1523/JNEUROSCI.4259-14.2015 25855164 PMC4388914 · DOI
- [57]Murphy TH Blatter LA Wier WG Barabanls JM Spontaneous synchronous cortical neurons synaptic calcium transients in cultured J. Neurosci. 1992 2 4834 4845 10.1523/JNEUROSCI.12-12-04834.1992 PMC6575780 1361198 · DOI
- [58]Lee S Jones SR Distinguishing mechanisms of gamma frequency oscillations in human current source signals using a computational model of a laminar neocortical network Front. Hum. Neurosci. 2013 7 1 19 24385958 PMC3866567
- [59]Legrand EK An evolutionary perspective of endotoxin: A signal for a well-adapted defense system Med. Hypotheses 1990 33 49 56 10.1016/0306-9877(90)90084-R 2255275 · DOI
- [60]Stellwagen D Malenka RC Synaptic scaling mediated by glial TNF-α Nature 2006 440 1054 1059 10.1038/nature04671 16547515 · DOI · Paper page
- [61]Suárez-Calvet M sTREM 2 cerebrospinal fluid levels are a potential biomarker for microglia activity in early-stage Alzheimer’s disease and associate with neuronal injury markers EMBO Mol. Med. 2016 8 466 476 10.15252/emmm.201506123 26941262 PMC5120370 · DOI · Paper page
- [62]Gaire J The role of inflammation on the functionality of intracortical microelectrodes J. Neural Eng. 2018 15 066027 10.1088/1741-2552/aae4b6 30260321 · DOI
- [63]Moraes CA Activated microglia-induced deficits in excitatory synapses through il-1β: Implications for cognitive impairment in sepsis Mol. Neurobiol. 2015 52 653 663 10.1007/s12035-014-8868-5 25257696 · DOI · Paper page
- [65]Joshi YB Giannopoulos PF Chu J Praticò D Modulation of lipopolysaccharide-induced memory insult, γ-secretase, and neuroinflammation in triple transgenic mice by 5-lipoxygenase Neurobiol. Aging 2014 35 1024 1031 10.1016/j.neurobiolaging.2013.11.016 24332986 PMC3948206 · DOI
- [66]Abbott NJ Inflammatory mediators and modulation of blood-brain barrier permeability Cell Mol. Neurobiol. 2000 20 131 147 10.1023/A:1007074420772 10696506 PMC11537513 · DOI
Cited by
Sorted by citations
Varicose projection astrocytes: Conserved reactive cells in brain pathology
Ciani, C., Pistorio, G., Giancola, S., Mearelli, M., Mongelli, F. E., Forouzeh, D., Campos Soares, L., Gonzalez Martin, M., Lichtenstein, M. E., Mio, L., et al. (2026) · Science Advances · doi:10.1126/sciadv.ady8204 · Cited by 4 · see citing works
- Authors
- Atherton, E., Brown, S., Papiez, E., Restrepo, M. I., & Borton, D. A.
- Affiliations
- Brown University (US)
- Corresponding author
- Borton, David A.
- Venue
- Scientific Reports
- Published
- 2021-11-16
- Volume
- 11
- Issue
- 1
- Pages
- 22303-22303
- ISSN
- 2045-2322 (ISSN-L)
- PMC
- PMC8595892
- OpenAlex
- W3212643714
- Cited by
- 10
- References
- 5
- Citations by year
- 2026: 4 · 2025: 2 · 2023: 2 · 2022: 1 · 2021: 1
- FWCI
- 0.40
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Locations
- Scientific Reports (publishedVersion, cc-by)
- bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
- Funders
- Brown University (Internal)
- U.S. Department of Veterans Affairs (N2864-C)
- Topics
- Life Sciences › Neuroscience › Neurology › Neuroinflammation and Neurodegeneration Mechanisms
- Life Sciences › Neuroscience › Cellular and Molecular Neuroscience › Neuroscience and Neuropharmacology Research
- Life Sciences › Neuroscience › Cognitive Neuroscience › Neural dynamics and brain function
- Keywords
- neuroinflammation, lipopolysaccharide, functional connectivity, community structure, neural microcircuits, calcium imaging, graph theory, spontaneous calcium transients, network dynamics
- MeSH terms
- Neuroinflammatory Diseases, Animals, Brain, Female, Lipopolysaccharides, Neural Pathways, Rats, Sprague-Dawley, Rats
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.
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.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review