Cited by 174Neonatal and fetal brain pathologyNeurogenesis and neuroplasticity mechanismsFetal and Pediatric Neurological Disorders

Human 3D cellular model of hypoxic brain injury of prematurity

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Pașca, Anca M., Park, Jin-Young, Shin, Hyun-Woo, Qi, Qihao, Revah, Omer, Krasnoff, Rebecca, O’Hara, Ruth, Willsey, A. Jeremy +2 more·2019·Nature Medicine

Abstract

Owing to recent medical and technological advances in neonatal care, infants born extremely premature have increased survival rates 1,2. After birth, these infants are at high risk of hypoxic episodes because of lung immaturity, hypotension and lack of cerebral-flow regulation, and can develop a severe condition called encephalopathy of prematurity 3. Over 80% of infants born before post-conception week 25 have moderate-to-severe long-term neurodevelopmental impairments 4. The susceptible cell types in the cerebral cortex and the molecular mechanisms underlying associated gray-matter defects in premature infants remain unknown. Here we used human three-dimensional brain-region-specific organoids to study the effect of oxygen deprivation on corticogenesis. We identified specific defects in intermediate progenitors, a cortical cell type associated with the expansion of the human cerebral cortex, and showed that these are related to the unfolded protein response and changes. Moreover, we verified these findings in human primary cortical tissue and demonstrated that a small-molecule modulator of the unfolded protein response pathway can prevent the reduction in intermediate progenitors following hypoxia. We anticipate that this human cellular platform will be valuable for studying the environmental and genetic factors underlying injury in the developing human brain.

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  • These microglia/organoid models still suffer from variation of organoid size and composition, confounds stemming from organoid hypoxia/necrosis, and physical damage from microglia injection.

    “However, these microglia/organoid models still suffer from (1) variation of organoid size and composition; (2) confounds stemming from organoid hypoxia/necrosis; and (3) physical damage from microglia injection.29–31”

    From Tubular human brain organoids to model microglia-mediated neuroinflammation (2021) · cites this paper as [31]

    The study-limitations passage (section labeled Abstract; page unavailable) says this model does not include microglia and proposes incorporating them in future models. Our copy discusses experimentally induced hypoxia, but does not identify organoid hypoxia or necrosis as a confound of microglia/organoid models. Searches for size and composition variation and damage from microglia injection likewise found no supporting passage. (LLM, conf=0.78)

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  1. [1]Penn AA, Gressens P, Fleiss B, Back SA & Gallo V Controversies in preterm brain injury. Neurobiol Dis 92, 90– 101 (2016). 26477300 PMC4842157
  2. [2]Volpe JJ Brain injury in premature infants: a complex amalgam of destructive and developmental disturbances. The Lancet. Neurology 8, 110– 124 (2009). 19081519 PMC2707149
  3. [3]Volpe JJ The encephalopathy of prematurity--brain injury and impaired brain development inextricably intertwined. Semin Pediatr Neurol 16, 167– 178 (2009). 19945651 PMC2799246
  4. [5]Salmaso N, Jablonska B, Scafidi J, Vaccarino FM & Gallo V Neurobiology of premature brain injury. Nat Neurosci 17, 341– 346 (2014). 24569830 PMC4106480
  5. [6]Sousa AMM, Meyer KA, Santpere G, Gulden FO & Sestan N Evolution of the Human Nervous System Function, Structure, and Development. Cell 170, 226– 247 (2017). 28708995 PMC5647789
  6. [7]Pasca SP The rise of three-dimensional human brain cultures. Nature 553, 437– 445 (2018). 29364288
  7. [8]Sloan SA, Andersen J, Pasca AM, Birey F & Pasca SP Generation and assembly of human brain region-specific three-dimensional cultures. Nat Protoc (2018). PMC6597009 30202107
  8. [12]Arshad A, Extended Production of Cortical Interneurons into the Third Trimester of Human Gestation. Cereb Cortex 26, 2242– 2256 (2016). 25882040 PMC4830297
  9. [13]Zecevic N, Chen Y & Filipovic R Contributions of cortical subventricular zone to the development of the human cerebral cortex. The Journal of comparative neurology 491, 109– 122 (2005). 16127688 PMC2628573
  10. [14]Malik S, Neurogenesis continues in the third trimester of pregnancy and is suppressed by premature birth. J Neurosci 33, 411– 423 (2013). 23303921 PMC3711635
  11. [16]Miller JA, Transcriptional landscape of the prenatal human brain. Nature 508, 199– 206 (2014). 24695229 PMC4105188
  12. [18]Wagenfuhr L, Meyer AK, Braunschweig L, Marrone L & Storch A Brain oxygen tension controls the expansion of outer subventricular zone-like basal progenitors in the developing mouse brain. Development 142, 2904– 2915 (2015). 26329599
  13. [19]Stuart JM, Segal E, Koller D & Kim SK A gene-coexpression network for global discovery of conserved genetic modules. Science 302, 249– 255 (2003). 12934013
  14. [21]Zhang B & Horvath S A general framework for weighted gene co-expression network analysis. Statistical applications in genetics and molecular biology 4, Article17 (2005). 16646834
  15. [22]Wang M & Kaufman RJ Protein misfolding in the endoplasmic reticulum as a conduit to human disease. Nature 529, 326– 335 (2016). 26791723
  16. [23]Fels DR & Koumenis C The PERK/eIF2alpha/ATF4 module of the UPR in hypoxia resistance and tumor growth. Cancer Biol Ther 5, 723– 728 (2006). 16861899
  17. [24]Laguesse S, A Dynamic Unfolded Protein Response Contributes to the Control of Cortical Neurogenesis. Dev Cell 35, 553– 567 (2015). 26651292
  18. [25]Sidrauski C, Pharmacological brake-release of mRNA translation enhances cognitive memory. eLife 2, e00498 (2013). 23741617 PMC3667625
  19. [26]Sidrauski C, Pharmacological dimerization and activation of the exchange factor eIF2B antagonizes the integrated stress response. eLife 4, e07314 (2015). 25875391 PMC4426669
  20. [27]Zyryanova AF, Binding of ISRIB reveals a regulatory site in the nucleotide exchange factor eIF2B. Science 359, 1533– 1536 (2018). 29599245 PMC5889100
  21. [28]Wang H, Tunicamycin-induced unfolded protein response in the developing mouse brain. Toxicol Appl Pharmacol 283, 157– 167 (2015). 25620058 PMC4361256
  22. [29]Javaherian A & Kriegstein A A stem cell niche for intermediate progenitor cells of the embryonic cortex. Cereb Cortex 19 Suppl 1, i70– 77 (2009). 19346271 PMC2693531
  23. [30]Ortega JA, Sirois CL, Memi F, Glidden N & Zecevic N Oxygen Levels Regulate the Development of Human Cortical Radial Glia Cells. Cereb Cortex 27, 3736– 3751 (2017). 27600849 PMC6075453
  24. [31]Pollen AA, Molecular identity of human outer radial glia during cortical development. Cell 163, 55– 67 (2015). 26406371 PMC4583716
  25. [32]Godin JD, Creppe C, Laguesse S & Nguyen L Emerging Roles for the Unfolded Protein Response in the Developing Nervous System. Trends in neurosciences 39, 394– 404 (2016). 27130659
  26. [33]Jantzie LL & Robinson S Preclinical Models of Encephalopathy of Prematurity. Developmental neuroscience 37, 277– 288 (2015). 25722056 PMC4514537
  27. [35]Soothill PW, Nicolaides KH, Rodeck CH & Gamsu H Blood gases and acid-base status of the human second-trimester fetus. Obstet Gynecol 68, 173– 176 (1986). 3090491
  28. [36]Lacaille H, Impaired Interneuron Development in a Novel Model of Neonatal Brain Injury. eNeuro 6(2019). PMC6390196 30809588
  29. [37]Robinson S, Li Q, Dechant A & Cohen ML Neonatal loss of gamma-aminobutyric acid pathway expression after human perinatal brain injury. J Neurosurg 104, 396– 408 (2006). 16776375 PMC1762128
  30. [41]Paşca SP, Using iPSC-derived neurons to uncover cellular phenotypes associated with Timothy syndrome. Nat Med 17, 1657– 1662 (2011). 22120178 PMC3517299
  31. [42]Lui JH, Radial glia require PDGFD-PDGFRbeta signalling in human but not mouse neocortex. Nature 515, 264– 268 (2014). 25391964 PMC4231536
  32. [43]Dobin A, STAR: ultrafast universal RNA-seq aligner. Bioinformatics 29, 15– 21 (2013). 23104886 PMC3530905
  33. [44]Anders S, Pyl PT & Huber W HTSeq--a Python framework to work with high-throughput sequencing data. Bioinformatics 31, 166– 169 (2015). 25260700 PMC4287950
  34. [46]McCarthy DJ, Chen Y & Smyth GK Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation. Nucleic Acids Res 40, 4288– 4297 (2012). 22287627 PMC3378882
  35. [47]Robinson MD, McCarthy DJ & Smyth GK edgeR: a Bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics 26, 139– 140 (2010). 19910308 PMC2796818
  36. [49]Chen J, Bardes EE, Aronow BJ & Jegga AG ToppGene Suite for gene list enrichment analysis and candidate gene prioritization. Nucleic Acids Res 37, W305– 311 (2009). 19465376 PMC2703978
  37. [50]Langfelder P & Horvath S WGCNA: an R package for weighted correlation network analysis. BMC bioinformatics 9, 559 (2008). 19114008 PMC2631488

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Authors
Pașca, A. M., Park, J.-Y., Shin, H.-W., Qi, Q., Revah, O., Krasnoff, R., O’Hara, R., Willsey, A. J., Palmer, T. D., & Pașca, S. P.
Affiliations
  • Stanford Medicine (US)
  • Stanford University (US)
  • Seoul National University (KR)
  • University of California, San Francisco (US)
Corresponding author
Pașca, Sergiu P.
Venue
Nature Medicine
Published
2019-05
Volume
25
Issue
5
Pages
784-791
ISSN
  • 1078-8956 (ISSN-L)
  • 1546-170X
OpenAlex
W2942868704
Cited by
174
References
13
Citations by year
2026: 18 · 2025: 28 · 2024: 17 · 2023: 21 · 2022: 33 · 2021: 24 · 2020: 23 · 2019: 10
FWCI
23.40
Type
journal article
Language
en
Open access
Locations
  • Nature Medicine (publishedVersion)
  • PubMed (publishedVersion)
  • PubMed Central (acceptedVersion)
  • eScholarship (California Digital Library) (submittedVersion)
Funders
  • National Institute of Mental Health (R01MH108660, R01MH108659, R01MH107800)
  • Eunice Kennedy Shriver National Institute of Child Health and Human Development (K12HD000850)
Topics
  • Health Sciences › Medicine › Pediatrics, Perinatology and Child Health › Neonatal and fetal brain pathology
  • Life Sciences › Neuroscience › Developmental Neuroscience › Neurogenesis and neuroplasticity mechanisms
  • Health Sciences › Medicine › Pediatrics, Perinatology and Child Health › Fetal and Pediatric Neurological Disorders
Keywords
encephalopathy of prematurity, hypoxic brain injury, preterm birth, brain organoids, cortical development, intermediate progenitor cells, unfolded protein response, oxygen deprivation, small molecule modulators, iPSC-derived neurons, neurodevelopmental impairment
MeSH terms
Brain Injuries, Hypoxia, Brain, Cerebral Cortex, Humans, Infant, Newborn, Models, Neurological, Organoids, Cell Hypoxia, T-Box Domain Proteins, Neurogenesis, Unfolded Protein Response, Neural Stem Cells, Infant, Extremely Premature

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