Rethinking organoid technology through bioengineering
Source abstract
Abstract
In recent years considerable progress has been made in the development of faithful procedures for the differentiation of human pluripotent stem cells (hPSCs). An important step in this direction has also been the derivation of organoids. This technology generally relies on traditional three-dimensional culture techniques that exploit cell-autonomous self-organization responses of hPSCs with minimal control over the external inputs supplied to the system. The convergence of stem cell biology and bioengineering offers the possibility to provide these stimuli in a controlled fashion, resulting in the development of naturally inspired approaches to overcome major limitations of this nascent technology. Based on the current developments, we emphasize the achievements and ongoing challenges of bringing together hPSC organoid differentiation, bioengineering and ethics. This Review underlines the need for providing engineering solutions to gain control of self-organization and functionality of hPSC-derived organoids. We expect that this knowledge will guide the community to generate higher-grade hPSC-derived organoids for further applications in developmental biology, drug screening, disease modelling and personalized medicine.
Source: europepmc · Quality: candidate unverified · Source record ↗
Research context
OpenAlex topics: Pluripotent Stem Cells Research · 3D Printing in Biomedical Research · Renal and related cancers
SciVX discovery tags are terminology-based. OpenAlex topics are source-provided classifications.
References (100+)
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1. Rudnick, D. Regulation and localization in the hind limb bud of the chick embryo. Anat. Rec. 94, 492 (1946).
2. Saunders, J. W. An experimental study of the distribution, orientation, and tract specificity of feather germs in the wing of the chick embryo. Anat. Rec. 99, 647 (1947).
3. Moscona, A. & Moscona, H. The dissociation and aggregation of cells from organ rudiments of the early chick embryo. J. Anat. 86, 287–301 (1952).
4. Weiss P, T. A. Reconstitution of complete organs from single-cell suspensions of chick embryos in advanced stages of differentiation. Proc. Natl Acad. Sci. USA 46, 1177–1185 (1960).10.1073/pnas.46.9.1177 ↗
5. Auerbach, R. & Grobstein, C. Inductive interaction of embryonic tissues after dissociation and reaggregation. Exp. Cell Res. 15, 384–397 (1958).10.1016/0014-4827(58)90039-9 ↗
6. Simian, M. & Bissell, M. J. Organoids: a historical perspective of thinking in three dimensions. J. Cell Biol. 216, 31–40 (2017).10.1083/jcb.201610056 ↗
7. Sato, T. et al. Single Lgr5 stem cells build crypt-villus structures in vitro without a mesenchymal niche. Nature 459, 262–265 (2009).10.1038/nature07935 ↗
8. Clevers, H. Modeling development and disease with organoids. Cell 165, 1586–1597 (2016).10.1016/j.cell.2016.05.082 ↗
9. Xia, Y. & Izpisua Belmonte, J. C. Design approaches for generating organ constructs. Cell Stem Cell 24, 877–894 (2019).10.1016/j.stem.2019.05.016 ↗
10. Thomson, Ja. et al. Embryonic stem cell lines derived from human blastocysts. Science 282, 1145–1147 (1998).10.1126/science.282.5391.1145 ↗
11. Takahashi, K. et al. Induction of pluripotent stem cells from adult human fibroblasts by defined factors. Cell 131, 861–872 (2007).10.1016/j.cell.2007.11.019 ↗
12. Eiraku, M. et al. Self-organized formation of polarized cortical tissues from ESCs and its active manipulation by extrinsic signals. Cell Stem Cell 3, 519–532 (2008).10.1016/j.stem.2008.09.002 ↗
13. Nakano, T. et al. Self-formation of optic cups and storable stratified neural retina from human ESCs. Cell Stem Cell 10, 771–785 (2012).10.1016/j.stem.2012.05.009 ↗
14. Lancaster, M. A. et al. Cerebral organoids model human brain development and microcephaly. Nature 501, 373–379 (2013).10.1038/nature12517 ↗
15. Quadrato, G. et al. Cell diversity and network dynamics in photosensitive human brain organoids. Nature 545, 48–53 (2017).10.1038/nature22047 ↗
16. Pasca, A. M. et al. Functional cortical neurons and astrocytes from human pluripotent stem cells in 3D culture. Nat. Methods 12, 671–678 (2015).10.1038/nmeth.3415 ↗
17. Sakaguchi, H. et al. Generation of functional hippocampal neurons from self-organizing human embryonic stem cell-derived dorsomedial telencephalic tissue. Nat. Commun. 6, 8896 (2015).10.1038/ncomms9896 ↗
18. Takasato, M. et al. Kidney organoids from human iPS cells contain multiple lineages and model human nephrogenesis. Nature 526, 564–568 (2015).10.1038/nature15695 ↗
19. Spence, J. R. et al. Directed differentiation of human pluripotent stem cells into intestinal tissue in vitro. Nature 470, 105–110 (2011).10.1038/nature09691 ↗
20. Dye, B. R. et al. In vitro generation of human pluripotent stem cell derived lung organoids. eLife 2015, e05098 (2015).
21. Koehler, K. R. et al. Generation of inner ear organoids containing functional hair cells from human pluripotent stem cells. Nat. Biotechnol. 35, 583–589 (2017).10.1038/nbt.3840 ↗
22. Lancaster, M. A. & Knoblich, J. A. Organogenesis in a dish: modeling development and disease using organoid technologies. Science 345, 1247125 (2014).10.1126/science.1247125 ↗
23. Armstrong, P. B. Cell sorting out: the self-assembly of tissues in vitro. Crit. Rev. Biochem. Mol. Biol. 24, 119–149 (1989).10.3109/10409238909086396 ↗
24. van Den Brink, S. C. et al. Symmetry breaking, germ layer specification and axial organisation in aggregates of mouse embryonic stem cells. Develeopment 141, 4231–4242 (2014).
25. Ten Berge, D. et al. Wnt signaling mediates self-organization and axis formation in embryoid bodies. Cell Stem Cell 3, 508–518 (2008).10.1016/j.stem.2008.09.013 ↗
26. van den Brink, S. C. et al. Single-cell and spatial transcriptomics reveal somitogenesis in gastruloids. Nature 582, 405–409 (2020).10.1038/s41586-020-2024-3 ↗
27. Dessaud, E., McMahon, A. P. & Briscoe, J. Pattern formation in the vertebrate neural tube: a sonic hedgehog morphogen-regulated transcriptional network. Development 135, 2489–2503 (2008).10.1242/dev.009324 ↗
28. Meinhardt, A. et al. 3D reconstitution of the patterned neural tube from embryonic stem cells. Stem Cell Reports 3, 987–999 (2014).10.1016/j.stemcr.2014.09.020 ↗
29. Renner, M. et al. Self‐organized developmental patterning and differentiation in cerebral organoids. EMBO J. 36, 1316–1329 (2017).10.15252/embj.201694700 ↗
30. Barker, N. et al. Identification of stem cells in small intestine and colon by marker gene Lgr5. Nature 449, 1003–1007 (2007).10.1038/nature06196 ↗
31. Rakic, P. Extrinsic cytological determinants of basket and stellate cell dendritic pattern in the cerebellar molecular layer. J. Comp. Neurol. 146, 335–354 (1972).10.1002/cne.901460304 ↗
32. Volpato, V. et al. Reproducibility of Molecular Phenotypes after Long-Term Differentiation to Human iPSC-derived neurons: a multi-site omics study. Stem Cell Reports 11, 897–911 (2018).10.1016/j.stemcr.2018.08.013 ↗
33. Phipson, B. et al. Evaluation of variability in human kidney organoids. Nat. Methods 16, 79–87 (2019).10.1038/s41592-018-0253-2 ↗
34. Warmflash, A., Sorre, B., Etoc, F., Siggia, E. D. & Brivanlou, A. H. A method to recapitulate early embryonic spatial patterning in human embryonic stem cells. Nat. Methods 11, 847–854 (2014).10.1038/nmeth.3016 ↗
35. Martyn, I., Kanno, T. Y., Ruzo, A., Siggia, E. D. & Brivanlou, A. H. Self-organization of a human organizer by combined Wnt and nodal signaling. Nature 558, 132–135 (2018).10.1038/s41586-018-0150-y ↗
36. Ma, Z. et al. Self-organizing human cardiac microchambers mediated by geometric confinement. Nat. Commun. 6, 7413 (2015).
37. Kim, H. Y. & Nelson, C. M. Extracellular matrix and cytoskeletal dynamics during branching morphogenesis. Organogenesis 8, 56–64 (2012).10.4161/org.19813 ↗
38. Vianello, S. & Lutolf, M. P. Understanding the mechanobiology of early mammalian development through bioengineered models. Dev. Cell 48, 751–763 (2019).10.1016/j.devcel.2019.02.024 ↗
39. Cruz-Acuña, R. et al. Synthetic hydrogels for human intestinal organoid generation and colonic wound repair. Nat. Cell Biol. 19, 1326–1335 (2017).10.1038/ncb3632 ↗
40. Garreta, E. et al. Fine tuning the extracellular environment accelerates the derivation of kidney organoids from human pluripotent stem cells. Nat. Mater. 18, 397–405 (2019).10.1038/s41563-019-0287-6 ↗
41. Lancaster, M. A. et al. Guided self-organization and cortical plate formation in human brain organoids. Nat. Biotechnol. 35, 659–666 (2017).10.1038/nbt.3906 ↗
42. Storm, C., Pastore, J. J., MacKintosh, F. C., Lubensky, T. C. & Janmey, P. A. Nonlinear elasticity in biological gels. Nature 435, 191–194 (2005).10.1038/nature03521 ↗
43. Uzel, S. G. M. et al. Simultaneous or sequential orthogonal gradient formation in a 3D cell culture microfluidic platform. Small 12, 612–622 (2016).10.1002/smll.201501905 ↗
44. Manfrin, A. et al. Engineered signaling centers for the spatially controlled patterning of human pluripotent stem cells. Nat. Methods 16, 640–648 (2019).10.1038/s41592-019-0455-2 ↗
45. Cederquist, G. Y. et al. Specification of positional identity in forebrain organoids. Nat. Biotechnol. 37, 436–444 (2019).10.1038/s41587-019-0085-3 ↗
46. DeForest, C. A. & Anseth, K. S. Photoreversible patterning of biomolecules within click-based hydrogels. Angew. Chemie Int. Ed. 51, 1816–1819 (2012).10.1002/anie.201106463 ↗
47. Guvendiren, M. & Burdick, J. A. Stiffening hydrogels to probe short- and long-term cellular responses to dynamic mechanics. Nat. Commun. 3, 792 (2012).10.1038/ncomms1792 ↗
48. Vincent, L. G., Choi, Y. S., Alonso-Latorre, B., Del Álamo, J. C. & Engler, A. J. Mesenchymal stem cell durotaxis depends on substrate stiffness gradient strength. Biotechnol. J. 8, 472–484 (2013).10.1002/biot.201200205 ↗
49. Xia, B. & Yanai, I. A periodic table of cell types. Development 146, dev169854 (2019).10.1242/dev.169854 ↗
50. Roost, M. S. et al. KeyGenes, a tool to probe tissue differentiation using a human fetal transcriptional atlas. Stem Cell Reports 4, 1112–1124 (2015).10.1016/j.stemcr.2015.05.002 ↗
51. Nowotschin, S. et al. The emergent landscape of the mouse gut endoderm at single-cell resolution. Nature 569, 361–367 (2019).10.1038/s41586-019-1127-1 ↗
52. Pijuan-Sala, B. et al. A single-cell molecular map of mouse gastrulation and early organogenesis. Nature 566, 490–495 (2019).10.1038/s41586-019-0933-9 ↗
53. Mayr, U., Serra, D. & Liberali, P. Exploring single cells in space and time during tissue development, homeostasis and regeneration. Development 146, dev176727 (2019).10.1242/dev.176727 ↗
54. Hannezo, E. & Heisenberg, C. P. Mechanochemical feedback loops in development and disease. Cell 178, 12–25 (2019).10.1016/j.cell.2019.05.052 ↗
55. Bailles, A. et al. Genetic induction and mechanochemical propagation of a morphogenetic wave. Nature 572, 467–473 (2019).10.1038/s41586-019-1492-9 ↗
56. Alt, S., Ganguly, P. & Salbreux, G. Vertex models: from cell mechanics to tissue morphogenesis. Philos. Trans. R. Soc. B 372, 20150520 (2017).10.1098/rstb.2015.0520 ↗
57. Latorre, E. et al. Active superelasticity in three-dimensional epithelia of controlled shape. Nature 563, 203–208 (2018).10.1038/s41586-018-0671-4 ↗
58. Okuda, S. et al. Strain-triggered mechanical feedback in self-organizing optic-cup morphogenesis. Sci. Adv. 4, eaau1354 (2018).10.1126/sciadv.aau1354 ↗
59. Karzbrun, E., Kshirsagar, A., Cohen, S. R., Hanna, J. H. & Reiner, O. Human brain organoids on a chip reveal the physics of folding. Nat. Phys. 14, 515–522 (2018).10.1038/s41567-018-0046-7 ↗
60. Bershteyn, M. et al. Human iPSC-derived cerebral organoids model cellular features of lissencephaly and reveal prolonged mitosis of outer radial glia. Cell Stem Cell 20, 435–449 (2017).10.1016/j.stem.2016.12.007 ↗
61. Forbes, T. A. et al. Patient-iPSC-derived kidney organoids show functional validation of a ciliopathic renal phenotype and reveal underlying pathogenetic mechanisms. Am. J. Hum. Genet. 102, 816–831 (2018).10.1016/j.ajhg.2018.03.014 ↗
62. Freedman, B. S. et al. Modelling kidney disease with CRISPR-mutant kidney organoids derived from human pluripotent epiblast spheroids. Nat. Commun. 6, 8715 (2015).10.1038/ncomms9715 ↗
63. Bian, S. et al. Genetically engineered cerebral organoids model brain tumor formation. Nat. Methods 15, 631–639 (2018).10.1038/s41592-018-0070-7 ↗
64. Ogawa, J., Pao, G. M., Shokhirev, M. N. & Verma, I. M. Glioblastoma model using human cerebral organoids. Cell Rep. 23, 1220–1229 (2018).10.1016/j.celrep.2018.03.105 ↗
65. Qian, X. et al. Brain-region-specific organoids using mini-bioreactors for modeling ZIKV exposure. Cell 165, 1238–1254 (2016).10.1016/j.cell.2016.04.032 ↗
66. Przepiorski, A. et al. A simple bioreactor-based method to generate kidney organoids from pluripotent stem cells. Stem Cell Rep. 11, 470–484 (2018).10.1016/j.stemcr.2018.06.018 ↗
67. Wimmer, R. A. et al. Human blood vessel organoids as a model of diabetic vasculopathy. Nature 565, 505–510 (2019).10.1038/s41586-018-0858-8 ↗
68. Sabbagh, M. F. et al. Transcriptional and epigenomic landscapes of CNS and non-CNS vascular endothelial cells. eLife 7, e36187 (2018).10.7554/eLife.36187 ↗
69. Takebe, T. et al. Vascularized and complex organ buds from diverse tissues via mesenchymal cell-driven condensation. Cell Stem Cell 16, 556–565 (2015).10.1016/j.stem.2015.03.004 ↗
70. Czerniecki, S. M. et al. High-throughput screening enhances kidney organoid differentiation from human pluripotent stem cells and enables automated multidimensional phenotyping. Cell Stem Cell 22, 929–940 (2018).10.1016/j.stem.2018.04.022 ↗
71. Taguchi, A. & Nishinakamura, R. Higher-order kidney organogenesis from pluripotent stem cells. Cell Stem Cell 21, 730–746 (2017).10.1016/j.stem.2017.10.011 ↗
72. Mansour, A. A. et al. An in vivo model of functional and vascularized human brain organoids. Nat. Biotechnol. 36, 432–441 (2018).10.1038/nbt.4127 ↗
73. Takebe, T. et al. Vascularized and functional human liver from an iPSC-derived organ bud transplant. Nature 499, 481–484 (2013).10.1038/nature12271 ↗
74. Takebe, T. et al. Massive and reproducible production of liver buds entirely from human pluripotent stem cells. Cell Rep. 21, 2661–2670 (2017).10.1016/j.celrep.2017.11.005 ↗
75. Van den Berg, C. W. et al. Renal subcapsular transplantation of PSC-derived kidney organoids induces neo-vasculogenesis and significant glomerular and tubular maturation in vivo. Stem Cell Rep. 10, 751–765 (2018).10.1016/j.stemcr.2018.01.041 ↗
76. Campisi, M. et al. 3D self-organized microvascular model of the human blood-brain barrier with endothelial cells, pericytes and astrocytes. Biomaterials 180, 117–129 (2018).10.1016/j.biomaterials.2018.07.014 ↗
77. Shirure, V. S. et al. Tumor-on-a-chip platform to investigate progression and drug sensitivity in cell lines and patient-derived organoids. Lab Chip 18, 3687–3702 (2018).10.1039/C8LC00596F ↗
78. Song, J., Miermont, A., Lim, C. T. & Kamm, R. D. A 3D microvascular network model to study the impact of hypoxia on the extravasation potential of breast cell lines. Sci. Rep. 8, 17949 (2018).
79. Homan, K. A. et al. Flow-enhanced vascularization and maturation of kidney organoids in vitro. Nat. Methods 16, 255–262 (2019).10.1038/s41592-019-0325-y ↗
80. Mark, A. et al. Biomanufacturing of organ-specific tissues with high cellular density and embedded vascular channels. Sci. Adv. 5, eaaw2459 (2019).10.1126/sciadv.aaw2459 ↗
81. Noor, N. et al. 3D personalized thick and perfusable cardiac patches and hearts. Adv. Sci. 6, 1900344 (2019).10.1002/advs.201900344 ↗
82. Workman, M. J. et al. Engineered human pluripotent-stem-cell-derived intestinal tissues with a functional enteric nervous system. Nat. Med. 23, 49–59 (2017).10.1038/nm.4233 ↗
83. Birey, F. et al. Assembly of functionally integrated human forebrain spheroids. Nature 545, 54–59 (2017).10.1038/nature22330 ↗
84. Koike, H. et al. Modelling human hepato-biliary-pancreatic organogenesis from the foregut–midgut boundary. Nature 574, 112–116 (2019).10.1038/s41586-019-1598-0 ↗
85. Esch, M. B., Mahler, G. J., Stokol, T. & Shuler, M. L. Body-on-a-chip simulation with gastrointestinal tract and liver tissues suggests that ingested nanoparticles have the potential to cause liver injury. Lab Chip 14, 3081–3092 (2014).10.1039/C4LC00371C ↗
86. Bauer, S. et al. Functional coupling of human pancreatic islets and liver spheroids on-a-chip: Towards a novel human ex vivo type 2 diabetes model. Sci. Rep. 7, 14620 (2017).
87. Osaki, T., Uzel, S. G. M. & Kamm, R. D. Microphysiological 3D model of amyotrophic lateral sclerosis (ALS) from human iPS-derived muscle cells and optogenetic motor neurons. Sci. Adv. 4, eaat5847 (2018).10.1126/sciadv.aat5847 ↗
88. Achberger, K. et al. Merging organoid and organ-on-a-chip technology to generate complex multi-layer tissue models in a human retina-on-a-chip platform. eLife 8, e46188 (2019).10.7554/eLife.46188 ↗
89. Tao, T. et al. Engineering human islet organoids from iPSCs using an organ-on-chip platform. Lab Chip 19, 948–958 (2019).10.1039/C8LC01298A ↗
90. Workman, M. J. et al. Enhanced utilization of induced pluripotent stem cell–derived human intestinal organoids using microengineered chips. Cell. Mol. Gastroenterol. Hepatol. 5, 669–677 (2018).10.1016/j.jcmgh.2017.12.008 ↗
91. Lee, K. K. et al. Human stomach-on-a-chip with luminal flow and peristaltic-like motility. Lab Chip 18, 3079–3085 (2018).10.1039/C8LC00910D ↗
92. Wang, Y. et al. In situ differentiation and generation of functional liver organoids from human iPSCs in a 3D perfusable chip system. Lab Chip 18, 3606–3616 (2018).10.1039/C8LC00869H ↗
93. Bredenoord, A. L., Clevers, H. & Knoblich, J. A. Human tissues in a dish: the research and ethical implications of organoid technology. Science 355, eaaf9414 (2017).10.1126/science.aaf9414 ↗
94. Munsie, M., Hyun, I. & Sugarman, J. Ethical issues in human organoid and gastruloid research. Development 144, 942–945 (2017).10.1242/dev.140111 ↗
95. Hyun, I. Engineering ethics and self-organizing models of human development: opportunities and challenges. Cell Stem Cell 21, 718–720 (2017).10.1016/j.stem.2017.09.002 ↗
96. Van de Poel, I. & van Gorp, A. C. The need for ethical reflection in engineering design. Sci. Technol. Hum. Values 31, 333–360 (2006).10.1177/0162243905285846 ↗
97. Sample, M. et al. Multi-cellular engineered living systems: building a community around responsible research on emergence. Biofabrication 11, 043001 (2019).10.1088/1758-5090/ab268c ↗
98. Chuva de Sousa Lopes, S. M. Accelerating maturation of kidney organoids. Nat. Mater. 18, 303–304 (2019).10.1038/s41563-019-0326-3 ↗
99. Miura, Y. & Pașca, S. P. Polarizing brain organoids. Nat. Biotechnol. 37, 377–378 (2019).10.1038/s41587-019-0084-4 ↗
100. Wilson, H. V. On some phenomena of coalescence and regeneration in sponges. J. Exp. Zool. 5, 245–258 (1907).10.1002/jez.1400050204 ↗