# Modeling human telencephalic development and autism-associated SHANK3 deficiency using organoids generated from single neural rosettes

**Authors:** Yueqi Wang, Simone Chiola, Guang Yang, Chad Russell, Celeste J. Armstrong, Yuanyuan Wu, Jay Spampanato, Paisley Tarboton, H. M. Arif Ullah, Nicolas U. Edgar, Amelia N. Chang, David A. Harmin, Vittoria Dickinson Bocchi, Elena Vezzoli, Dario Besusso, Jun Cui, Elena Cattaneo, Jan Kubanek, Aleksandr Shcheglovitov

PMC · DOI: 10.1038/s41467-022-33364-z · Nature Communications · 2022-10-06

## TL;DR

Researchers created brain organoids from single neural rosettes to study human brain development and how a genetic mutation in SHANK3 affects neurons and synapses.

## Contribution

The study introduces a novel organoid model from single neural rosettes to investigate human telencephalic development and SHANK3-related autism deficits.

## Key findings

- SNR-derived organoids contain diverse neural and glial cell types with organized structure.
- SHANK3 hemizygosity in organoids causes synaptic and intrinsic neuronal deficits and reduced clustered protocadherin expression.

## Abstract

Human telencephalon is an evolutionarily advanced brain structure associated with many uniquely human behaviors and disorders. However, cell lineages and molecular pathways implicated in human telencephalic development remain largely unknown. We produce human telencephalic organoids from stem cell-derived single neural rosettes and investigate telencephalic development under normal and pathological conditions. We show that single neural rosette-derived organoids contain pallial and subpallial neural progenitors, excitatory and inhibitory neurons, as well as macroglial and periendothelial cells, and exhibit predictable organization and cytoarchitecture. We comprehensively characterize the properties of neurons in SNR-derived organoids and identify transcriptional programs associated with the specification of excitatory and inhibitory neural lineages from a common pool of NPs early in telencephalic development. We also demonstrate that neurons in organoids with a hemizygous deletion of an autism- and intellectual disability-associated gene SHANK3 exhibit intrinsic and excitatory synaptic deficits and impaired expression of several clustered protocadherins. Collectively, this study validates SNR-derived organoids as a reliable model for studying human telencephalic cortico-striatal development and identifies intrinsic, synaptic, and clustered protocadherin expression deficits in human telencephalic tissue with SHANK3 hemizygosity.

Our understanding of human brain development in health and disease is limited. The authors generated human brain organoids from stem cell-derived isolated single neural rosettes to study human cortico-striatal development and deficits caused by an autism-associated genetic abnormality in SHANK3.

## Linked entities

- **Genes:** SHANK3 (SH3 and multiple ankyrin repeat domains 3) [NCBI Gene 85358]
- **Diseases:** autism (MONDO:0005260), intellectual disability (MONDO:0001071)
- **Species:** Homo sapiens (taxon 9606)

## Full-text entities

- **Genes:** SLC17A7 (solute carrier family 17 member 7) [NCBI Gene 57030] {aka BNPI, VGLUT1}, LIFR (LIF receptor subunit alpha) [NCBI Gene 3977] {aka CD118, LIF-R, SJS2, STWS, SWS}, CALB2 (calbindin 2) [NCBI Gene 794] {aka CAB29, CAL2, CR}, NEUROG1 (neurogenin 1) [NCBI Gene 4762] {aka AKA, CCDDRD, Math4C, NEUROD3, bHLHa6, ngn1}, CDH2 (cadherin 2) [NCBI Gene 1000] {aka ACOGS, ADHD8, ARVD14, CD325, CDHN, CDw325}, SFRP1 (secreted frizzled related protein 1) [NCBI Gene 6422] {aka FRP, FRP-1, FRP1, FrzA, SARP2}, BMP7 (bone morphogenetic protein 7) [NCBI Gene 655] {aka OP-1}, PVALB (parvalbumin) [NCBI Gene 5816] {aka D22S749}, NPY (neuropeptide Y) [NCBI Gene 4852] {aka PYY4}, SLC32A1 (solute carrier family 32 member 1) [NCBI Gene 140679] {aka DEE114, GEFSP12, VGAT, VIAAT, VIAAT GEFSP12}, FOXC1 (forkhead box C1) [NCBI Gene 2296] {aka ARA, ASGD3, FKHL7, FREAC-3, FREAC3, IGDA}, GSX2 (GS homeobox 2) [NCBI Gene 170825] {aka DMJDS2, GSH2}, CUX2 (cut like homeobox 2) [NCBI Gene 23316] {aka CDP2, CUTL2, DEE67, EIEE67}, RSPO1 (R-spondin 1) [NCBI Gene 284654] {aka CRISTIN3, RSPO}, TGFB1 (transforming growth factor beta 1) [NCBI Gene 7040] {aka CAEND1, CED, DPD1, IBDIMDE, LAP, TGF-beta1}, PCDHGA2 (protocadherin gamma subfamily A, 2) [NCBI Gene 56113] {aka PCDH-GAMMA-A2}, SATB2 (SATB homeobox 2) [NCBI Gene 23314] {aka C2DELq32q33, DEL2Q32Q33, GLSS}, MOXD1 (monooxygenase DBH like 1) [NCBI Gene 26002] {aka MOX, PRO5780, dJ248E1.1}, RSPO2 (R-spondin 2) [NCBI Gene 340419] {aka CRISTIN2, HHRRD, TETAMS2}, DLG4 (discs large MAGUK scaffold protein 4) [NCBI Gene 1742] {aka MRD62, PSD95, SAP-90, SAP90}, PCDHA9 (protocadherin alpha 9) [NCBI Gene 9752] {aka PCDH-ALPHA9}, SUCO (SUN domain containing ossification factor) [NCBI Gene 51430] {aka C1orf9, CH1, OPT, SLP1}, MEIS2 (Meis homeobox 2) [NCBI Gene 4212] {aka CPCMR, HsT18361, MRG1}, SLC17A6 (solute carrier family 17 member 6) [NCBI Gene 57084] {aka DNPI, VGLUT2}, Shank3 (SH3 and multiple ankyrin repeat domains 3) [NCBI Gene 58234] {aka Spank-2, proSAP2}, DLX2 (distal-less homeobox 2) [NCBI Gene 1746] {aka TES-1, TES1}, EFS (embryonal Fyn-associated substrate) [NCBI Gene 10278] {aka CAS3, CASS3, EFS1, EFS2, HEFS, SIN}, LHX6 (LIM homeobox 6) [NCBI Gene 26468] {aka LHX6.1, hLHX6}, BDNF (brain derived neurotrophic factor) [NCBI Gene 627] {aka ANON2, BULN2}, NRP1 (neuropilin 1) [NCBI Gene 8829] {aka BDCA4, CD304, NP1, NRP, VEGF165R}, ID3 (inhibitor of DNA binding 3) [NCBI Gene 3399] {aka HEIR-1, bHLHb25}, TBR1 (T-box brain transcription factor 1) [NCBI Gene 10716] {aka AUTS5, IDDAS, TBR-1, TES-56}, DLX1 (distal-less homeobox 1) [NCBI Gene 1745], VIM (vimentin) [NCBI Gene 7431], SALL3 (spalt like transcription factor 3) [NCBI Gene 27164] {aka ZNF796}, HOPX (HOP homeobox) [NCBI Gene 84525] {aka CAMEO, HOD, HOP, LAGY, NECC1, OB1}, NIN (ninein) [NCBI Gene 51199] {aka SCKL7}, PTPRZ1 (protein tyrosine phosphatase receptor type Z1) [NCBI Gene 5803] {aka HPTPZ, HPTPzeta, PTP-ZETA, PTP18, PTPRZ, PTPZ}, ACTA1 (actin alpha 1, skeletal muscle) [NCBI Gene 58] {aka ACTA, ASMA, CFTD, CFTD1, CFTDM, CMYO2A}, NT-3 [NCBI Gene 4877], LHX2 (LIM homeobox 2) [NCBI Gene 9355] {aka LH2, hLhx2}, NOS1 (nitric oxide synthase 1) [NCBI Gene 4842] {aka IHPS1, N-NOS, NC-NOS, NOS, bNOS, nNOS}, PCDHA7 (protocadherin alpha 7) [NCBI Gene 56141] {aka CNR4, CNRN4, CNRS4, CRNR4, PCDH-ALPHA7}, CSPG4 (chondroitin sulfate proteoglycan 4) [NCBI Gene 1464] {aka CSPG4A, HMW-MAA, MCSP, MCSPG, MEL-CSPG, MSK16}, ALDH1L1 (aldehyde dehydrogenase 1 family member L1) [NCBI Gene 10840] {aka 10-FTHFDH, 10-fTHF, FDH, FTHFD}, SIX3 (SIX homeobox 3) [NCBI Gene 6496] {aka HPE2}, SHANK3 (SH3 and multiple ankyrin repeat domains 3) [NCBI Gene 85358] {aka DEL22q13.3, PROSAP2, PSAP2, SCZD15, SPANK-2}, SOX6 (SRY-box transcription factor 6) [NCBI Gene 55553] {aka HSSOX6, SOXD, TOLCAS}, NES (nestin) [NCBI Gene 10763] {aka Nbla00170}, GAD1 (glutamate decarboxylase 1) [NCBI Gene 2571] {aka CPSQ1, DEE89, GAD, GAD-67, SCP}, LGR5 (leucine rich repeat containing G protein-coupled receptor 5) [NCBI Gene 8549] {aka FEX, GPR49, GPR67, GRP49, HG38}, PDGFRB (platelet derived growth factor receptor beta) [NCBI Gene 5159] {aka CD140B, IBGC4, IMF1, JTK12, KOGS, OPDKD}, GFAP (glial fibrillary acidic protein) [NCBI Gene 2670] {aka ALXDRD}, SOX10 (SRY-box transcription factor 10) [NCBI Gene 6663] {aka DOM, PCWH, SOX-10, WS2E, WS4, WS4C}, BMP1 (bone morphogenetic protein 1) [NCBI Gene 649] {aka OI13, PCOLC, PCP, TLD}, MKI67 (marker of proliferation Ki-67) [NCBI Gene 4288] {aka KIA, MIB-, MIB-1, PPP1R105}, FEZF2 (FEZ family zinc finger 2) [NCBI Gene 55079] {aka FEZ, FEZL, FKSG36, TOF, ZFP312, ZNF312}, BMPR1B (bone morphogenetic protein receptor type 1B) [NCBI Gene 658] {aka ALK-6, ALK6, AMD3, AMDD, BDA1D, BDA2}, MAP2 (microtubule associated protein 2) [NCBI Gene 4133] {aka MAP-2, MAP2A, MAP2B, MAP2C}, AQP4 (aquaporin 4) [NCBI Gene 361] {aka MIWC, MLC4, WCH4, hAQP4}
- **Diseases:** malformations of cortical development (MESH:D054220), chromosomal abnormality (MESH:D002869), genetic abnormality (MESH:D030342), Phelan-McDermid Syndrome (MESH:C536801), developmental disorders (MESH:D002658), ASD (MESH:D001321), brain tumors (MESH:D001932), EN-CTX (MESH:D009410), PMDS (MESH:C536665), intellectual disability (MESH:D008607), LGE (MESH:D045888)
- **Species:** Homo sapiens (human, species) [taxon 9606], Mus musculus (house mouse, species) [taxon 10090]
- **Cell lines:** Org5 — Homo sapiens (Human), Transformed cell line (CVCL_2631), -20 — Aedes aegypti (Yellowfever mosquito), Spontaneously immortalized cell line (CVCL_Z353), H9 — Homo sapiens (Human), Sezary syndrome, Cancer cell line (CVCL_1240), EP2 — Homo sapiens (Human), Induced pluripotent stem cell (CVCL_A5QQ), IN3-5 — Mus musculus (Mouse), Hybridoma (CVCL_B3YG), 2242 — Homo sapiens (Human), Adrenal gland hyperplasia III, Transformed cell line (CVCL_GZ40), GM07492 — Homo sapiens (Human), Finite cell line (CVCL_7467), EP2-15 — Homo sapiens (Human), Developmental and epileptic encephalopathy 32, Induced pluripotent stem cell (CVCL_YQ77), 15 — Cricetulus griseus (Chinese hamster), Spontaneously immortalized cell line (CVCL_UU65)

## Full text

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## Figures

10 figures with captions in the complete paper: https://tomesphere.com/paper/PMC9537523/full.md

## References

14 references — full list in the complete paper: https://tomesphere.com/paper/PMC9537523/full.md

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Source: https://tomesphere.com/paper/PMC9537523