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An autism spectrum disorder-related de novo mutation hotspot discovered in the GEF1 domain of Trio
Abstract
The Rho guanine nucleotide exchange factor (RhoGEF) Trio promotes actin polymerization by directly activating the small GTPase Rac1. Recent studies suggest that autism spectrum disorder (ASD)-related behavioral phenotypes in animal models of ASD can be produced by dysregulation of Rac1’s control of actin polymerization at glutamatergic synapses. Here, in humans, we discover a large cluster of ASD-related de novo mutations in Trio’s Rac1 activating domain, GEF1. Our study reveals that these mutations produce either hypofunctional or hyperfunctional forms of Trio in rodent neurons in vitro. In accordance with pathological increases or decreases in glutamatergic neurotransmission observed in animal models of ASD, we find that these mutations result in either reduced synaptic AMPA receptor expression or enhanced glutamatergic synaptogenesis. Together, our findings implicate both excessive and reduced Trio activity and the resulting synaptic dysfunction in ASD-related pathogenesis, and point to the Trio-Rac1 pathway at glutamatergic synapses as a possible key point of convergence of many ASD-related genes.
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Variants in the genes encoding GTPase-regulating proteins Iqgap1, Iqgap2, Iqsec2, Kalirin, and Trio are associated with epilepsy, autism, schizophrenia, or intellectual disability.
“where variants in the underlying genes are associated with epilepsy, autism, schizophrenia, or intellectual disability (De Rubeis et al., 2014; Russell et al., 2014; Sadybekov et al., 2017; Shoubridge et al., 2010; Yang et al., 2014”
From Changes in the Synaptic Proteome in Tauopathy and Rescue of Tau-Induced Synapse Loss by C1q Antibodies (2018) · cites this paper as Sadybekov et al., 2017
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Analysis of protein-coding genetic variation in 60,706 humans
Exome Aggregation Consortium, Lek, M., Karczewski, K. J., Minikel, E. V., Samocha, K. E., Banks, E., Fennell, T., O’Donnell-Luria, A. H., Ware, J. S., Hill, A. J., et al. (2016) · Nature · doi:10.1038/nature19057 · Cited by 9,587
Synaptic, transcriptional and chromatin genes disrupted in autism
Study, T. D., De Rubeis, S., Autism, H. M. C. F., UK10K Consortium, The Autism Sequencing Consortium, He, X., Goldberg, A. P., Poultney, C. S., Samocha, K., Ercument Cicek, A., et al. (2014) · Nature · doi:10.1038/nature13772 · Cited by 2,746
The contribution of de novo coding mutations to autism spectrum disorder
Iossifov, I., O’Roak, B. J., Sanders, S. J., Ronemus, M., Krumm, N., Levy, D., Stessman, H. A., Witherspoon, K. T., Vives, L., Patterson, K. E., et al. (2014) · Nature · doi:10.1038/nature13908 · Cited by 2,585
Sporadic autism exomes reveal a highly interconnected protein network of de novo mutations
O’Roak, B. J., Vives, L., Girirajan, S., Karakoc, E., Krumm, N., Coe, B. P., Levy, R., Ko, A., Lee, C., Smith, J. D., et al. (2012) · Nature · doi:10.1038/nature10989 · Cited by 2,165
Diagnostic exome sequencing in persons with severe intellectual disability
de Ligt, J., Willemsen, M. H., van Bon, B. W. M., Kleefstra, T., Yntema, H. G., Kroes, T., Vulto-van Silfhout, A. T., Koolen, D. A., de Vries, P., Gilissen, C., et al. (2012) · New England Journal of Medicine · doi:10.1056/nejmoa1206524 · Cited by 1,546
Large-scale discovery of novel genetic causes of developmental disorders
Study, T. D. D. D. (2015) · Nature · doi:10.1038/nature14135 · Cited by 1,124
A framework for the interpretation of de novo mutation in human disease
Samocha, K. E., Robinson, E. B., Sanders, S. J., Stevens, C., Sabo, A., McGrath, L. M., Kosmicki, J. A., Rehnström, K., Mallick, S., Kirby, A., et al. (2014) · Nature Genetics · doi:10.1038/ng.3050 · Cited by 979
From the genetic architecture to synaptic plasticity in autism spectrum disorder
Bourgeron, T. (2015) · Nature Reviews Neuroscience · doi:10.1038/nrn3992 · Cited by 975
Durand, C. M., Perroy, J., Loll, F., Perrais, D., Fagni, L., Bourgeron, T., Montcouquiol, M., & Sans, N. (2012) · Molecular Psychiatry · doi:10.1038/mp.2011.57 · Cited by 316
Autism-like Deficits in Shank3-Deficient Mice Are Rescued by Targeting Actin Regulators
Duffney, L. J., Zhong, P., Wei, J., Matas, E., Cheng, J., Qin, L., Ma, K., Dietz, D. M., Kajiwara, Y., Buxbaum, J. D., et al. (2015) · Cell Reports · doi:10.1016/j.celrep.2015.04.064 · Cited by 281
Rescue of fragile X syndrome phenotypes in Fmr1 KO mice by the small-molecule PAK inhibitor FRAX486
Dolan, B. M., Duron, S. G., Campbell, D. A., Vollrath, B., Rao, B. S. S., Ko, H.-Y., Lin, G. G., Govindarajan, A., Choi, S.-Y., & Tonegawa, S. (2013) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1219383110 · Cited by 260
Low load for disruptive mutations in autism genes and their biased transmission
Iossifov, I., Levy, D., Allen, J., Ye, K., Ronemus, M., Lee, Y.-H., Yamrom, B., & Wigler, M. (2015) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1516376112 · Cited by 156
Flagged first, then by citations
Research works printed but not linked: 43
- Volk, L., Chiu, S. L., Sharma, K. & Huganir, R. L. Glutamate synapses in human cognitive disorders. Annu. Rev. Neurosci. 38, 127–149 (2015). · DOI
- Rojas, D. C. The role of glutamate and its receptors in autism and the use of glutamate receptor antagonists in treatment. J. Neural. Transm. 121, 891–905 (2014). · DOI
- Zeidan-Chulia, F. et al. Exploring the multifactorial nature of autism through computational systems biology: calcium and the Rho GTPase RAC1 under the spotlight. Neuromolecular Med. 15, 364–383 (2013). · DOI
- Herring, B. E. & Nicoll, R. A. Kalirin and Trio proteins serve critical roles in excitatory synaptic transmission and LTP. Proc. Natl Acad. Sci. USA 113, 2264–2269 (2016). · DOI · Paper page
- Ma, X. M., Huang, J. P., Eipper, B. A. & Mains, R. E. Expression of Trio, a member of the Dbl family of Rho GEFs in the developing rat brain. J. Comp. Neurol. 482, 333–348 (2005). · DOI
- Ma, X. M., Huang, J., Wang, Y., Eipper, B. A. & Mains, R. E. Kalirin, a multifunctional Rho guanine nucleotide exchange factor, is necessary for maintenance of hippocampal pyramidal neuron dendrites and dendritic spines. J. Neurosci. 23, 10593–10603 (2003). · DOI
- McPherson, C. E., Eipper, B. A. & Mains, R. E. Genomic organization and differential expression of Kalirin isoforms. Gene 284, 41–51 (2002). · DOI
- McPherson, C. E., Eipper, B. A. & Mains, R. E. Multiple novel isoforms of Trio are expressed in the developing rat brain. Gene 347, 125–135 (2005). · DOI
- Penzes, P. & Jones, K. A. Dendritic spine dynamics--a key role for kalirin-7. Trends Neurosci. 31, 419–427 (2008). · DOI · Paper page
- Penzes, P. et al. An isoform of kalirin, a brain-specific GDP/GTP exchange factor, is enriched in the postsynaptic density fraction. J. Biol. Chem. 275, 6395–6403 (2000). · DOI
- Blangy, A. et al. TrioGEF1 controls Rac- and Cdc42-dependent cell structures through the direct activation of rhoG. J. Cell Sci. 113, 729–739 (2000). · DOI
- Chao, H. T., Zoghbi, H. Y. & Rosenmund, C. MeCP2 controls excitatory synaptic strength by regulating glutamatergic synapse number. Neuron 56, 58–65 (2007). · DOI · Paper page
- Qiu, S., Lu, Z. & Levitt, P. MET receptor tyrosine kinase controls dendritic complexity, spine morphogenesis, and glutamatergic synapse maturation in the hippocampus. J. Neurosci. 34, 16166–16179 (2014). · DOI
- Mei, Y. et al. Adult restoration of Shank3 expression rescues selective autistic-like phenotypes. Nature 530, 481–484 (2016). · DOI · Paper page
- Sanders, S. J. et al. De novo mutations revealed by whole-exome sequencing are strongly associated with autism. Nature 485, 237–241 (2012). · DOI · Paper page
- Chhatriwala, M. K., Betts, L., Worthylake, D. K. & Sondek, J. The DH and PH domains of Trio coordinately engage Rho GTPases for their efficient activation. J. Mol. Biol. 368, 1307–1320 (2007). · DOI
- Seipel, K. et al. Trio amino-terminal guanine nucleotide exchange factor domain expression promotes actin cytoskeleton reorganization, cell migration and anchorage-independent cell growth. J. Cell Sci. 112, 1825–1834 (1999). · DOI
- Genomes Project, C. et al. A global reference for human genetic variation. Nature 526, 68–74 (2015). · DOI · Paper page
- Timmerman, I. et al. A local VE-cadherin and Trio-based signaling complex stabilizes endothelial junctions through Rac1. J. Cell Sci. 128, 3514 (2015). · DOI
- Bekkers, J. M. & Stevens, C. F. Presynaptic mechanism for long-term potentiation in the hippocampus. Nature 346, 724–729 (1990). · DOI
- Del Castillo, J. & Katz, B. Quantal components of the end-plate potential. J. Physiol. 124, 560–573 (1954). · DOI
- Gray, J. A. et al. Distinct modes of AMPA receptor suppression at developing synapses by GluN2A and GluN2B: single-cell NMDA receptor subunit deletion in vivo. Neuron 71, 1085–1101 (2011). · DOI
- Malinow, R. & Tsien, R. W. Presynaptic enhancement shown by whole-cell recordings of long-term potentiation in hippocampal slices. Nature 346, 177–180 (1990). · DOI
- Levy, J. M., Chen, X., Reese, T. S. & Nicoll, R. A. Synaptic consolidation normalizes AMPAR quantal size following MAGUK Loss. Neuron 87, 534–548 (2015). · DOI
- Liu, X. et al. NMR structure and mutagenesis of the N-terminal Dbl homology domain of the nucleotide exchange factor Trio. Cell 95, 269–277 (1998). · DOI
- Mandela, P. & Ma, X. M. Kalirin, a key player in synapse formation, is implicated in human diseases. Neural Plast 2012, 728161 (2012). · DOI
- Russell, T. A. et al. A sequence variant in human KALRN impairs protein function and coincides with reduced cortical thickness. Nat. Commun. 5, 4858 (2014). · DOI · Paper page
- Remmers, C., Sweet, R. A. & Penzes, P. Abnormal kalirin signaling in neuropsychiatric disorders. Brain Res. Bull. 103, 29–38 (2014). · DOI
- Youn, H. et al. Kalirin is under-expressed in Alzheimer’s disease hippocampus. J Alzheimers Dis. 11, 385–397 (2007). · DOI · Paper page
- Ball, R. W. et al. Retrograde BMP signaling controls synaptic growth at the NMJ by regulating trio expression in motor neurons. Neuron 66, 536–549 (2010). · DOI
- Tang, G. et al. Loss of mTOR-dependent macroautophagy causes autistic-like synaptic pruning deficits. Neuron 83, 1131–1143 (2014). · DOI · Paper page
- Aghazadeh, B., Lowry, W. E., Huang, X. Y. & Rosen, M. K. Structural basis for relief of autoinhibition of the Dbl homology domain of proto-oncogene Vav by tyrosine phosphorylation. Cell 102, 625–633 (2000). · DOI
- Schiller, M. R. et al. Regulation of RhoGEF activity by intramolecular and intermolecular SH3 domain interactions. J. Biol. Chem. 281, 18774–18786 (2006). · DOI
- Yano, T. et al. Tara up-regulates E-cadherin transcription by binding to the Trio RhoGEF and inhibiting Rac signaling. J. Cell Biol. 193, 319–332 (2011). · DOI
- Arnesano, C., Santoro, Y. & Gratton, E. Digital parallel frequency-domain spectroscopy for tissue imaging. J. Biomed. Opt. 17, 96014–96011 (2012). · DOI
- Colyer, R. A., Lee, C. & Gratton, E. A novel fluorescence lifetime imaging system that optimizes photon efficiency. Microsc. Res. Tech. 71, 201–213 (2008). · DOI
- Hinde, E., Digman, M. A., Welch, C., Hahn, K. M. & Gratton, E. Biosensor Forster resonance energy transfer detection by the phasor approach to fluorescence lifetime imaging microscopy. Microsc. Res. Tech. 75, 271–281 (2012). · DOI
- Stringari, C. et al. Phasor approach to fluorescence lifetime microscopy distinguishes different metabolic states of germ cells in a live tissue. Proc. Natl Acad. Sci. USA 108, 13582–13587 (2011). · DOI
- Digman, M. A., Caiolfa, V. R., Zamai, M. & Gratton, E. The phasor approach to fluorescence lifetime imaging analysis. Biophys. J. 94, L14–16 (2008). · DOI
- Hinde, E., Digman, M. A., Hahn, K. M. & Gratton, E. Millisecond spatiotemporal dynamics of FRET biosensors by the pair correlation function and the phasor approach to FLIM. Proc. Natl Acad. Sci. USA 110, 135–140 (2013). · DOI
- Stoppini, L., Buchs, P. A. & Muller, D. A simple method for organotypic cultures of nervous tissue. J. Neurosci. Methods 37, 173–182 (1991). · DOI
- Schnell, E. et al. Direct interactions between PSD-95 and stargazin control synaptic AMPA receptor number. Proc. Natl Acad. Sci. USA 99, 13902–13907 (2002). · DOI · Paper page
- Ke, M. T., Fujimoto, S. & Imai, T. SeeDB: a simple and morphology-preserving optical clearing agent for neuronal circuit reconstruction. Nat. Neurosci. 16, 1154–1161 (2013). · DOI
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Metadata
- Authors
- Sadybekov, A., Tian, C., Arnesano, C., Katritch, V., & Herring, B. E.
- ORCID
- Herring, Bruce E.
- Venue
- Nature Communications
- Published
- 2017-09-19
- Volume
- 8
- Issue
- 1
- ISSN
- 2041-1723
- PMC
- PMC5605661
- Cited by
- 112
- References
- 12
- Language
- en
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