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An autism spectrum disorder-related de novo mutation hotspot discovered in the GEF1 domain of Trio

Sadybekov, Anastasiia, Tian, Chen, Arnesano, Cosimo, Katritch, Vsevolod, Herring, Bruce E.·2017·Nature Communications

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”

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  1. Volk, L., Chiu, S. L., Sharma, K. & Huganir, R. L. Glutamate synapses in human cognitive disorders. Annu. Rev. Neurosci. 38, 127–149 (2015). · DOI
  2. 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
  3. 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
  4. 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
  5. 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
  6. 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
  7. McPherson, C. E., Eipper, B. A. & Mains, R. E. Genomic organization and differential expression of Kalirin isoforms. Gene 284, 41–51 (2002). · DOI
  8. 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
  9. Penzes, P. & Jones, K. A. Dendritic spine dynamics--a key role for kalirin-7. Trends Neurosci. 31, 419–427 (2008). · DOI · Paper page
  10. 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
  11. 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
  12. 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
  13. 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
  14. Mei, Y. et al. Adult restoration of Shank3 expression rescues selective autistic-like phenotypes. Nature 530, 481–484 (2016). · DOI · Paper page
  15. 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
  16. 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
  17. 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
  18. Genomes Project, C. et al. A global reference for human genetic variation. Nature 526, 68–74 (2015). · DOI · Paper page
  19. 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
  20. Bekkers, J. M. & Stevens, C. F. Presynaptic mechanism for long-term potentiation in the hippocampus. Nature 346, 724–729 (1990). · DOI
  21. Del Castillo, J. & Katz, B. Quantal components of the end-plate potential. J. Physiol. 124, 560–573 (1954). · DOI
  22. 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
  23. 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
  24. 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
  25. 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
  26. Mandela, P. & Ma, X. M. Kalirin, a key player in synapse formation, is implicated in human diseases. Neural Plast 2012, 728161 (2012). · DOI
  27. 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
  28. Remmers, C., Sweet, R. A. & Penzes, P. Abnormal kalirin signaling in neuropsychiatric disorders. Brain Res. Bull. 103, 29–38 (2014). · DOI
  29. Youn, H. et al. Kalirin is under-expressed in Alzheimer’s disease hippocampus. J Alzheimers Dis. 11, 385–397 (2007). · DOI · Paper page
  30. 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
  31. Tang, G. et al. Loss of mTOR-dependent macroautophagy causes autistic-like synaptic pruning deficits. Neuron 83, 1131–1143 (2014). · DOI · Paper page
  32. 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
  33. Schiller, M. R. et al. Regulation of RhoGEF activity by intramolecular and intermolecular SH3 domain interactions. J. Biol. Chem. 281, 18774–18786 (2006). · DOI
  34. 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
  35. Arnesano, C., Santoro, Y. & Gratton, E. Digital parallel frequency-domain spectroscopy for tissue imaging. J. Biomed. Opt. 17, 96014–96011 (2012). · DOI
  36. 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
  37. 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
  38. 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
  39. 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
  40. 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
  41. Stoppini, L., Buchs, P. A. & Muller, D. A simple method for organotypic cultures of nervous tissue. J. Neurosci. Methods 37, 173–182 (1991). · DOI
  42. 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
  43. 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.
Venue
Nature Communications
Published
2017-09-19
Volume
8
Issue
1
ISSN
2041-1723
Cited by
112
References
12
Language
en

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