Viral manipulation of functionally distinct interneurons in mice, non-human primates and humans.
Animals
Callithrix
Cerebral Cortex
/ cytology
Dependovirus
/ genetics
Female
Genetic Vectors
/ genetics
Humans
Interneurons
/ physiology
Macaca mulatta
Mice
Mice, Inbred C57BL
NAV1.1 Voltage-Gated Sodium Channel
/ genetics
Neurons
Parvalbumins
/ physiology
Rats
Rats, Sprague-Dawley
Species Specificity
Vasoactive Intestinal Peptide
/ physiology
Journal
Nature neuroscience
ISSN: 1546-1726
Titre abrégé: Nat Neurosci
Pays: United States
ID NLM: 9809671
Informations de publication
Date de publication:
12 2020
12 2020
Historique:
received:
20
12
2019
accepted:
10
07
2020
pubmed:
19
8
2020
medline:
9
2
2021
entrez:
19
8
2020
Statut:
ppublish
Résumé
Recent success in identifying gene-regulatory elements in the context of recombinant adeno-associated virus vectors has enabled cell-type-restricted gene expression. However, within the cerebral cortex these tools are largely limited to broad classes of neurons. To overcome this limitation, we developed a strategy that led to the identification of multiple new enhancers to target functionally distinct neuronal subtypes. By investigating the regulatory landscape of the disease gene Scn1a, we discovered enhancers selective for parvalbumin (PV) and vasoactive intestinal peptide-expressing interneurons. Demonstrating the functional utility of these elements, we show that the PV-specific enhancer allowed for the selective targeting and manipulation of these neurons across vertebrate species, including humans. Finally, we demonstrate that our selection method is generalizable and characterizes additional PV-specific enhancers with exquisite specificity within distinct brain regions. Altogether, these viral tools can be used for cell-type-specific circuit manipulation and hold considerable promise for use in therapeutic interventions.
Identifiants
pubmed: 32807948
doi: 10.1038/s41593-020-0692-9
pii: 10.1038/s41593-020-0692-9
pmc: PMC8015416
mid: NIHMS1682740
doi:
Substances chimiques
NAV1.1 Voltage-Gated Sodium Channel
0
Parvalbumins
0
Scn1a protein, mouse
0
Vasoactive Intestinal Peptide
37221-79-7
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, N.I.H., Intramural
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
1629-1636Subventions
Organisme : NINDS NIH HHS
ID : P01 NS074972
Pays : United States
Organisme : NINDS NIH HHS
ID : R37 NS046579
Pays : United States
Organisme : NIMH NIH HHS
ID : P50 MH094271
Pays : United States
Organisme : NIMH NIH HHS
ID : R01 MH071679
Pays : United States
Organisme : NIMH NIH HHS
ID : UG3 MH120096
Pays : United States
Organisme : NIMH NIH HHS
ID : R37 MH071679
Pays : United States
Organisme : NINDS NIH HHS
ID : R01 NS081297
Pays : United States
Organisme : NINDS NIH HHS
ID : K99 NS106528
Pays : United States
Organisme : NIMH NIH HHS
ID : R01 MH111529
Pays : United States
Commentaires et corrections
Type : CommentIn
Type : ErratumIn
Références
Skene, N. G. et al. Genetic identification of brain cell types underlying schizophrenia. Nat. Genet. 50, 825–833 (2018).
pubmed: 29785013
pmcid: 6477180
doi: 10.1038/s41588-018-0129-5
Voineagu, I. et al. Transcriptomic analysis of autistic brain reveals convergent molecular pathology. Nature 474, 380–384 (2011).
pubmed: 21614001
pmcid: 3607626
doi: 10.1038/nature10110
Parikshak, N. N. et al. Integrative functional genomic analyses implicate specific molecular pathways and circuits in autism. Cell 155, 1008–1021 (2013).
pubmed: 24267887
pmcid: 3934107
doi: 10.1016/j.cell.2013.10.031
Camp, J. G., Platt, R. & Treutlein, B. Mapping human cell phenotypes to genotypes with single-cell genomics. Science 365, 1401–1405 (2019).
pubmed: 31604266
doi: 10.1126/science.aax6648
Bedbrook, C. N., Deverman, B. E. & Gradinaru, V. Viral strategies for targeting the central and peripheral nervous systems. Annu. Rev. Neurosci. 41, 323–348 (2018).
pubmed: 29709207
doi: 10.1146/annurev-neuro-080317-062048
Dimidschstein, J. et al. A viral strategy for targeting and manipulating interneurons across vertebrate species. Nat. Neurosci. 12, 1743–1749 (2016).
doi: 10.1038/nn.4430
Hrvatin, S. et al. A scalable platform for the development of cell-type-specific viral drivers. eLife 8, e48089 (2019).
pubmed: 31545165
pmcid: 6776442
doi: 10.7554/eLife.48089
Deverman, B. E., Ravina, B. M., Bankiewicz, K. S., Paul, S. M. & Sah, D. W. Y. Gene therapy for neurological disorders: progress and prospects. Nat. Rev. Drug Discov. 9, 641–659 (2018).
doi: 10.1038/nrd.2018.110
de Leeuw, C. N. et al. rAAV-compatible mini-romoters for restricted expression in the brain and eye. Mol. Brain 9, 52 (2016).
pubmed: 27164903
pmcid: 4862195
doi: 10.1186/s13041-016-0232-4
Jüttner, J. et al. Targeting neuronal and glial cell types with synthetic promoter AAVs in mice, non-human primates and humans. Nat. Neurosci. 22, 1345–1356 (2019).
pubmed: 31285614
doi: 10.1038/s41593-019-0431-2
Blankvoort, S., Witter, M. P., Noonan, J., Cotney, J. & Kentros, C. Marked diversity of unique cortical enhancers enables neuron-specific tools by enhancer-driven gene expression. Curr. Biol. 13, 2103–2114 (2018).
doi: 10.1016/j.cub.2018.05.015
Mehta, P. et al. Functional access to neuron subclasses in rodent and primate forebrain. Cell Rep. 26, 2818–2832 (2019).
pubmed: 30840900
pmcid: 6509701
doi: 10.1016/j.celrep.2019.02.011
Griffin, A. et al. Preclinical animal models for dravet syndrome: seizure phenotypes, comorbidities and drug screening. Front. Pharmacol. 9, 573 (2018).
pubmed: 29915537
pmcid: 5994396
doi: 10.3389/fphar.2018.00573
Ogiwara, I. et al. Nav1.1 localizes to axons of parvalbumin-positive inhibitory interneurons: a circuit basis for epileptic seizures in mice carrying an Scn1a gene mutation. J. Neurosci. 27, 5903–5914 (2007).
pubmed: 17537961
pmcid: 6672241
doi: 10.1523/JNEUROSCI.5270-06.2007
Favero, M., Sotuyo, N. P., Lopez, E., Kearney, J. A. & Goldberg, E. M. A transient developmental window of fast-spiking interneuron dysfunction in a mouse model of Dravet syndrome. J. Neurosci. 38, 7912–7927 (2018).
pubmed: 30104343
pmcid: 6125809
doi: 10.1523/JNEUROSCI.0193-18.2018
Goff, K. M. & Goldberg, E. M. Vasoactive intestinal peptide-expressing interneurons are impaired in a mouse model of Dravet syndrome. eLife 8, e46846 (2019).
pubmed: 31282864
pmcid: 6629374
doi: 10.7554/eLife.46846
Cheah, C. S. et al. Specific deletion of Nav1.1 sodium channels in inhibitory interneurons causes seizures and premature death in a mouse model of Dravet syndrome. Proc. Natl Acad. Sci. USA 109, 14646–14651 (2012).
pubmed: 22908258
pmcid: 3437823
doi: 10.1073/pnas.1211591109
Dutton, S. B. et al. Preferential inactivation of Scn1a in parvalbumin interneurons increases seizure susceptibility. Neurobiol. Dis. 49, 211–220 (2013).
pubmed: 22926190
doi: 10.1016/j.nbd.2012.08.012
Yu, F. H. et al. Reduced sodium current in GABAergic interneurons in a mouse model of severe myoclonic epilepsy in infancy. Nat. Neurosci. 9, 1142–1149 (2006).
pubmed: 16921370
doi: 10.1038/nn1754
Fulco, C. P. et al. Systematic mapping of functional enhancer-promoter connections with CRISPR interference. Science 354, 769–773 (2016).
pubmed: 27708057
pmcid: 5438575
doi: 10.1126/science.aag2445
Mo, A. et al. Epigenomic signatures of neuronal diversity in the mammalian brain. Neuron 86, 1369–1384 (2015).
pubmed: 26087164
pmcid: 4499463
doi: 10.1016/j.neuron.2015.05.018
Luo, C. et al. Robust single-cell DNA methylome profiling with snmC-seq2. Nat. Commun. 9, 3824 (2018).
pubmed: 30237449
pmcid: 6147798
doi: 10.1038/s41467-018-06355-2
Buenrostro, J. D. et al. Single-cell chromatin accessibility reveals principles of regulatory variation. Nature 523, 486–490 (2015).
pubmed: 26083756
pmcid: 4685948
doi: 10.1038/nature14590
Cusanovich, D. A. et al. Epigenetics. Multiplex single-cell profiling of chromatin accessibility by combinatorial cellular indexing. Science 348, 910–914 (2015).
pubmed: 25953818
pmcid: 4836442
doi: 10.1126/science.aab1601
Bejerano, G. et al. Ultraconserved elements in the human genome. Science 304, 1321–1325 (2004).
pubmed: 15131266
doi: 10.1126/science.1098119
Dimitrieva, S. & Bucher, P. UCNEbase—a database of ultraconserved non-coding elements and genomic regulatory blocks. Nucleic Acids Res. 41(Database issue), D101–D109 (2013).
Andersson, R. et al. An atlas of active enhancers across human cell types and tissues. Nature 507, 455–461 (2014).
pubmed: 24670763
pmcid: 5215096
doi: 10.1038/nature12787
Dousse, A., Junier, T. & Zdobnov, E. M. CEGA—a catalog of conserved elements from genomic alignments. Nucleic Acids Res. 44, 96–100 (2016).
doi: 10.1093/nar/gkv1163
Dickel, D. E. et al. Ultraconserved enhancers are required for normal development. Cell 172, 491–499 (2018).
pubmed: 29358049
pmcid: 5786478
doi: 10.1016/j.cell.2017.12.017
Chan, K. Y. et al. Engineered AAVs for efficient noninvasive gene delivery to the central and peripheral nervous systems. Nat. Neurosci. 20, 1172–1179 (2017).
pubmed: 28671695
pmcid: 5529245
doi: 10.1038/nn.4593
Batista-Brito, R. et al. The cell-intrinsic requirement of Sox6 for cortical interneuron development. Neuron 63, 466–481 (2009).
pubmed: 19709629
pmcid: 2773208
doi: 10.1016/j.neuron.2009.08.005
Rossignol, E., Kruglikov, I., van den Maagdenberg, A. M., Rudy, B. & Fishell, G. CaV2.1 ablation in cortical interneurons selectively impairs fast-spiking basket cells and causes generalized seizures. Ann. Neurol. 74, 209–222 (2013).
pubmed: 23595603
pmcid: 3849346
Gandal, M. J., Nesbitt, A. M., McCurdy, R. M. & Alter, M. D. Measuring the maturity of the fast-spiking interneuron transcriptional program in autism, schizophrenia, and bipolar disorder. PLoS ONE 7, e41215 (2012).
pubmed: 22936973
pmcid: 3427326
doi: 10.1371/journal.pone.0041215
Barnes, S. A. et al. Disruption of mGluR5 in parvalbumin-positive interneurons induces core features of neurodevelopmental disorders. Mol. Psychiatry 20, 1161–1172 (2015).
pubmed: 26260494
pmcid: 4583365
doi: 10.1038/mp.2015.113
Tremblay, R., Lee, S. & Rudy, B. GABAergic interneurons in the neocortex: from cellular properties to circuits. Neuron 91, 260–292 (2016).
pubmed: 27477017
pmcid: 4980915
doi: 10.1016/j.neuron.2016.06.033
Daigle, T. L. A suite of transgenic driver and reporter mouse lines with enhanced brain-cell-type targeting and functionality. Cell 174, 465–480 (2018).
pubmed: 30007418
pmcid: 6086366
doi: 10.1016/j.cell.2018.06.035
Chen, T. W. et al. Ultrasensitive fluorescent proteins for imaging neuronal activity. Nature 499, 295–300 (2013).
pubmed: 23868258
pmcid: 3777791
doi: 10.1038/nature12354
Magnus, C. J. et al. Ultrapotent chemogenetics for research and potential clinical applications. Science 364, eaav5282 (2019).
pubmed: 30872534
pmcid: 7252514
doi: 10.1126/science.aav5282
Armbruster, B. N., Li, X., Pausch, M. H., Herlitze, S. & Roth, B. L. Evolving the lock to fit the key to create a family of G protein-coupled receptors potently activated by an inert ligand. Proc. Natl Acad. Sci. USA 104, 5163–5168 (2007).
pubmed: 17360345
pmcid: 1829280
doi: 10.1073/pnas.0700293104
Yizhar, O. et al. Neocortical excitation/inhibition balance in information processing and social dysfunction. Nature 477, 171–178 (2011).
pubmed: 21796121
pmcid: 4155501
doi: 10.1038/nature10360
Eugène, E. et al. An organotypic brain slice preparation from adult patients with temporal lobe epilepsy. J. Neurosci. Methods 235, 234–244 (2014).
pubmed: 25064188
pmcid: 4426207
doi: 10.1016/j.jneumeth.2014.07.009
Gearing, L. J. et al. CiiiDER: a tool for predicting and analyzing transcription factor binding sites. PLoS ONE 14, e0215495 (2019).
pubmed: 31483836
pmcid: 6726224
doi: 10.1371/journal.pone.0215495
Fornes, O. et al. JASPAR 2020: update of the open-access database of transcription factor binding profiles. Nucleic Acids Res. 48, D87–D92 (2020).
pubmed: 31701148
doi: 10.1093/nar/gkaa516
Hodge, R. D. et al. Conserved cell types with divergent features in human versus mouse cortex. Nature 573, 61–68 (2019).
pubmed: 31435019
pmcid: 6919571
doi: 10.1038/s41586-019-1506-7
Boldog, E. et al. Transcriptomic and morphophysiological evidence for a specialized human cortical GABAergic cell type. Nat. Neurosci. 21, 1185–1195 (2018).
pubmed: 30150662
pmcid: 6130849
doi: 10.1038/s41593-018-0205-2
Feenstra, B. et al. Common variants associated with general and MMR vaccine-related febrile seizures. Nat. Genet. 46, 1274–1282 (2014).
pubmed: 25344690
pmcid: 4244308
doi: 10.1038/ng.3129
International League Against Epilepsy Consortium on Complex Epilepsies. Genetic determinants of common epilepsies: a meta-analysis of genome-wide association studies. Lancet Neurol. 13, 893–903 (2014).
doi: 10.1016/S1474-4422(14)70171-1
International League Against Epilepsy Consortium on Complex Epilepsies. Genome-wide megaanalysis identifies 16 loci and highlights diverse biological mechanisms in the common epilepsies. Nat. Commun. 9, 5269 (2018).
doi: 10.1038/s41467-018-07524-z
GTEx Consortium. The genotype-tissue expression (GTEx) pilot analysis: multitissue gene regulation in humans. Science 348, 648–660 (2015).
pmcid: 4547484
doi: 10.1126/science.1262110
Walker, M. C. & Kullmann, D. M. Optogenetic and chemogenetic therapies for epilepsy. Neuropharmacology 168, 107751 (2019).
Fang, R. et al. Fast and accurate clustering of single cell epigenomes reveals cis-regulatory elements in rare cell types. Preprint at bioRxiv https://doi.org/10.1101/615179 (2019).
Tasic, B. et al. Adult mouse cortical cell taxonomy revealed by single cell transcriptomics. Nat. Neurosci. 19, 335–346 (2016).
pubmed: 26727548
pmcid: 4985242
doi: 10.1038/nn.4216
Saunders, A. et al. Molecular diversity and specializations among the cells of the adult mouse brain. Cell 174, 1015–1030.e16 (2018).
pubmed: 30096299
pmcid: 6447408
doi: 10.1016/j.cell.2018.07.028