KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Guinea pig polyclonal anti-VGlut1 | Millipore Sigma | Cat# AB5905; RRID: AB_2301751 |
| Rabbit polyclonal anti-Homer1 | Synaptic Systems | Cat# 160003 |
| Monoclonal Anti-HA antibody produced in mouse | Sigma-Aldrich | Cat# H3663; RRID:AB_262051 |
| Isolectin B4 647 | Invitrogen | Cat# I32450; RRID: SCR_014365 |
| Chicken polyclonal anti Neurofilament (NFH) | Aves | Cat# NFH0211 |
| Rabbit polyclonal anti DsRed | Clontech | Cat# 632496; RRID: AB_10013483 |
| Goat polyclonal anti mCherry | Sicgen | Cat# Ab0040-200; RRID: AB_2333092 |
| Goat polyclonal anti GFP-FITC | Abcam | Cat# ab6662; RRID: AB_305635 |
| Mouse monoclonal anti-Neuronal Nuclei (NeuN) | Millipore | Cat# MAB377; RRID: AB_2298772 |
| Rat polyclonal anti-Troma1 (cytokeratin endo A) supernatant | U of Iowa (DSHB) | Cat# TROMA-I; RRID: AB_531826 |
| Rabbit anti GFP | Thermo Fisher Scientific | Cat# A-11122; RRID:AB_221569 |
| Rabbit anti S100 | Proteintech | Cat# 15146-1-AP; RRID:AB_2254244 |
| Mouse anti PSD-95 | Thermo Fisher Scientific | Cat# MA1-045; RRID:AB_325399 |
| Rabbit anti Human HA | Sigma-Aldrich | Cat# H6908; RRID:AB_260070 |
| Chicken anti MAP2 | Millipore | Cat# AB5543; RRID:AB_571049 |
| Guinea pig anti VGLUT2 | Millipore | Cat# AB2251; RRID:AB_1587626 |
| Rabbit anti CGRP | ImmunoStar | Cat# 24112; RRID:AB_572217 |
| Mouse anti Kv4.3 | Antibodies Incorporated | Cat# 75-017; RRID:AB_2131966 |
| Rabbit anti Parvalbumin | Swant | Cat# PV27; RRID:AB_2631173 |
| Rabbit anti NeuN | Millipore | Cat# ABN78; RRID:AB_10807945 |
| Goat anti-Rabbit IgG (H+L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 488 | Thermo Fisher Scientific | Cat# A-11008; RRID:AB_143165 |
| Goat anti-Guinea Pig IgG (H+L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor 488 | Thermo Fisher Scientific | Cat# A-11073; RRID:AB_2534117 |
| Goat anti-Guinea Pig IgG (H+L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor 555 | Thermo Fisher Scientific | Cat# A-21435; RRID:AB_2535856 |
| Alexa Fluor 647-AffiniPure Donkey Anti-Chicken | Jackson ImmunoResearch Labs | Cat# 703-605-155; RRID:AB_2340379 |
| Donkey anti-Goat IgG (H+L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 546 | Thermo Fisher Scientific | Cat# A-11056; RRID:AB_2534103 |
| Donkey anti-Rabbit IgG (H+L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor 647 | Thermo Fisher Scientific | Cat# A-31573; RRID:AB_2536183 |
| Donkey anti-Rabbit IgG (H+L) Highly Cross-Adsorbed Secondary Antibody | Thermo Fisher Scientific | Cat# A-21206; RRID:AB_2535792 |
| Alexa Fluor 647-AffiniPure Donkey Anti-Guinea Pig IgG (H+L) | Jackson ImmunoResearch Labs | Cat# 706-605-148; RRID:AB_2340476 |
| Bacterial and Virus Strains | ||
| AAV8-CAG-Synaptophysin-tdTomato | Penn Viral Core | |
| AAV-Retro-Flex-PLAP | Sara L. Prescott | Prescott et al., 2020 |
| AAV9-hSyn-Cre-P2A-dTomato | Addgene | Cat# 107738-AAV9; RRID:Addgene_107738 |
| Chemicals, Peptides, and Recombinant Proteins | ||
| Zamboni’s Fixative | Fisher Scientific | Cat# NC9335034 |
| Paraformaldehyde, reagent grade, crystalline | Millipore Sigma | Cat# P6148-500G |
| 4-nitro blue tetrazolium chloride | Sigma | Cat# 11383213001 |
| 5-bromo-4-chloro-3-indolyl-phosphate, 4-toluidine salt | Sigma | Cat# 11383221001 |
| Benzyl Benzoate | Sigma-Aldrich | Cat# B-6630 |
| Benzyl Alcohol | Sigma-Aldrich | Cat# 402834 |
| Tamoxifen | Sigma | Cat# T5648-1g |
| NAIR, commercial hair remover | Church and Dwight Co., Princeton NJ | ASIN# B001G7PTWU |
| Isofluorane | Henry Schein, supplied by Covetrus | Cat# 029405; |
| Sunflower seed oil | Sigma | Cat# S5007 |
| Tetrodotoxin citrate | Tocris | Cat# 1069 |
| Critical Commercial Assays | ||
| RNAscope Fluorescent Multiplex Assay | ACD Bio | Cat# 320850 |
| RNeasy Mini Kit | Qiagen | Cat# 74104 |
| Nextera XT DNA Library Prep Kit | illumina | Cat# FC-131 |
| SsoAdvanced Universal SYBR Green Supermix | Bio-Rad | Cat# 1725271 |
| Deposited Data | ||
| RNA-sequencing Data | This manuscript | GEO (https://www.ncbi.nlm.nih.gov/geo/) |
| Experimental Models: Cell Lines | ||
| HEK 293T cells | DSMZ | Cat# CRL-3216, RRID: CVCL_0063 |
| Experimental Models: Organisms/Strains | ||
| Mouse: AdvillinCre | Hasegawa et al., 2007 | RRID: IMSR_JAX:032536; MGI:1333798 |
| Mouse: AdvillinCreER | Lau et al., 2011 | Strain #:026516 RRID:IMSR_JAX:0265 16 |
| Mouse: Lbx1Cre | Sieber et al., 2007 | N/A |
| Mouse: DhhCre | Jaegle et al., 2003 | Strain #:0129 29 RRID:IMSR_JAX:012929 |
| Mouse: Cdx2Cre | Coutaud and Pilon, 2013 | N/A |
| Mouse: Piezo2fl | JAX | 027720 |
| Mouse: Pcdhgfcon3 | Prasad et al., 2008; Lefebvre et al., 2008 | Strain #:0126 44; RRID:IMSR_JAX:012644 |
| Mouse: Rosa26LSL-synaptophysin-tdTomato (Ai34) | Jackson Laboratory stock | Jax:012570 |
| Mouse: B6;129S6-Gt(ROSA)26Sortm14(CAG-tdTomato) Hze/J (Ai14) | Jackson Laboratory stock | Jax:007908 |
| Mouse: Pcdhg3R1 | Garrett et al., 2019 | N/A |
| Mouse: Pcdhg3R2 | Garrett et al., 2019 | N/A |
| Mouse: Pcdhg1R1 | Garrett et al., 2019 | N/A |
| Mouse: Pcdhgc3KO | Garrett et al., 2019 | N/A |
| Mouse: PcdhgTAKO | Chen et al., 2012 | N/A |
| Mouse: TrkBCreER | Rutlin et al., 2014 | MGI:5616440 |
| Mouse: RetCreER | Luo et al., 2009 | N/A |
| Mouse: PVires-Cre | Hippenmeyer et al., 2005 | MGI:3590684 |
| Mouse: Rpl22HA | Sanz et al., 2009 | Strain #:0110 29 RRID:IMSR_JAX:011029 |
| Mouse: R26LSL-Pcdhga1-mCherry (cA1-mCherry) | Lefebvre, et al., 2012 | |
| Mouse: R26LSL-Pcdhgc3-mCherry (cC3-mCherry) | Lefebvre, et al., 2012 | |
| Oligonucleotides | ||
| Primers for mouse genotyping (see Table S1) | This paper | N/A |
| Mm-Pcdhga2 | ACD Bio | Cat# 2835811 |
| Mm-Pcdhga7-C2 | ACD Bio | Cat# 835781-C2 |
| Mm-Pcdhgb1-O1 | ACD Bio | Cat# 837621 |
| Mm-Pcdhgc3 | ACD Bio | Cat# 802841 |
| Mm-Pcdhgc4-C3 | ACD Bio | Cat# 835791 |
| Mm-Slc17a6-C3 | ACD Bio | Cat# 319171 |
| Mm-Nefh | ACD Bio | Cat# 443671 |
| Mm-Plp1 | ACD Bio | Cat# 428181 |
| Software and Algorithms | ||
| ImageJ | Schneider et al., 2012 | imagej.nih.gov/ij |
| Clampex 10 | Molecular Devices | https://www.moleculardevices.com; RRID: SCR_011323 |
| ZEN | Zeiss | https://www.zeiss.com/microscopy/us/downloads.html; RRID: SCR_013672 |
| R and RStudio | R and RStudio |
https://www.r-project.org/ https://www.rstudio.com/; RRID: SCR_000432 |
| DESeq2 | Love et al., 2014 | https://bioconductor.org/packages/release/bioc/html/DESeq2.html; RRID: SCR_015687 |
| ComplexHeatmap | Gu et al., 2016 | https://bioconductor.org/packages/release/bioc/html/ComplexHeatmap.html |
| MATLAB | Mathworks | https://www.mathworks.com/products/matlab.html; RRID: SCR_001622 |
| JRCLUST | Jun et al., 2017 | https://www.biorxiv.org/content/10.1101/101030v1 |