| Strain, strain background (Mus musculus) |
C57BL/6 J (See Supplementary file 1 for details) |
Jackson Laboratory |
000664 |
|
| Recombinant DNA reagent |
pRVdG-4mCherry (plasmid) |
Weible et al., 2010
|
Addgene_52488
|
|
| Recombinant DNA reagent |
RabV CVS-N2c(deltaG)-mCherry (plasmid) |
Reardon et al., 2016
|
Addgene_73464
|
|
| Recombinant DNA reagent |
pCAG-B19N (plasmid) |
Chatterjee et al., 2018
|
Addgene_59924
|
|
| Recombinant DNA reagent |
pCAG-B19P (plasmid) |
Chatterjee et al., 2018
|
Addgene_59925
|
|
| Recombinant DNA reagent |
pCAG-B19G (plasmid) |
Chatterjee et al., 2018
|
Addgene_59921
|
|
| Recombinant DNA reagent |
pCAG-B19L (plasmid) |
Chatterjee et al., 2018
|
Addgene_59922
|
|
| Recombinant DNA reagent |
pCAG-T7pol (plasmid) |
Chatterjee et al., 2018
|
Addgene_59926
|
|
| Recombinant DNA reagent |
pCAG-N2cN (plasmid) |
This paper |
Addgene_100801
|
Used in rabies virus rescue (see Materials and methods M5) |
| Recombinant DNA reagent |
pCAG N2cP (plasmid) |
This paper |
Addgene_100808
|
Used in rabies virus rescue (see Materials and methods M5) |
| Recombinant DNA reagent |
pCAG-N2cG (plasmid) |
This paper |
Addgene_100811
|
Used in rabies virus rescue (see Materials and methods M5) |
| Recombinant DNA reagent |
pCAG-N2cL (plasmid) |
This paper |
Addgene_100812
|
Used in rabies virus rescue (see Materials and methods M5) |
| Sequence-based reagent |
See Supplementary file 3 for details |
Integrated DNA Technologies |
NA |
|
| Commercial assay or kit |
MiSeq Reagent Nano Kit v2 (300-cycles) |
Illumina |
MS-103–1001 |
|
| Commercial assay or kit |
RevertAid Reverse Transcriptase |
Thermo Fisher |
EP0442 |
|
| Commercial assay or kit |
RiboLock RNase Inhibitor |
Thermo Fisher |
EO0384 |
|
| Commercial assay or kit |
Phusion High-Fidelity DNA Polymerase |
Thermo Fisher |
F530L |
|
| Commercial assay or kit |
Ampligase Thermostable DNA Ligase |
Biosearch Technologies |
A0110K |
|
| Commercial assay or kit |
RNase H |
Qiagen |
Y9220L |
|
| Commercial assay or kit |
Phi29 dna polymerase |
Thermo Fisher |
EP0094 |
|
| Chemical compound, drug |
Iodoacetamide, No-Weigh |
Thermo Fisher |
A39271 |
|
| Chemical compound, drug |
Bis-PEG9-NHS ester |
BroadPharm |
BP-21504 |
|
| Software, algorithm |
MATLAB |
Mathworks |
RRID: SCR_001622
|
|
| Software, algorithm |
R |
R Project for Statistical Computing |
RRID: SCR_001905
|
|
| Software, algorithm |
Custom scripts for data analysis/processing |
This paper |
|
See M15. Data and Code availability for links |
| Other |
AAV2-retro-syn-mCre (virus) |
Jin et al., 2023b
|
Addgene_178515 (genome plasmid) |
Helper virus for barcoded rabies virus (see Figure 5B) |
| Other |
AAV1-syn-FLEX-splitTVA-EGFP-tTA (virus) |
Liu et al., 2017
|
Addgene_100798 (genome plasmid) |
Helper virus for barcoded rabies virus (see Figure 5B) |
| Other |
AAV1-TREtight-mTagBFP2-B19G (virus) |
Liu et al., 2017
|
Addgene_100799 (genome plasmid) |
Helper virus for barcoded rabies virus (see Figure 5B) |
| Other |
AAV1-TREtight-mTagBFP2-N2cG (virus) |
This paper |
Addgene_192838 (genome plasmid) |
Helper virus for CVS-N2c strain of rabies virus (see Figure 5—figure supplement 1) |
| Other |
N2c∆G-4mCherry_CCS2_20nt_HM(EnvA) (virus) |
This paper |
|
Barcoded rabies virus library used for monosynaptic tracing with scRNA-seq (see Materials and methods M5) |
| Other |
RV∆G-4mCherry_CCS2_20nt_HM(EnvA) (virus) |
This paper |
|
Barcoded rabies virus library used for monosynaptic tracing with BARseq (see Materials and methods M5) |
| Other |
RV∆G-4mCherry_CCS2_20nt_HM(B19G) (virus) |
This paper |
|
Barcoded rabies virus library used for retrograde labeling (see Materials and methods M5) |
| Other |
RV∆G-4mCherry_20-mer barcode(B19G) (virus) |
This paper |
|
Barcoded rabies virus library used for retrograde labeling (see Materials and methods M5) |
