Spatial genomics of AAV vectors reveals mechanism of transcriptional crosstalk that enables targeted delivery of large genetic cargo.
Coughlin GM, Borsos M, Barcelona BH, Appling N, Mayfield AMH, Mackey ED, Eser RA, Jackson CR, Chen X, Kumar SR, Gradinaru V
Nat Biotechnol. 2025 Mar 20. doi: 10.1038/s41587-025-02565-4.
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Plasmids from Article
| ID | Plasmid | Purpose |
|---|---|---|
| 231345 | pAAV.CAG-NLS-EGFP-WPRE-SV40pA-T7-T3-BC(p1-14) | Single stranded AAV genome with components for tracking AAV genome via AAV-Zombie. Also expresses a nuclear localized EGFP from CAG promoter. |
| 231346 | pscAAV.CAG-EGFP-SV40pA-T7-T3-BC(p1-14) | Self complementary AAV genome with components for tracking self-complementary AAV genomes via AAV-Zombie. Also expresses EGFP from CAG promoter. |
| 231347 | pAAV.BC(p1-10)-CAG-EGFP-W3SL-BC(p1-10) | Single stranded AAV genome with concatemerization-dependent barcodes, for tracking AAV concatemers via SpECTr. Also expresses EGFP from CAG promoter. |
| 231348 | pAAV.T7-SP6-BC(p11-14)-CAG-EGFP-W3SL-T7 | Single stranded AAV genome with barcodeless T7 RNA polymerase promoter and SP6-driven barcode, for tracking AAV concatemers via SpECTr. Also expresses EGFP from CAG promoter. |
| 231349 | pscAAV.BC(p1-6)-CAG-EGFP-SV40pA-BC(p1-6) | Self complementary AAV genome with concatemerization-dependent barcodes, for tracking AAV concatemers via SpECTr. Also expresses EGFP from CAG promoter. |
| 231350 | pscAAV.T7-SP6-BC(p11-14)-CAG-EGFP-SV40pA-T7 | Self complementary AAV genome with barcodeless T7 RNA polymerase promoter and SP6-driven barcode, for tracking AAV concatemers via SpECTr. Also expresses EGFP from CAG promoter. |
| 231351 | pAAV.BC(p1-10)-Ple155-CI-EGFP-W3SL-BC(p1-10) | Single stranded AAV genome with concatemerization-dependent barcodes, for tracking AAV concatemers via SpECTr. Also expresses EGFP from Ple155 element, active in Purkinje cells. |
| 231352 | pAAV.T7-SP6-BC(p11-14)-mDLX-minBG-CI-mRuby2-W3SL-T7 | Single stranded AAV genome with barcodeless T7 RNA polymerase promoter and SP6-driven barcode, for tracking AAV concatemers via SpECTr. Also expresses mRuby2 from minBG promoter with mDLX enhancer. |
| 231353 | pAAV.T7-SP6-BC(p11-14)-minBG-CI-mRuby2-W3SL-T7 | Single stranded AAV genome with barcodeless T7 RNA polymerase promoter and SP6-driven barcode, for tracking AAV concatemers via SpECTr. Also expresses mRuby2 from minBG promoter. |
| 231354 | pAAV.BC(p1-10)-CMVe-SCP1-TagBFP2-W3SL-BC(p1-10) | Single stranded AAV genome with concatemerization-dependent barcodes, for tracking AAV concatemers via SpECTr. Also expresses TagBFP from SCP1 promoter and CMV enhancer. |
| 231355 | pAAV.BC(p1-10)-SCP1-TagBFP2-W3SL-BC(p1-10) | Single stranded AAV genome with concatemerization-dependent barcodes, for tracking AAV concatemers via SpECTr. Also expresses TagBFP from SCP1 promoter. |
| 231356 | pAAV.T7-SP6-BC(p11-14)-SCP1-tdTomato-W3SL-T7 | Single stranded AAV genome with barcodeless T7 RNA polymerase promoter and SP6-driven barcode, for tracking AAV concatemers via SpECTr. Also expresses tdTomato from SCP1 promoter. |
| 231357 | pAAV.T7-SP6-BC(p11-14)-CMVp-CI-mRuby2-W3SL-T7 | Single stranded AAV genome with barcodeless T7 RNA polymerase promoter and SP6-driven barcode, for tracking AAV concatemers via SpECTr. Also expresses mRuby2 from CMV promoter. |
| 231358 | pAAV.T7-SP6-BC(p11-14)-Ef1s-CI-mRuby2-W3SL-T7 | Single stranded AAV genome with barcodeless T7 RNA polymerase promoter and SP6-driven barcode, for tracking AAV concatemers via SpECTr. Also expresses mRuby2 from Ef1s promoter. |
| 231359 | pAAV.T7-SP6-BC(p11-14)-SCP1-CI-mRuby2-W3SL-T7 | Single stranded AAV genome with barcodeless T7 RNA polymerase promoter and SP6-driven barcode, for tracking AAV concatemers via SpECTr. Also expresses mRuby2 from SCP1 promoter. |
| 231360 | pAAV.BC(p1-10)-hDLXI56i-minBG-CI-EGFP-W3SL-BC(p1-10) | Single stranded AAV genome with concatemerization-dependent barcodes, for tracking AAV concatemers via SpECTr. Also expresses EGFP from the minBG promoter with hDLXI56i enhancer. |
| 231361 | pAAV.BC(p1-10)-mscRE4-minBG-CI-EGFP-W3SL-BC(p1-10) | Single stranded AAV genome with concatemerization-dependent barcodes, for tracking AAV concatemers via SpECTr. Also expresses EGFP from the minBG promoter with mscRE4 enhancer. |
| 231362 | pAAV.minBG-EGFP-W3SL_BbsI(GGA) | minBG-driven EGFP, containing cassette for BbsI-based Golden Gate assembly (e.g. of sgRNA cassette(s)). Can be used as 'no guide' control. |
| 231363 | pAAV.Ple155-CI-EGFP-W3SL_BbsI(GGA) | Ple155-driven EGFP, containing cassette for BbsI-based Golden Gate assembly (e.g. of sgRNA cassette(s)). Can be used as 'no guide' control. |
| 231364 | pAAV.Ple155-CI-mRuby2-W3SL_BbsI(GGA) | Ple155-driven mRuby2, containing cassette for BbsI-based Golden Gate assembly (e.g. of sgRNA cassette(s)). Can be used as 'no guide' control. |
| 231365 | pAAV.minBG-EGFP-W3SL_2x-U6-sasgAi14 | minBG-driven EGFP, also encoding U6-driven sgRNAs to direct saCas9 to both sides of stop cassette in Ai14 mice. |
| 231366 | pAAV.Ple155-CI-EGFP-W3SL_2x-U6-sasgAi14 | Ple155-driven EGFP, also encoding U6-driven sgRNAs to direct saCas9 to both sides of stop cassette in Ai14 mice. |
| 231367 | pAAV.U6-sasgRNA(SapI)_Ple155-CI-EGFP-W3SL_BbsI(GGA) | Ple155-driven EGFP, also encoding U6-driven sgRNA cassette, with SapI sites to clone crRNA sequence |
| 231368 | pAAV.U6-sasgRNA(SapI)_Ple155-CI-mRuby2-W3SL_BbsI(GGA) | Ple155-driven mRuby2, also encoding U6-driven sgRNA cassette, with SapI sites to clone crRNA sequence |
| 231369 | pAAV.minBG-CI-SaCas9-W3SynpA | minBG-driven SaCas9, with short synthetic terminator sequence. |
| 231370 | pAAV.minCMVe-SCP1-SaCas9-W3SynpA | SCP1 promoter-driven SaCas9 with truncated CMV enhancer and short synthetic terminator sequence. |