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8 protocols using piggybac transposon vector

1

APOBEC3A cDNA Expression System

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The APOBEC3A cDNA was obtained from the Thermo Scientific Open Biosystems Human ORFeome collection (Cat# OHS5894-9916829). The pACGFP-ERT2 vector was provided by Dr. Neils Mailand (Haahr et al., 2016 (link)). PiggyBac transposon vectors were purchased from Systems Biosciences. pUGI-NLS UDG Inhibitor (UGI) was purchased from Addgene (Cat#101091).
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2

APOBEC3A cDNA Expression System

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The APOBEC3A cDNA was obtained from the Thermo Scientific Open Biosystems Human ORFeome collection (Cat# OHS5894-9916829). The pACGFP-ERT2 vector was provided by Dr. Neils Mailand (Haahr et al., 2016 (link)). PiggyBac transposon vectors were purchased from Systems Biosciences. pUGI-NLS UDG Inhibitor (UGI) was purchased from Addgene (Cat#101091).
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3

Modular Inducible Genetic Cargo System

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The pTETRIS-Cargo vector was created from components of a cumate-inducible piggyBAC transposon vector (System Biosciences), pGl4.10-Luciferase (Promega), and pTRE-Tight (Clontech). Briefly, a 567bp fragment containing a minimal mouse PGK promoter was cloned into a SacI site in pGl4.10-Luciferase to generate pGI4-PGK-Luc-pA. The reverse complement of PGK-Luc-pA was cloned into a vector containing the bovine growth hormone polyA site. The entire bGHpa-[reversePGK-Luc-pA] was cloned into NotI and SalI sites of the piggyBAC vector (System Biosciences). The cumate-inducible promoter in the piggyBAC vector was then replaced with the Tetracycline Responsive Element (TRE) from pTRE-Tight (Clontech) via Gibson assembly to generate pTETRIS-Cargo in Fig. 4A, in which the lncRNA, the luciferase gene, and a gene encoding puromycin resistance are all flanked by chicken HS4 insulator elements, and inverted terminal repeats (ITRs) recognized by the piggyBAC transposase. The rtTA-cargo vector from Fig. 4A was generated by cloning the hUbiC-rtTA3-IRES-Neo cassette from pSLIK-Neo (Addgene Plasmid #25735) into SfiI and SalI sites in a piggyBAC transposon vector (System Biosciences). The piggyBAC transposase from System Biosciences was cloned into SmaI and HindIII sites into pUC19 (NEB) to allow propagation of the transposase on ampicillin plates.
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4

Stable Transfection of PBMCs

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Fresh buffy coats from healthy donors were collected from the Blood Donation Center of the University Hospital Freiburg, and PBMCs were isolated by Pancoll (Pan Biotech) density gradient centrifugation. We followed recently published protocols [12 (link), 50 (link)] for stable transfection of PBMCs with piggyBac vectors, except for the methods for stimulation and expansion of T cells. Briefly, 10 μg AC133-CAR piggyBac transposon vector and 5 μg Super piggyBac transposase (System Biosciences) plasmid were used for one nucleofection reaction. To stimulate T cells, on days 1 and 14, allogeneic PBMCs from five donors were irradiated with 40 Gy and added to the T cell culture at a ratio of 10:1 and the cell culture was supplemented with 50 ng/mL of the anti-CD3 mAb OKT3 and 300 IU/mL IL-2. At 2 days after stimulation, the T cells were washed and cultured in T cell medium (RPMI 1640 plus 10% FBS, penicillin-streptomycin, and GlutaMAX) supplemented with 300 IU/mL IL-2 for expansion. The medium was refreshed every 2–3 days. AC133-CAR-expressing T cells were selected with 1 μg/mL puromycin starting 5 days after transfection. Transfected T cells were analyzed on day 24 (10 days after the second stimulation). Nontransfected T cells were generated as described above, but without nucleofection.
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5

Stable COL7A1-dTS-MG Cell Line

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To create a stable COL7A1-dTS-MG expressing cell line the MG was cloned into a PiggyBac transposon vector (System Biosciences, Mountain View, CA, USA) according to Koller et al. using the following primer pair for PCR: (forward primer: 5′-GATCTCTAGACACCATGGTGAGCAAGGGCGC-3′, reverse primer: 5′-GATCTCTAGATCACTTGTACAGCTCATCC-3′). The stable COL7A1-dTS-MG expressing cell line was created according to a previously published protocol [16 (link)].
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6

Modular Inducible Genetic Cargo System

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The pTETRIS-Cargo vector was created from components of a cumate-inducible piggyBAC transposon vector (System Biosciences), pGl4.10-Luciferase (Promega), and pTRE-Tight (Clontech). Briefly, a 567bp fragment containing a minimal mouse PGK promoter was cloned into a SacI site in pGl4.10-Luciferase to generate pGI4-PGK-Luc-pA. The reverse complement of PGK-Luc-pA was cloned into a vector containing the bovine growth hormone polyA site. The entire bGHpa-[reversePGK-Luc-pA] was cloned into NotI and SalI sites of the piggyBAC vector (System Biosciences). The cumate-inducible promoter in the piggyBAC vector was then replaced with the Tetracycline Responsive Element (TRE) from pTRE-Tight (Clontech) via Gibson assembly to generate pTETRIS-Cargo in Fig. 4A, in which the lncRNA, the luciferase gene, and a gene encoding puromycin resistance are all flanked by chicken HS4 insulator elements, and inverted terminal repeats (ITRs) recognized by the piggyBAC transposase. The rtTA-cargo vector from Fig. 4A was generated by cloning the hUbiC-rtTA3-IRES-Neo cassette from pSLIK-Neo (Addgene Plasmid #25735) into SfiI and SalI sites in a piggyBAC transposon vector (System Biosciences). The piggyBAC transposase from System Biosciences was cloned into SmaI and HindIII sites into pUC19 (NEB) to allow propagation of the transposase on ampicillin plates.
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7

Cloning of Fluorescent Protein-Tagged Transcription Factors

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Sp1, TBP and H2B cDNA was amplified from ES cell cDNA libraries. Foxp2 cDNA was obtained from GE Dharmacon (Cat. #: MMM1013-202798679). Htt-94Q and Htt-25Q cDNA were obtained from Addgene (Plasmid #23966; Htt-94Q and Plasmid #1177; Htt-25Q). Subsequently, full-length and truncated protein fragments were cloned into Piggybac transposon vector (PB533A-2, System Biosciences) or a modified Piggybac transposon vector with PuroR using indicated primers or gBlock fragments (IDT) (Supplementary file 1). HaloTag (Promega, Madison, WI) or mEOS3.2 (Addgene: Plasmid #54525) was further cloned to fuse with fragments at the N-terminus (Sp1, Sp1 fragment, TBP) or C-terminus (H2B, Htt-25Q and Htt-94Q). The primer information for cloning is in Supplementary file 1.
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8

Multicolor Kinase Translocation Reporter

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We previously reported a PiggyBac transposon vector (Systems Biosciences, Palo Alto, CA, USA) co-expressing KTRs for Akt and ERK, mCherry fused to histone 2B (H2B-mCherry) for nuclear localization, and puromycin for selection of stable cells2 (link). To add the p38-mTagBFP2 KTR, we linearized plasmid pHAEP2 (link) with EcoN1 and inserted two synthetic DNA fragments encoding P2A-p38 KTR23 (link) and mTagBFP2-P2A (Evrogen, Moscow, Russia) using NEBuilder HiFi DNA Assembly (NEB, Ipswich MA, USA). See Supplement 1 for full vector sequence. We verified the final construct by DNA sequencing and visualization of expected blue fluorescence from the reporter when transiently transfected into cells. We generated MDA-MB-231 cells stably expressing the 3X KTR reporter by co-transfecting cells with a 3:1 ratio of 3X KTR reporter to Super PiggyBac transposase (Systems Biosciences) and selecting cells with 5 μg/ml puromycin (ThermoFisher) as described2 (link).
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