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Pcdna6 tr vector

Manufactured by Thermo Fisher Scientific
Sourced in United States, Italy

The PcDNA6/TR vector is a plasmid designed for the regulated expression of target genes in mammalian cell lines. It contains a tetracycline-regulated promoter system, allowing for the controlled expression of the gene of interest in the presence or absence of tetracycline or its derivatives.

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8 protocols using pcdna6 tr vector

1

Inducible Expression of YAP and PTCH1 in HEK293 Cells

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YAP cDNA, wild type (WT) in pcDNA4/His-Max vector and p73 HA tagged expression vector were as described previously [12 (link)]. Human PTCH1 cDNA (full length, 2172 bp) was sub-cloned into pFLAG CMV2 vector into KpnI and XhoI sites. The FLAG-tagged PTCH1 was then sub-cloned into pcDNA6/TR vector from Invitrogen. This vector encodes TET repressor and was used to establish stable, inducible HEK293 cell line. The same method as the one used for the establishment of YAP inducible HEK293 cells was used for the FLAG-tagged PTCH1 inducible cells [12 (link)].
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2

RhoA Activation Assay and Apoptosis Analysis

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Chang liver and T-REx-HeLa were purchased from ATCC (#CCL-13), and Invitrogen (R714-07), respectively. G418 sulfate was purchased from AG Scientific, doxycycline from BD Biosciences, and anti-MYPT1, anti-pMYPT1, anti-RhoA antibody were purchased from Cell Signaling. RhoA Pull-down Activation Assay Biochem kit was obtained from Cytoskeleton, and Alexa Fluor 488 goat anti-mouse IgG antibody, blasticidin, pcDNA6/TR vector and TRIZOL reagent were purchased from Invitrogen. Rhodamine phalloidin was obtained from Life Technologies, pSuperior.neo vector from OligoEngine, and Mo-MuLV reverse transcriptase from Promega. In Situ Cell Death Detection Kit was purchased from Roche. Annexin V-FITC Apoptosis Detection Kit, anti-α-tubulin antibody, blebbistatin, cycloheximide, 4′,6-Diamidino-2-phenylindole dihydrochloride (DAPI), HRP-conjugated goat anti-rabbit IgG antibody, HRP-conjugated goat anti-mouse IgG antibody, human tumor necrosis factor-α (hTNF-α), phosphatase inhibitor cocktail II, III, propidium iodide, protease inhibitor mixture, RNase A and Y-27632 were purchased from Sigma. DNAs were synthesized from Cosmogenetech (Korea). The His-tagged Tat-C3 transferase exoenzyme (pHis-Tat-C3) expression vector was provided by Jae Bong Park and the recombinant C3 transferase was prepared as previously described [20 (link)].
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3

Generation of Inducible Lentiviral Vectors

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The cloning of the pBABE‐CD3 and pcDNA4‐Tet‐hAID was described previously [14]. The pCL‐Ampho vector was a kind gift from Prof. Haim Cohen (Bar Ilan University, Ramat Gan, Israel). The pCL‐Eco and codon‐optimized pMSGV1‐Pmel‐1 TCR vector (codon optimized Pmel‐1α and β chains separated by a T2A segment) vector were a kind gift from Dr. Nick Restifo (NIH, Bethesda, MD, USA), as previously described [42]. The codon‐optimized MP71‐hT27 TCR and MP71‐T1367 TCR vectors containing mouse constant regions were a kind gift from Prof. Thomas Blankenstein (MDC, Berlin, Germany), as previously described [10]. The mutant MP71‐hT27 TCR vectors and pcDNA4‐Tet‐hAID mut 7.3 vector, as previously described [25], were generated using site‐directed mutagenesis (SDM) with the Phusion SDM Kit (Thermo‐Fischer Scientific, Waltham, MA, USA) according to the manufacturer's protocol. The pCDNA6‐TR vector, containing the TetR (or TR), was purchased commercially (Invitrogen, Carlsbad, CA, USA). The pMSGV1‐TetR vector was generated using restriction‐free cloning, as previously described [43], with the Phusion HSII HF polymerase (Thermo‐Fischer Scientific) according to the manufacturer's protocol. Sequencing primers: MP71 For: ATTTGTCTGAAAATTAGCTCGA, MP71 Rev: AGAGCAACTACAGCTACTGC, hT27 internal For: CATTTAAATGTATACCCAAATCAA, pMSGV1 For: CCTCAAAGTAGACGGCATCG (Sigma‐Aldrich, Rehovot, Israel).
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4

Inducible Expression of LAP and LIP

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The pcDNA4/TO expression vectors (Invitrogen Life Technologies, Milan, Italy) for LAP and LIP, produced as reported previously [8 (link)], were co-transduced with pcDNA6/TR vector (Invitrogen Life Technologies) in parental cells. Doxycycline-inducible (TetON) stable clones were generated by selecting cells with 2 μg/ml blasticidin S (Invitrogen Life Technologies) and 100 μg/ml zeocin (InvivoGen, San Diego, CA). LIP induction was activated by adding 1 μg/ml doxycycline in the culture medium.
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5

Conditional Expression and Silencing of C/EBP-β Isoforms

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1 μg pcDNA4/TO expression vectors (Invitrogen Life Technologies) for C/EBP-β LAP and LIP, produced as reported previously [24 (link)], were co-transduced with 1 μg pcDNA6/TR vector (Invitrogen Life Technologies) in 1 × 106 cells. Stable TetON clones were generated by selecting cells with 2 μg/ml blasticidin S (ThermoFisher) and 100 μg/ml zeocin (InvivoGen, San Diego, CA). LAP and LIP induction was activated by adding 1 μg/ml doxycycline (Sigma Aldrich) in the culture medium. LAP and LIP expression was analyzed by immunoblotting 24 h after doxycycline treatment. For silencing, 1 × 106 cells were transduced with 1 μg of a green fluorescence protein (GFP)-lentiviral plasmid containing a non-effective 29-mer scrambled shRNA cassette (Origene, Rockville, MD), two different sequences targeting HIF-1α (TL320380, Origene), two different sequences targeting C/EBP-β (TL320301, Origene). Stably silenced clones were generated by selecting cells with 0.25 μg/ml puromycin (InvivoGen) for 4 weeks. The silencing was verified by RT-PCR and immunoblotting.
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6

Inducible Expression and Silencing of LAP/LIP

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Life Technologies, Milan, Italy) for LAP and LIP, produced as reported previously [17] , were cotransduced with pcDNA6/TR vector (Invitrogen Life Technologies) in parental cells. Stable TetON clones were generated by selecting cells with 2 μg/ml blasticidin S (Invitrogen Life Technologies) and 100 μg/ml zeocin (InvivoGen, San Diego, CA). LAP and LIP induction was activated by adding 1 μg/ml doxycycline in the culture medium.
2.8.C/EBP-β LIP silencing. 2×10 6 cells in 0.25 ml serum/antibiotic-free medium were transfected either with non-targeting scrambled siRNA pools or siRNA pools specifically targeting LIP sequence (customized ON-TARGETplus, Dharmacon RNAi Technologies; Dharmacon, Lafayette, CO), employing DharmaFECT 1 reagent (Dharmacon), as per manufacturer's protocol.
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7

Establishment of Inducible Dox-Dependent Cell Line

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Reagents and their sources were as follows: RPMI 1640 medium, Oligo(dT)12–18 Primer, SuperScript® III Reverse Transcriptase, SYBR® Green PCR Master Mix, pENTR™/D-TOPO® vector, Gateway® pT-Rex™-DEST30 vector, pT-Rex/GW-30/lacZ vector, pcDNA™6/TR vector, Lipofectamine® 2000 Transfection Reagent and blasticidin S HCl (Thermo Fisher Scientific, Waltham, MA, USA); docosatetraenoic acid, eicosapentaenoic acid (EPA) (NU-CHEK PREP, Inc.; Elysian, MN, USA); oligopeptides (Hokkaido System Science, Sapporo, Hokkaido, Japan); Tris, dithiothreitol, sodium orthovanadate, phenylmethanesulfonyl fluoride, and doxycycline hyclate (Sigma-Aldrich, St. Louis, MO, USA); sodium chloride (Nacalai Tesque, Kyoto, Japan); EDTA, sodium deoxycholate, sodium fluoride, sodium dodecyl sulfate (SDS), 4% paraformaldehyde and crystal violet (Wako, Osaka, Japan); IGEPAL CA-630 (MP Biomedicals, Santa Ana, CA, USA); protease inhibitor cocktail tablet (Complete, Mini, EDTA-free), geneticin (G418) (Roche Diagnostics GmbH, Mannheim, Germany); and SacI, XhoI (Takara Bio Inc., Otsu, Shiga, Japan).
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8

Tetracycline-Inducible SH-SY5Y Cell Line

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A pcDNA6/TR vector (Thermo Fisher Scientific) was introduced into SH-SY5Y cells for high-level expression of the tetracycline repressor protein. pcDNA6/TR vector was linearized with FspI restriction enzyme (NEB), purified with PCR Clean-up (Macherey-Nagel) and used for the transfection of SH-SY5Y cells using Xfect transfection reagent (TaKaRa) according to manufacturer's instructions. For 48 h, cells were exposed to selection medium containing tetracycline-free FBS (Gibco) and blasticidine S at 5 µg mL -1 (Sigma-Aldrich). Single-cell cloning of resistant cells was performed with dilution plating, followed by cell sorting for the homogenous expression of repressor proteins. To test the efficiency of repression, cells were transfected with a plasmid containing eGFP under a Tet operator. As the resulting SH-SY5Y-TR-eGFP cells exhibited no residual eGFP expression upon the addition of 1 µg mL -1 of doxycycline (Sigma-Aldrich), the original SH-SY5Y-TR cells were selected for FlpIn SH-SY5Y-TR-FRT cell line development. To introduce the FRT recombination site into the cells, pFRT/ lacZeo was linearized with ApaI (NEB) restrictase, purified with PCR Clean-up and transfected into SH-SY5Y-TR cells (Xfect, TaKaRa). Forty-eight hours later, cells were subjected to a
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