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14 protocols using lipofectamine 2000 reagent

1

Regulation of AMPK and Adiponectin Receptors

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HepG2 cells were seeded in 12-well plates at a density of 2×105 cells/well, and when the cells were 50–60% confluent, they were transfected with AMPKα and adiponectin receptor 1/2 siRNA duplex (4 μL/well; Santa Cruz, CA, USA) for 24 h using Lipofectamine 2000 reagent (Promega, Madison, WI, USA). After transfection, the cells were treated with C3G (10 and 50 μM) or A-769662 (100 μM) as the positive control and 0.1% v/v dimethyl sulfoxide (DMSO) as the vehicle for 24 h. The protein levels of AMPKα were analyzed through immunoblotting to confirm knockdown efficiency.
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2

Verification of miR-317b-5p and SCAI Interaction

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At the beginning, the potential target of miR-317b-5p was predicated by the TargetScan platform (www.targetscan.org), and the SCAI was detected as one of the possible target of miR-317b-5p. The dual-luciferase reporter gene assay was performed to verify the interaction between miR-317b and SCAI. For luciferase reporter assay, the NSCLC cells were transfected with mutant- or wild-type reporter plasmid containing 3′UTR of SCAI to form the reporter vector SCAI Wt type or SCAT Mut type. Then cells were co-transfected with SCAI Wt or SCAT Mut and miR-371b-5p mimic or NC mimic by using Lipofectamine 2000 reagent (Promega, Madison, U.S.A.). After 48-h culturing, the luciferase activities were detected by the dual-luciferase reporter assay system.
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3

Regulation of HIPK2 Expression

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The predicted 3′-UTR sequence (295 bp) of HIPK2 was cloned from the genomic DNA of primary hepatocytes, and then the sequence was inserted into the pmir-GLO empty luciferase reporter vector (Promega, WI, USA). The predicted promoter sequence (−300 bp to + 10 bp) of HIPK2 was inserted into the pGL-3 basic luciferase reporter vector from Promega. For further studies, primary hepatocytes were co-transfected with the internal control vector pmir-GLO (Promega) and pmir-GLO-HIPK2 3′-UTR using the Lipofectamine 2000 reagent (Thermo Fisher Scientific) for 20 h, followed by an incubation with the indicated chemicals for 10 h. Similarly, hepatocytes were co-transfected with the empty vector pGL-3 basic (Promega) and the pGL-3 vector containing the HIPK2 promoter using the Lipofectamine 2000 reagent for 20 h; the pRL vector was used as an internal control. Cells were then incubated with the indicated chemicals for 10 h. The luciferase reporter activities were determined using the Dual-Glo luciferase assay system from Promega. The drugs and concentrations used in the present study were as follows: 5 μM resveratrol, 30 μM aspirin, 10 μM vitamin E, and 15 μM ursolic acid. The compounds were purchased from MedChemExpress NJ, USA).
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4

Chondrocyte Transfection Optimization

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Chondrocytes at passages 2–4 were used for transfection of the miR-1 mimic, inhibitor and siRNA. Transfection experiments were performed with Lipofectamine® 2000 reagent (Invitrogen; Thermo Fisher Scientific, Inc.) following the manufacturer' s protocols. Briefly, chondrocytes were seeded at 3×105/well in 6-well plates. The miR-1 mimic, and its inhibitor, and siRNA oligos against Ihh (40 pM) were resuspended in GenMutt buffer (Promega Corp.) and mixed with 10 µl of Lipofectamine 2000 reagent for transfection of cells in a single well. At 24 or 48 h after the transfection, the cells were harvested for RNA isolation, western blotting and immunofluorescence.
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5

Wnt Signaling Regulation by DNMT1 Knockdown

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95D cells transfected with NC or DNMT1 siRNA were co-transfected with TOPflash or FOPflash plasmids (Upstate Biotechnology, Inc., Lake Placid, NY, USA), along with β-galactosidase expression plasmid pRL-SV40 (Promega Corporation, Madison, WI, USA), using Lipofectamine® 2000 reagent. After 48 h of incubation at 37°C, the cells were lysed and the luciferase activity was determined as described previously (22 (link)). The luciferase activity of each sample was normalized against Renilla luciferase activity to monitor transfection efficiency. 200 nM NC or DNMT1 siRNA were co-transfected with the TOPflash or FOPflash reporter. After 48 h, luciferase activity was evaluated using the Dual-Luciferase® Reporter Assay system (Promega Corporation) normalized to Renilla luciferase activity.
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6

Validating miR-520a-3p Regulation of EGFR

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TargetScan 7.2 (http://www.targetscan.org/vert_72/) was used to predict the potential targets of miR-520a-3p, and the binding sites between miR-520a-3p and EGFR were observed. To investigate the association between miR-520a-3p and EGFR, luciferase reporter plasmids was generated containing the 3′-UTR sequence of EGFR. Wild-type (WT) and mutant (MUT) 3′-untranslated regions (UTRs) of EGFR were amplified by PCR using DreamTaq DNA Polymerase (Thermo Fisher Scientific, Inc.) and then cloned into the psiCHECK-2 reporter (cat no. C8011; Promega Corporation, Madison, WI, USA). Y79 cells were co-transfected with mimic or NC and the mutant (MUT-EGFR) or wild-type (WT-EGFR) 3′-UTR of EGFR and 25 ng pRL-TK (expressing Renilla luciferase as the internal control; Promega Corporation) using Lipofectamine® 2000 reagent for 48 h. Luciferase activity was determined 48 h after cell transfection using the Dual-Luciferase Assay system (Promega Corporation,) on a luminometer (Mithras LB940; Berthold Technologies USA, LLC, Oak Ridge, TN, USA) according to the manufacturer's protocols and normalized to Renilla luciferase activity. Experiments were repeated in triplicate.
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7

Lentiviral Silencing of eNOS

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Short hairpin against eNOS (sh-eNOS) was synthesized in integrated DNA technologies (IDT) (Neward, NJ, USA), aligned and expressed in the lentiviral vector pLL3.7-mRuby2, downstream of the U6 promoter and between HpaI and XhoI sites. The sh-eNOS sequence was: 5′-GTGTGAAGGCGACTATCCTGTATGGCTCT-3′. The scrambled RNA (sh-Luc) sequence was: 5′-TTCTCCGAACGTGTCACGT-3′. Correct insertions of the shRNA cassettes were confirmed by restriction mapping and direct DNA sequencing. Lentiviral production was done using lipofectamine 2000 reagent, Promega (Cat. No.: 11668-019) (Madison, WI, USA). Briefly, we co-transfected the sh-eNOS or sh-Luc plasmids with the packaging vector Δ8.91 and the envelope vector VSV-g into HEK293T cells in free serum DMEM. 5 h after transfection the medium was replaced for DMEM containing 10% FBS and the next day the medium was replaced by Neurobasal supplemented with B27. The resulting supernatant contained the lentiviruses20 (link),21 (link).
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8

Muscovy Duck Reovirus Propagation and DF1 Cell Transfection

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Muscovy duck reovirus strain YB [MDRV-YB, TCID50 = 10-5.40, multiplicity of infection (MOI) = 2] was propagated in Muscovy duck embryo fibroblasts (MDEF), which were cultured in RPMI 1640 medium (Hyclone, Logan, UT, United States) supplemented with 2% fetal bovine serum (FBS; Hyclone, Logan, UT, United States), as previously described (Wang et al., 2017a (link)).
The DF1 cell line was grown in Dulbecco’s modified Eagle’s medium (DMEM), supplemented with 10% FBS. Cells, at 70% confluence were transfected with plasmids (pCI-neo-flg, pCI-neo-flg-p10.8) using Lipofectamine 2000 reagent (Promega, Madison, WI, United States), as previously described (Wu et al., 2017a (link)).
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9

Investigating NEAT1 and MAP3K1 3'UTR Regulation by let-7g-5p

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NEAT1 and MAP3K1 3′-untranslated region (3′-UTR) sequences containing wild-type (WT) or mutation-type (MUT) binding site of let-7g-5p were amplified and integrated into pmirGLO vectors (Promega, Madison, WI, U.S.A.) and then transfected into HEK-293T cells using Lipofectamine 2000 Reagent. A dual-luciferase reporter assay kit (Promega) was utilized to evaluate the luciferase activity after transfecting with let-7g-5p mimics or mimics NC for 48 h.
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10

Transient Transfection in JEG-3 Cells

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Transient transfections in JEG-3 cells were performed by using Lipofectamine 2000 reagent (Invitrogen) as per the manufacturer’s instructions. In each well of 24-well plates, the cells were transfected with 2 μl Lipofectamine 2000 reagent, 2 μg luciferase reporter constructs, and 0.02 μg Renilla luciferase constructs (Promega) for 8 hrs in the absence of serum, then, the cells were cultured in the media containing either CM or SM for 48 hrs. In some experiments, the cells were infected with the viruses for 24 hrs, and then transfected with the luciferase reporters for 8 hrs, and finally cultured in the media containing either CM or SM for 48 hrs. After transfection and treatment, the cellular lysates were prepared in reporter lysis buffer (Promega), and the supernatants were used for dual-luciferase assay according to the manufacturer’s instructions (Promega). The firefly luciferase activities were normalized to Renilla luciferase levels.
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