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9 protocols using profection mammalian transfection kit

1

SARS-CoV-2 Pseudovirus Neutralization Assay

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SARS-CoV-2 pseudovirus harboring Nanoluc luciferase gene was generated by transient transfection of pHIV-1 NL4.3Δenv-Luc and Spike-Δ19-D614G or Spike Δ19-D614G plasmids with VOC mutations plasmids in HEK293T cells using Profection mammalian transfection kit (Promega Inc., Madison, WI, USA) according to the manufacturer’s protocol. After 48 h, pseudoviruses were harvested from the culture supernatant (600× g, 10 min), filtered, and stored at −80 °C until further use. ACE2 and TMPRSS2 receptors expressing HEK293T cells were grown in 10% FBS (Fetal Bovine Serum) supplemented DMEM (Gibco) with penicillin-streptomycin (100 U/mL). Heat inactivated sera were serially diluted and mixed with pseudoviruses for 1 h at 37 °C. Finally, 1 × 104 HEK293T-ACE2-TMPRSS2 cells were added and incubated for 48 h at 37 °C with 5% CO2. Post incubation, nano-Glo luciferase substrate (Promega Inc.) was added (50 µL) and 80 µL lysate was transferred to flat-bottom white plates for luminescence measurement using Cytation-5 multimode reader. Serum dilution at which 50% reduction in infection was observed was determined as the pseudovirus neutralization titer (ID50).
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2

Transfection and Reporter Assays in Primary HESCs

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Primary HESCs at 80% confluency were transfected with DNA vectors or small interfering RNA (siRNA) oligonucleotides by the calcium phosphate co-precipitation method using the ProFection mammalian transfection kit (Promega, Madison, WI) according to the manufacturer's instructions. Reporter assays were done in 96-well plates. The X-box binding protein 1 (pcDNA3/XBP1-luc) reporter construct was a kind gift from Dr. Etsu Tashiro (Keio University, Tokyo, Japan). A constitutively active renilla expression vector (pRL-sv40) served as an internal transfection control. The plates were washed twice in phosphate-buffered saline (PBS) and firefly and Renilla activities were measured using the Luclite luciferase reporter assay system (Luclite, PerkinElmer, Boston, MA) and the luminescence was measured on a Victor II plate reader (PerkinElmer). For gene-silencing studies, HESCs were cultured in 6-well plates until 80% confluency and transiently transfected with 100 nM of the following siRNA reagents (Dharmacon, Lafayette, CO): siCONTROL non-targeting (NT) siRNA pool and HSPA8 siGENOME SMARTpool. All experiments were performed on three or more primary cultures from different endometrial biopsies.
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3

HeLa and Cos7 DNA and siRNA Transfection

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DNA was transfected into HeLa and Cos7 with polyethyleneimine (PEI 25K, Polysciences), as previously described (17 (link)). For siRNA transfection, Cos7 and HeLa cells were transfected at 40 to 50% confluence with 2 nmol of siRNA using a classical calcium phosphate method according to the manufacturer’s instructions (ProFection Mammalian Transfection kit, Promega). The following siRNA duplexes were purchased from Eurogentec (Belgium): siEXT1(1), 5′- GGAUCAUCCCAGGACAGGA-3′; siEXT1(2), 5′-GGAUUCCAGCGUGCACAUU-3′; siCTRL, 5′-GGCUGCUUCUAUGAUUAUGtt-3′.
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4

Pseudotyped Virus Neutralization Assay

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The pseudotyped virus (PsV) neutralization assay was performed as previously described (11 (link)). Briefly, lentiviruses were packaged in HEK293T cells by transfection of 5 plasmids, 400 ng of HA, 100 ng of NA, 50 ng of TMPRSS2, 7 μg of CMVΔR8.2, and 7 μg of pHR′CMV-Luc with the Profection mammalian transfection kit (E1200; Promega). Viral particles were collected 48 and 72 h posttransfection and filtered through a 0.45-μm filter. Antisera at the indicated dilution were preincubated with a fixed amount of lentivirus and used to infect target 293A cells. Infection was quantified 72 h later with the Promega luciferase assay system (no. E1500). Fifty percent inhibitory concentrations were calculated with GraphPad Prism from neutralization curves. Preimmune sera were used as a negative control for each influenza strain tested in PsV assays.
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5

Lentiviral Particle Production and Concentration

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Packaging of lentiviruses was performed by transient transfection of HEK cells. One day before transfection, HEK cells were seeded in a T75 flask at 1 × 105 cells/cm2 in DMEM supplemented with 10% FCS, 1 mM pyruvate, and 40 mg/ml gentamicin. The calcium phosphate precipitation method was used to co-transfect cells using 7.5 μg of gag/pol packaging plasmid psPAX2, 7.5 μg of pGIPZ-Foxp3-shRNA/Foxp3-cDNA transfer vector, and 4 μg of envelope plasmid pMD2.G using the Profection mammalian transfection kit (Promega, USA). Transfections were carried out in 10 ml of DMEM without antibiotics, and the cells were grown for 16 h. After that, the medium was replaced with complete DMEM, and after 48 h, the supernatant was collected. Centrifugation at 1,500 rpm for 5 min at 4°C was used to remove cell debris, which was then passed through a 0.45-μm pore PES filter. For concentration, 20 ml of supernatant was centrifuged at 4,000 rpm for 20 min at 4°C in a 12% polyethylene glycol (PEG-8000) solution. In serum and antibiotic-free DMEM, pelted viruses were re-suspended and the aliquots were kept at −80°C for further use (41 (link)).
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6

Pseudovirus Production for HIV-1 Infection

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1.25 μg of Env+ plasmids carrying rev-env sequences were co-transfected with 1.25 μg of pNL43 that carried a premature stop codon in the envelope gene and 0.625 μg of pHIvec2-GFP plasmid [78 (link)] into 293T cells using calcium phosphate (Profection mammalian transfection kit, Promega Inc.) [2 (link)]. The cell supernatant was changed 8-18 hrs post-transfection (4% FBS DMEM). Pseudovirions were harvested 48 h post-transfection, clarified by low-speed centrifugation, aliquoted into 0.5 ml portions, and snap-frozen in liquid nitrogen.
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7

SARS-CoV-2 Spike Protein Evaluation

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Narcissus tazetta (Daffodil) bulbs were collected from plants grown in departmental glass house of Bose Institute, India. Allium sativum leaves were collected from the plants grown in Madhyamgram Experimental farm of Bose Institute, India. Trypsin (Gold Trypsin, Promega,USA), α-Chymotrypin (SRL, India), Vero-E6 cells, HEK293T cells, SARS-CoV-2 virus, SARS-CoV-2 spike pseudo virus, RNA extraction kit (MDI Devices, India), DiAGSure nCOV-19 detection assay kit (GCC Biotech, India), Profection mammalian transfection kit (Promega Inc.), DMEM (Gibco), Bright-Glo luciferase substrate (Promega Inc., USA) were used as received.
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8

Lentiviral Transduction of Murine Fetal Liver HSPC

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Lentiviral supernatants were generated by co-transfection of 293T cells with MA-1 as the expression vector and viral packaging plasmids psPAX2 and pMD2.G (Addgene ID 12260 and 12259 respectively). Cells were transfected using the calcium phosphate Profection Mammalian Transfection kit (Promega) according to the manufacturer’s instructions. The supernatant was collected twice: at 24 and 48 h following transfection and filtered through a 0.45 μm strainer. The supernatant was concentrated using Vivaspin (Sartorius) for the transduction of ER-Hoxb8 cells. For the transduction of fetal liver-derived HSPC, the supernatant was concentrated using ultracentrifuge (3:30 h, 20,000 rpm, 10 °C).
To transduce murine fetal liver-derived HSPC, we cultured the primary cells in 96-well plates with serum-free medium conditions as described. Each well was cultured with 50,000 cells. The viral titer was aimed to be approximately 50 MOI. Five µg/mL Polybrene was added to each well. We used spinfection for transduction at a rate of 1000 × g for 90 min at 22 °C. After centrifugation, the cells were incubated at 37 °C in 5% CO2. Forty-eight hours post-transduction, the cells were collected, washed, and used for further applications. The transduction efficiency was measured using flow cytometry for GFP.
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9

Calcium Flux Detection in Cos7 Cells

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DNA was transfected into HeLa and Cos7 with polyethylenimine (PEI 25K, Polysciences) as previously described (Daakour et al., 2016) . For siRNA transfection, Cos7 and HeLa cells were transfected at 40-50% confluence with 2 nmol of siRNA using a classical calcium-phosphate method according to manufacturer's instructions (ProFection Mammalian Transfection kit, Promega). The medium was changed 24 h later and cells were collected 48 h post-transfection. When experiments involved both DNA and siRNA transfection, siRNA transfection was performed, and 24 h later cells were transfected with DNA as described previously (Daakour et al., 2016) . Cells were collected 24 h later. The following siRNA duplexes were purchased from Eurogentec (Belgium): siEXT1(1): 5′-GGAUCAUCCCAGGACAGGA -3′, siEXT1(2): 5′-GGAUUCCAGCGUGCACAUU-3′ and siCTRL: 5′-GGCUGCUUCUAUGAUUAUGtt-3′.
Calcium Flux Detection assay 2x10 5 Cos7 cells were washed twice and processed for immunofluorescence. Fluo-4, AM Loading Solution was added on the cells according to manufacturer's instructions (Fluo-4 Calcium Imaging Kit, Thermo Fisher Scientific). Images were acquired using a
Leica TCS SP5 confocal microscope and the 63x oil objective; the analysis was performed in ImageJ software (Schindelin et al., 2012) .
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