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8 protocols using vsv g plasmid

1

Engineered U2AF1 Protein Expression

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Full length human WT, S34F or Q157R FLAG-tagged U2AF1 in
CS-TRE-PRE-Ubc-tTA-I2G plasmids (Figure S1A), encoding for
tetracycline-responsive element (TRE) and enhanced green fluorescent protein
(EGFP), were a kind gift from Tomoyuki Yamaguchi at Japan Science and
Technology Agency (Yamaguchi et al.,
2012
; Yoshida et al.,
2011
). Lentivirus production was obtained by co-transfecting 293FT
cell line with psPAX2 plasmid (Addgene, Cat #12260), VSV.G plasmid (Addgene,
Cat #14888) and U2AF1 (WT, S34F or Q157R)-containing plasmid, followed by
spin-concentration. HEL cells were infected with viral supernatants via
spinoculation (1000 g for 90 min at 30°C) with addition of 4
μg/ml polybrene (Sigma-Aldrich, Cat #TR-1003-G). 48 hours after
transduction, GFP+ cells (mean: WT = 21.2%, S34F = 22.2%, Q157R =
27.4%) were sorted by fluorescence-activated cell sorting (FACSAria II, BD
Biosciences, Yale Flow Cytometry Facility). To express FLAG-tagged U2AF1
proteins, HEL cells were induced with 1 μg/ml doxycycline for 48
hours and the expression was verified through PCR followed by Sanger
sequencing (3730xL DNA Analyzer, ThermoFisher SCIENTIFIC, Yale Keck DNA
Sequencing Facility) and through western blotting (Figure S1B).
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2

Production and Transduction of Retroviral Vectors

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For retro vectors, Hek293T cells were plated at 90% cell confluence in a 10-cm dish. The next day, cells were transfected with 10 μg viral vector, 7 μg Gag-Pol vector (Addgene, Watertown, MA, USA), and 3 μg VSV-G plasmid (Addgene, Watertown, MA, USA) using the polyethyleneimine method. The supernatant was collected 24 h and 48 h post-transfection and filtered through 45-mm pore size filters. Tittering was performed on Hek293Ts. 5 mL of unconcentrated viral supernatant was used to transduce 25,000 cells in the presence of 4 μg/mL polybrene (Sigma, St. Louis, MO, USA).
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3

Lentiviral Plasmids for SARS-CoV-2 Research

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The following plasmids were ordered as part
of a lentiviral kit (BEI cat# NR-52948) described previously:25 (link) Spike (BEI cat# NR-52514), Luc2-ZsGreen (BEI
cat# NR-52516), Hgpm2 (BEI cat# NR-52517), Tat1b (BEI cat# NR-52518),
and Rev1b (BEI cat# NR-52519). The VSV-G plasmid (Addgene cat# 12259)
was a gift from the lab of Jiahe Li. To prepare the spike G614 Δ19
plasmid, we generated two PCR amplicons using mutagenic primers, Q5
polymerase (NEB cat# M0491), and spike plasmid (BEI cat# NR-52514)
as a template. PCR reactions were digested in DpnI, and the amplicons were joined via Gibson assembly (NEB cat# E2611).
The coding sequences of generated plasmids were sequence-verified.
To prepare the N gene-inserted plasmids (CoV2Ngene-Luc2-ZsGreen) to
model SARS-CoV-2, we removed the 1131 bp segment of luciferase in
Luc2-ZsGreen (BEI cat# NR-52516), and the N gene (1260 bp, IDT 2019-nCoV_N_Positive
Control Plasmid cat#10006625) was amplified by mutagenic primers.
The remaining part of Luc2-ZsGreen (BEI cat# NR-52516) and the amplified
N gene were ligated via Gibson assembly (NEB cat# E2611). The coding
sequences of generated plasmids were sequence-verified.
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4

Lentivirus-mediated B cell transduction

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Lentivirus preparation and B cell transduction were described previously.59 (link) Briefly, 293T cells were cotransfected with psPax2 plasmid (Addgene), VSVG plasmid (Addgene), siControl plasmid, siHSP70 plasmid or siHSF1 plasmid (ABM, Richmond, BC, Canada), lenti-EV (empty vector) or lenti-HSP70 overexpression plasmid (Sinobiological) using Lipofectamine 2000 (Thermo Fisher). Supernatants were collected and filtered. Isolated bone marrow B cells were transduced by lentiviral particles by spin infection.
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5

Rescuing and Amplifying Recombinant ΔS-VRP(G) Virus

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To rescue recombinant ΔS-VRP(G) virus, a mixture of 293T cells/Huh7.5 cells in suspension (1 × 106 cells of each cell type) were transfected with 4 μg of ΔS-Luc-GFP bacmid and 1 μg of VSV-G plasmid (Addgene; 138479) using polyethyleneimine (PEI) transfection reagent (Polysciences; DNA/PEI ratio, 1:4). After 5 h posttransfection, the transfection mixture-containing medium was replaced with DMEM/2% FBS. At 72 to 96 h posttransfection, supernatants were collected and kept as ΔS-VRP(G) seed stocks. To amplify ΔS-VRP(G), Huh7.5 cells seeded in 150-mm plates (1.5 × 107) were transfected with 40 μg of VSV-G plasmid using PEI reagent. At 5 h posttransfection, the transfection mixture-containing medium was replaced with DMEM/10% FBS. On the following day, 1 mL of ΔS-VRP(G) seed stock was added to VSV-G transfected Huh7.5 cells and incubated for 2 h. After a washing with phosphate-buffered saline (PBS), infected Huh7.5 cells were placed in 25 mL of DMEM/2% FBS and monitored for GFP expression and cytopathic effects (CPE). At 48 to 72 h postinfection, supernatants were collected, clarified of debris, aliquoted, and stored at −80°C. These stocks were used to perform subsequent infection experiments.
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6

Lentiviral Transduction of mFT Cells

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mFT cells were plated and grown to 75% confluency in a 6‐well plate. 0.89 µg VSV‐G plasmid (Addgene, 8454), 1.38 µg Delta 8.9 plasmid, and 1.78 µg of a luc/mCherry lentiviral construct were added to 250 µL of Opti‐MEM (Invitrogen, 31 985 070). In a separate vial, 10 µL of Lipofectamine 2000 (Invitrogen, 11 668 019) was added to 250 µL of Opti‐MEM and incubated for 5 min at room temperature (RT). After incubation, the lentiviral mixture was combined with the Lipofectamine solution and incubated at RT for 20 min. This mixture was then added to one of the wells and incubated for 24 h at 37 °C. The following day, the media was replaced with antibiotic‐free DMEM and incubated at 37 °C for another 24 h. On the fourth day, the media was collected and centrifuged at 1000 rpm for 10 min, and the supernatant was stored before refreshing the media in the plate again with antibiotic‐free DMEM. The media in the other 5 wells of the plate was aspirated and replaced with 600 µL of the collected supernatant from the transfected well in addition to 8 µg mL−1 of polybrene and 1.4 mL of antibiotic‐free DMEM. The same process was repeated the following day. After this procedure, the cells were sorted for mCherry expression at the Brigham & Women's Flow Cytometry Core.
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7

Optimizing Viral Transduction Efficiency

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4e5 VeroE6 cells were plated in 6-well plates and transfected with 1 μg VSV-G plasmid (Addgene #8454) via TransIT-X2 (Mirus). After 24 h post-transfection, wells were washed twice with PBS and then subjected to DMEM (ThermoFisher; #12100046) buffered with 10 mM morpholineethanesulfonic acid (MES) at varying pH levels. Cells were washed with PBS and then incubated in cell culture media. Cells were analyzed 24 h after acidification.
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8

Lentiviral Vector Production in HEK-293T

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HEK-293T cells were grown to 40% confluence in antibiotic-free DMEM (Life Technologies, Grand Island, NY) supplemented with 5% FBS (Sigma, Saint Louis, MO). To generate lentivirus, cells were transfected with the plasmids, psPAX2 (12259; Addgene, Cambridge, MA), a lentiviral plasmid containing genetic elements of interest, and VSVg plasmid (8454; Addgene, Cambridge, MA) in a 3:3:1 ratio using Fugene6 Transfection Reagent (Promega, Madison, WI) and Optimem (Fisher Scientific; Waltham, MA) following the manufacturer’s protocol. After 48 hours, the supernatant was harvested, centrifuged to remove cellular debris (300xg, 5 minutes), and filtered using a 0.45 μm filter.
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