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11 protocols using pcdna3.1 expression vector

1

Split-T7 RNAP Biosensor Plasmid Engineering

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The plasmids encoding the originally described Split-T7 RNAP biosensor, p7-68 and p7-69, were kindly provided by Bryan C. Dickinson. The coding sequences for the two components (29-1-FRB and FBKP-T7-C-term) were codon-optimized for human expression using GenSmart™ Codon Optimization and ordered in the pcDNA3.1+ expression vector (Genscript, Piscataway, NJ, USA). IL-12mCLTX and IL-12hCLTX were designed and also ordered in the pcDNA3.1+ expression vector (Genscript). Through restriction enzyme digestion, versions of the IL-12 constructs without CLTX were also generated.
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2

Characterization of Chimeric MC Receptors

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Human MC2R (hMC2R; Accession #: AA067714.1), Mus musculus (mouse), Mrap1 (mMrap1; Accession #: NM_029844), Xenopus tropicalis Mc1r (xtMc1r; Accession#: XP 012817790), and all of the chimeric receptors (i.e., hMC2R/NT xtMC1R; hMC2R/EC1 xtMC1R; hMC2R/EC2 xtMC1R; hMC2R/EC3 xtMC1R) were synthesized by GenScript (Piscataway, NJ), and individually inserted into the pcDNA3.1+ expression vector. For cell surface ELISA assays, wild-type hMC2R and single alanine mutants of hMC2R in the TM4 domain (i.e., G162/A162; I163/A163; T164/A164; M164/A164; V166/A166; I167/A167), EC2 domain (F168/A168; H170/A170), and the TM5 domain (T177/A177; F178/A178; T179/A179; S180/A180; L181/A181; F182/A182; P183/A183) were synthesized with a N-terminal V-5 epitope tag, and individually inserted into a pcDNA3.1+ expression vector (GenScript). The cAMP reporter cDNA, CRE-Luc [13 (link)], was provided by Dr. Patricia Hinkle (University of Rochester, NY, USA).
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3

Generating AXL Expression Plasmids and Stable Cell Lines

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Axl expression plasmids were generated by BlueSky BioServices (Worcester, MA, USA) who used a human codon-optimized, gene synthesis approach to generate the 2685-bp full-length wild-type human AXL cDNA (transcript variant 1, NM_021913) or kinase dead AXL (K567R) [40 (link)] which was subsequently cloned into the pcDNA3.1 expression vector by GenScript. AXL−/− CCF-STTG1 cells were stably transfected with empty expression vector or the above AXL constructs using Lipofectamine 3000 (ThermoFisher) according to the manufacturer’s protocol. Four days after transfection, cells were selected with 300 μg/mL G418 (Sigma-Aldrich), and selection was continued for at least 3 weeks before pooling reconstituted stably transfected cells into polyclonal pools.
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4

Transcriptional Regulation of IL33 Promoter

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Human ZBED6 or HOXA1 coding sequences were cloned into the pcDNA3.1 expression vector (gene synthesis and subcloning were performed by GenScript Biotech Corporation), resulting in pcDNA3.1-ZEBD6 or pcDNA3.1-HOXA1. A 2100 bp human IL33 promoter sequence was cloned into the pGL30-basic vector with a firefly luciferase (LUC) reporter gene (Promega, E1751), generating pGL3-IL33. Cells (2◊105/well) were seeded in 6-well plates and transfected using JetPrime (Polyplus) with 1600 ng of pGL3-IL33, 1600 ng of pcDNA3.1-ZEBD6 or pcDNA3.1-HOXA1, and 4 ng of pRL-CMV, which expresses Renilla luciferase (REN), as a transfection efficiency control. The enzyme activities of LUC and REN were measured using a Dual-luciferase Assay Kit (Nanjing Vazyme Biotech Co., Ltd., DD1205) on a BioTek Synergy H4 multimode plate reader (Bio Tek Instruments, Inc.). IL33 promoter activities are presented as the LUC/REN ratio.
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5

Generation of Engineered mGluR2 Constructs

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The C-terminal FLAG-tagged mouse mGluR2 construct in pcDNA3.1(+) expression vector was purchased from GenScript (ORF clone: OMu19627D) and verified by sequencing (ACGT Inc). Full length mGluR2 construct with an amber codon (TAG) mutation of amino acid A548 (azi-CRD) or N-terminal SNAP-tag (SNAP-mGluR2) were generated as previously reported (Liauw et al., 2021 (link)). The insertion of an amber codon (TAG) between E715 and V716 in mGluR2 (azi-ECL2) was performed using the QuikChange site-directed mutagenesis kit (Agilent). SNAP-mGluR2 constructs used for calcium imaging had C-terminal FLAG-tag removed by PCR-based deletion using phosphorylated primers. All plasmids were sequence verified (ACGT Inc). DNA restriction enzymes, DNA polymerase and DNA ligase were from New England Biolabs. Plasmid preparation kits were purchased from Macherey-Nagel.
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6

Mutagenesis and tagging of mGluR2/3

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The C-terminal FLAG-tagged mouse mGluR2 and mGluR3 constructs in pcDNA3.1(+) expression vector were purchased from GenScript (ORF clone: OMu19627D and OMu17682D) and verified by sequencing (ACGT Inc). The mutation of amino acid A548 in mGluR2 and A557 in mGluR3 to an amber codon (TAG) was performed using the QuikChange site-directed mutagenesis kit (Qiagen). The same approach was used to introduce point mutations in mGluR2 (Y216A, D295A, C770A, and L521C) for other experiments. For the YADA/WT mGluR2 (548UAA) heterodimer experiment, a SNAP-tag (pSNAPf, NEB) was inserted at position 19, flanked by GGS linkers, using HiFi DNA Assembly Master Mix (NEB). Finally, site directed mutagenesis was done to remove the C-terminal FLAG-tag on this construct. All plasmids were sequence verified (ACGT Inc). DNA restriction enzymes, DNA polymerase and DNA ligase were from New England Biolabs. Plasmid preparation kits were purchased from Macherey-Nagel.
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7

Production and Purification of Engineered FX Inhibitor XK1

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XK1, a slow, tight-binding inhibitor of the TF-FVIIa complex, is an engineered hybrid protein consisting of the human FX light chain linked to the first Kunitz (K1) domain of human tissue factor pathway inhibitor.22 (link) The XK1 coding sequence was prepared in the pcDNA3.1(+) expression vector by GenScript Biotech (Piscataway, NJ) and transfected into HEK293/VKOR cells (HEK293 cells that overexpress vitamin K 2,3-epoxide reductase C1, the expression vector for which was a kind gift of Darrell Stafford). These cells were cultured in cell factories (Corning HYPERFlask M Cell Culture Vessel) in a 1:1 mixture of DMEM and F12 media supplemented with L-Glutamine, 15 mM HEPES (Corning), 10 μg/mL vitamin K1 (Phytonadione, Henry Schein Medical, Melville, NY), 2 μg/mL puromycin and 400 μg/mL G-418. XK1 levels in culture supernatants were measured using the FX ELISA from Enzyme Research Laboratories (South Bend, IN). XK1 was affinity-purified from cell supernatants using immobilized 4G3, a Ca2+-dependent mouse monoclonal antibody targeting the human FX light chain.23 Fully carboxylated XK1 was subsequently separated from any undercarboxylated protein via anion-exchange chromatography as previously described for recombinant factor VII.24 (link)
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8

Transgenic Mouse Production of hCPE-QQ

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A construct containing the ORF of human CPE-QQ was custom synthesized and cloned into the pcDNA3.1(+) expression vector with BamH1/Xho1 cloning sites (GenScript, Piscataway, NJ, USA). Sequence analysis confirmed the insertion of three adenosine nucleotides consistent with the EST database sequence of the mutant hCPE (Genbank ID# DA134138). The pcDNA3.1 vector was digested with NruI/PvuII to generate a 2.44 kb fragment containing the CMV enhancer and promoter, the CPE-QQ ORF and the vector poly A site. This fragment was purified and used for transgenic mouse production by Dr James Pickle (Transgenic Core Facility, NIMH, NIH) on a C57/BL6 background. Founder animals were genotyped with two sets of primers; QQ1 5′-CCGCGTTACATAACTTACGGTAAATGGCC-3′, QQ2 5′-GGGTCTCCCTATAGTGAGTCGTATTAATTTCG-3′ that amplifies the 5′-upstream sequence of the pcDNA3.1 vector only; and QQ4 5′-GCTTGCTCCTGAGACCAAGGCTG-3′, QQ6 5′-GCCTGCTATTGTCTTCCCAATCCTCC-3′ that amplifies the 3′-end of hCPE and the downstream pcDNA3.1 vector. Positive founders were mated with C57/BL6 WT mice to propagate the lines, and F1 and subsequent generations were genotyped for the transgene identification. All animal studies were done in accordance with the NICHD Animal Care and Use Committee guidelines.
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9

Mutagenesis and tagging of mGluR2/3

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The C-terminal FLAG-tagged mouse mGluR2 and mGluR3 constructs in pcDNA3.1(+) expression vector were purchased from GenScript (ORF clone: OMu19627D and OMu17682D) and verified by sequencing (ACGT Inc). The mutation of amino acid A548 in mGluR2 and A557 in mGluR3 to an amber codon (TAG) was performed using the QuikChange site-directed mutagenesis kit (Qiagen). The same approach was used to introduce point mutations in mGluR2 (Y216A, D295A, C770A, and L521C) for other experiments. For the YADA/WT mGluR2 (548UAA) heterodimer experiment, a SNAP-tag (pSNAPf, NEB) was inserted at position 19, flanked by GGS linkers, using HiFi DNA Assembly Master Mix (NEB). Finally, site directed mutagenesis was done to remove the C-terminal FLAG-tag on this construct. All plasmids were sequence verified (ACGT Inc). DNA restriction enzymes, DNA polymerase and DNA ligase were from New England Biolabs. Plasmid preparation kits were purchased from Macherey-Nagel.
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10

Engineered CaSR Mutants with SNAP-tag and mEGFP

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A mouse CaSR construct with a C-terminal FLAG-tag in pcDNA3.1+ expression vector was purchased from GenScript (ORF clone: OMu14241D) and validated by sequencing (ACGT). A SNAP-tag (pSNAPf, NEB) flanked by GGS linkers was inserted at position 21 using HiFi DNA Assembly Master Mix (NEB). Point mutations in CaSR (P55L, C129S, C131G, C129G + C131G, T151M, L174R, R220W, R227L, E228K, G557E) were introduced using a QuikChange site-directed mutagenesis kit (Qiagen). The SNAP-tag CaSR construct was used as the template for mutation of amino acid E593 to an amber codon (TAG) via QuikChange mutagenesis. AscI restriction sites were used to insert mEGFP (mEGFP-N1, gift from Michael Davidson (Addgene plasmid # 54767) at the C-terminus of the GenScript construct, and it was used as the template for mutation of amino acid D451 to an amber codon (TAG) via QuikChange mutagenesis. All plasmids were verified by sequencing (ACGT). DNA restriction enzymes, DNA polymerase, and DNA ligase were purchased from New England Biolabs. Plasmid preparation kits were obtained from Macherey-Nagel.
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