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Pcdna5 frt to vector

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The PcDNA5/FRT/TO vector is a plasmid designed for regulated gene expression in mammalian cell lines. It contains a tetracycline-regulated promoter system, an FRT site for Flp recombinase-mediated integration, and a hygromycin resistance gene for selection.

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90 protocols using pcdna5 frt to vector

1

CENP-M Isoform 1 Cloning and Mutagenesis

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A cDNA segment encoding human CENP-M isoform 1 was subcloned in pcDNA5/FRT/TO-EGFP-IRES vector, a modified version of pcDNA5/FRT/TO vector (Invitrogen, Carlsbad, CA) generated in house (Petrovic et al., 2010 (link)), as a C-terminal fusion to EGFP. Mutant CENP-M constructs were created by site-directed mutagenesis using the QuikChange kit (Stratagene). CENP-M cDNA was also subcloned in pcDNA5/FRT/TO vector (Invitrogen) as an N-terminal fusion to EGFP. Constructs were sequence verified.
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2

Exploring Protein Phosphatase Regulation in Testis

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Human CDC20, PP1α, and PP1γ were amplified from human testis cDNA (Marathon cDNA; Takara Bio) using Pfu polymerase (Agilent Technologies). CDC20 expression constructs were made using pcDNA5/FRT/TO vectors (Invitrogen) modified to encode the EGFP or FLAG reading frames; PP1 constructs were made using a modified pcDNA5/FRT/TO vector encoding a C-terminal GFPtag. Mutagenesis to introduce phospho-site mutations and resistance to CDC20 small interfering RNA (siRNA) oligo #14 was performed using the QuikChange method (Agilent Technologies). DNA primers were obtained from Invitrogen. For the knockdown of the catalytic subunits of PP1α and PP1γ, siRNA duplexes 5′-UGGAUUGAUUGUACAGAAAUU-3′ and 5′-GCGGUGAAGUUGAGGCUUAUU-3′ targeting the 3′-UTR of PPP1CA and PPP1CC, respectively, were used in Figures 2, 3, and 7 and Supplemental Figure S4. Duplexes targeting the ORFs 5′-CAUCUAUGGUUUCUACGAU-3′ and 5′-GAACGACCGUGGCGUCUCU-3′ for PPP1CA or 5′-GCGGAG­AGUUUGACAAUGC-3′ and 5′-UAGAUAAACUCAACAUCGA-3′ for PPP1CC were used in Figures 5, 6, and 8 and Supplemental Figures S2 and S3. PP1β was depleted using a 3′-UTR duplex 5′-GGGAAGAGCUUUACAGACAUU-3′ targeting PPP1CB. CDC20 was depleted using siRNA duplex #14 5′-CGGAAGACCUGCCGUUACA-3′ (ThermoFisher). PP2A-B55 and PP2A-B56 were targeted with siRNA duplexes that have been described previously (Hayward et al., 2019a (link),c).
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3

Recombinant Construct Generation

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Constructs were generated by a combination of InFusion (Clontech), PCR, site-directed mutagenesis (Invitrogen), PCR-assembly and restriction-mediated cloning (NEB and Fermentas). All PCR-generated constructs were verified by sequencing analysis. Final constructs were expressed in the pcDNA5/FRT/TO vector (modified from Life Technologies) under the control of the human cytomegalovirus (CMV) enhancer-promoter. GAI and GID coding sequences were obtained from Addgene (Plasmid #37309 and #37306, respectively).
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4

Generation and Characterization of GEN1 Mutants

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The GEN1 truncation constructs (full length GEN1, GEN11-220, GEN1221-444, GEN1444-527, GEN1526-662, GEN1526-683 and GEN1662-908) were generated by PCR and cloned in-frame into a modified pDONR221 vector (Life Technology) encoding a C-terminal GFP tag using an In-Fusion HD cloning kit (Clontech). The coding sequences were then shuttled by Gateway recombination (Life Technologies) into a modified pcDNA5/FRT vector (Life Technologies) with a Gateway cassette RfB cloned into the EcoRV site. To generate GEN1nuc, a 3xNLS sequence (DPKKKRKVDPKKKRKVDPKKKRKV) and a 3xFLAG tag sequence (AGDYKDHDGDYKDHIDYKDDDDK) were added to the C-terminus of GEN1 by PCR. GEN1 was then cloned into a pcDNA5/FRT/TO vector (Life Technologies). The NES of GEN1 (4A: L660A, L661A, I664A, L667A) and 8 putative CDK sites (8A: S249A, S269A, S512A, T535A, S598A, S655A, S842A and S893A) were mutated using QuickChange Lightning Multi Site-Directed Mutagenesis Kit (Agilent). To generate the sgRNA vector for GEN1 targeting, a pair of annealed oligos (5′-CACCGCACATCCCCTTGCGTAATCT 3′ and 5′ AAACAGATTACGCAAGGGGATGTGC-3′) were cloned into the pX330 plasmid36 (link) digested with BbsI according to published protocols37 (link).
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5

GEN1 and RusA Fusion Constructs for Gene Targeting

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GEN1 and GEN1EEAA carrying 3xFLAG tags at their C-termini were cloned into the pcDNA5/FRT/TO vector (Life Technologies) as described58 . Plasmids encoding RusAWT and RusAD70N (pMW462 and pMW463) were kindly provided by Matthew Whitby (University of Oxford, UK)59 (link). RusAWT and RusAD70N sequences were cloned into the N-terminus of GEN1EEAA-3xFLAG using an In-fusion cloning kit (Clontech). To generate the sgRNA vectors for gene targeting, pairs of annealed oligos (see below) were cloned into the pX330 or pX459 plasmids according to published protocols60 (link),61 (link). The pEGFP-C2 vector carrying GFP-BLM was a gift from Ian Hickson (University of Copenhagen, Denmark). The catalytic-dead mutant of BLM, BLMK695M was generated by using QuikChange Lightning Multi Site-Directed Mutagenesis kit (Agilent).
The sequences of the sgRNA oligos used for gene targeting were:
GEN1: 5’-CACCGCACATCCCCTTGCGTAATCT-3’ and
5’-AAACAGATTACGCAAGGGGATGTGC-3’ (ref. 58 )
MUS81: 5’-CACCGTCTGAAATACGAAGCGCGTG-3’ and
5’-AAACCACGCGCTTCGTATTTCAGAC-3’
SLX1: 5’-CACCGTAGACGCCGAAAAAGCGCCC-3’ and
5’-AAACGGGCGCTTTTTCGGCGTCTAC-3’
SLX4: 5’-CACCGCCGGTGCTGAAGAAGGAAC-3’ and
5’-AAACGTTCCTTCTTCAGCACCGGC-3’
PICH: 5’-CACCGCCGAAGGTTTCCGGAAGCCG-3’ and
5’-AAACCGGCTTCCGGAAACCTTCGGC-3’ (ref. 62 )
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6

Construction of Fusion Protein Expression Vectors

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A PCR-amplified fragment of the codon-optimized gene for nanoKAZ (GeneBank Accession No. AB823628)15 (link) was fused in-frame to the carboxyl terminus of that of the CDC37 gene and to the amino-terminus of that of HSP90β (HSP90AB1 gene product). The fused CDC37-nanoKAZ and nanoKAZ-HSP90AB1 gene fragments were subcloned into a pCAGIPuro vector using an In-Fusion® HD Cloning kit (Clontech, Takara Bio, Shiga, Japan). The nanoKAZ gene was also subcloned into the pCAGIPuro vector. The pCAGIPuro vector, an IRES-based bicistronic expression vector in which the gene of interest and a puromycin resistant gene are expressed from a single mRNA, enables almost all of the cells selected with puromycin to express the gene product.
Expression vectors for DYRKs and DYRK1A mutants were constructed in a pcDNA5/FRT/TO vector (Life Technologies, Thermo Fisher Scientific) (Kii et al. manuscript in revision). In brief, PCR-amplified fragments of 3xFLAG-tagged DYRKs were fused in-frame to the amino-terminus of EGFP via the F2A peptide sequence by overlap-extension PCR, and the combined fragments were inserted into the pcDNA5/FRT/TO vector. The EGFP gene was also inserted into the pcDNA5/FRT/TO vector. The reconstituted vector sequences are available upon request.
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7

Generating GEN1 Truncation Constructs

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The GEN1 truncation constructs (full-length GEN1, GEN11–220, GEN1221–444, GEN1444–527, GEN1526–662, GEN1526–683 and GEN1662–908) were generated by PCR and cloned in-frame into a modified pDONR221 vector (Life Technologies) encoding a C-terminal GFP tag using an In-Fusion HD cloning kit (Clontech). The coding sequences were then shuttled by Gateway recombination (Life Technologies) into a modified pcDNA5/FRT vector (Life Technologies) with a Gateway cassette RfB cloned into the EcoRV site. To generate GEN1nuc, a 3xNLS sequence (DPKKKRKVDPKKKRKVDPKKKRKV) and a 3xFLAG tag sequence (AGDYKDHDGDYKDHIDYKDDDDK) were added to the C terminus of GEN1 by PCR. GEN1 was then cloned into a pcDNA5/FRT/TO vector (Life Technologies). The NES of GEN1 (4A: L660A, L661A, I664A, L667A) and eight putative CDK sites (8A: S249A, S269A, S512A, T535A, S598A, S655A, S842A and S893A) were mutated using QuikChange Lightning Multi Site-Directed Mutagenesis Kit (Agilent). To generate the sgRNA vector for GEN1 targeting, a pair of annealed oligos (5′-CACCGCACATCCCCTTGCGTAATCT 3′ and 5′ AAACAGATTACGCAAGGGGATGTGC-3′) were cloned into the pX330 plasmid36 (link) digested with BbsI according to published protocols37 (link).
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8

Cloning and Manipulation of GMAP-210 Protein

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The sequence encoding full-length human GMAP-210 was amplified by PCR from cDNA provided by Francis Barr (University of Oxford, UK), and inserted in frame between the KpnI and NotI sites of pcDNA5/FRT/TO vector (Life Technologies) for insertion of a Myc-tag at the 3′-end of the sequence. GMAP-210 resistant to siGMAP #2 was generated by introducing six silent mutations by site-directed mutagenesis. HRD1–Myc was a generous gift from Stephen High (The University of Manchester, UK). GMAP-210 ON-TARGETplus human SMARTpool (pool of four siRNAs) or each individual ON-TARGETplus siRNA were from Dharmacon, and their sequences are as follows: siGMAP #1, 5′-GGAGAUAGCAUCAUCAGUA-3′; siGMAP #2, 5′-CAAGAACAGUUGAAUGUAG-3′; siGMAP #3, 5′-GGACAUUACUAAAGAGUUA-3′; and siGMAP #4, 5′-GGGCAAGACUGGAGAGUUA-3′. The siGMAP sequence by the Rios laboratory has been published previously (Ríos et al., 2004 (link)). For GM130 knockdown, the ON-TARGETplus human SMARTpool (Dharmacon) was used. Luciferase siRNA (GL2, Eurogentec, denoted siLuc) was used as a negative control.
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9

Cloning of CALR Variants into Vectors

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The flag-tagged cDNA of WT CALR, del52, and ins5 were cloned into the pMSCV-IRES-GFP vector and pcDNA5/FRT/TO vector (Life Technologies – Thermo Fisher Scientific, Paisely, UK) by Gateway cloning system (Life Technologies – Thermo Fisher Scientific). In case of the WT CALR, the KDEL sequence was cloned behind the flag-tag sequence. The cDNA of human MPL in the pMSCV-neo vector was kindly provided by Rebekka Schneider-Kramann. The C-terminally yellow fluorescent protein (YFP)-tagged cDNA of WT CALR, del52, and ins5 were cloned into the pMSCV-IRES-puromycin vector, and the KDEL sequence was cloned following the YFP-tag only in the WT CALR expression vector.
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10

Cloning and Tagging of GMAP-210

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All constructs were made using standard molecular biology techniques. The sequence encoding full-length human GMAP-210 was amplified by PCR from cDNA provided by Francis Barr and inserted in-frame between the KpnI and NotI sites of pcDNA5/FRT/TO vector (Life Technologies) for insertion of a Myc-tag at the 3′ end of the sequence. To make the GMAP-210-Myc-FKBP constructs, the FKBP fragment was inserted into pcDNA5-GMAP-210-Myc using XhoI. GMAP-210 resistant to siGMAP #2 was generated by introducing six silent mutations by site-directed mutagenesis. Full-length and truncated GMAP-210 sequences were also subcloned into pEGFPC2 (Clontech, Saint-Germain-en-Laye, France), pGAD-T7 (BD Biosciences), and pMAL-C2 (New England Biolabs, Hitchin, United Kingdom) for mammalian expression, yeast two-hybrid analysis, and bacterial expression, respectively. Primer sequences and detailed cloning information for all manipulations are available upon request. Plasmids harboring Rab genes used in GST pull-down and yeast two-hybrid assays were previously described (Hyvola et al., 2006 (link)). HRD1-Myc was a generous gift from Stephen High (University of Manchester, Manchester, United Kingdom), and Mito-FRB was a kind gift from Stephen Royle (University of Warwick, Warwick, United Kingdom).
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