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7 protocols using pcdh puro cmyc

1

Lentiviral-mediated Gene Manipulation in Cell Lines

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The shRNAs were cloned into the pLKO.1-puro vector (Addgene, #8453) by following the manufacturer’s instructions. The targeting sequence of each shRNA was listed in Supplementary Data 3. MSCV-Myc-IRES-RFP (Addgene,#35395) and pCDH-puro-cMyc (Addgene,#46970) were used to expression MYC in the rescue experiments in mouse and human cell lines, respectively. For CRISPR interference (CRISPRi) and CRISPR activation (CRISPRa) experiments, gRNAs were cloned into the LentiGuide-Puro (Addgene#52963) vector by using the BsmBI site. pHR-SFFV-KRAB-dCas9-P2A-mCherry (Addgene#60954) was used to express the dCas9-KRAB fusion protein. Sequences for all the sgRNAs were listed in Supplementary Data 3.
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2

Lentiviral Vector-Mediated Gene Modulation

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Lentivirus vector plasmids containing shRNA sequences for MSH6 were
TRCN0000286578 from Sigma (sh1) and V3LHS 318784 from Dharmacon (sh8).
Non-targeting shRNA lentivirus vector (SHC002) was from Sigma. Myc
overexpression construct, pCDH-puro-cMyc was from Addgene (#46970), and GFP
control was pCDH-CMV-MCS-EF1-copGFP from System Bioscience (CD511B-1). For
regulatable Myc knockdown, cMyc-shRNA sequences (No.1:
CCGGAGGTAGTTATCCTTAAAAACTCGAG
TTTTTAAGGATAACTACCTTTTTT
, No.2:
CCGGCCTGAGACAGATCAGCAACAACTCGAGTTGTTGCTGATCTGTCTCAGGTTTTT)
were ligated into the pLKO-Tet-On vector (#21915, Addgene). To generate
lentiviral particles, 293T cells were transfected with a lentiviral plasmid,
packaging plasmid (pCMV-dR8.2), and envelope plasmid (pCMV-VSV-G) with FuGene
(Promega). Cells were infected with lentivirus in the presence of polybrene (8
μg/ml) for 8 hours. Three days later, cells were selected with puromycin
(0.6 μg/ml for LN229, U251, U87; 0.2 μg/ml for Gli36, MGG4, MGG75,
and MGG152) for 3–4 days before use. To induce expression of Myc shRNA,
infected cells were cultured with Doxycycline (1 μg/ml) for at least 72
hours. Knockdown and overexpression was confirmed by western blot.
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3

Lentiviral Transduction of 293T and U87 Cells

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293T cells were co-transfected with lentivirus vectors containing MYC (pCDH-puro-cMYC, Plasmid #46970, Addgene) or GFP (pCDH-CMV-MCS-EF1-copGFP, CD511B-1, System Bioscience), pCMV-dR8.2 dvpr, and pCMV-VSVG with ScreenFect (Wako). U87 cells were infected with lentivirus with polybrene (8 µg/ml) for 6 hrs, and then selected with puromycin (0.7 µg/ml) for 7 days, then maintained in puromycin (0.2 µg/ml).
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4

Inducible Lentiviral Expression of MYC, MYCN, and CDK18

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PCDH-puro-cMyc (Addgene), pDNR-Dual-MYCN (PlasmID; Dana-Farber Harvard Cancer Center DNA Resource Core), and pDONR223-PCTK3 (Addgene) were used for PCR amplification of human MYC, MYCN, and CDK18 cDNAs, respectively (primer sequences in Supplementary Table 4), which were cloned into inducible lentiviral expression vector pINDUCER21 (Addgene). Control is empty vector (no cDNA). Lentiviruses were packaged as described above. Transduced GSCs were sorted by fluorescence-activated cell sorter for EGFP expression and Dox induced (1 μg/ml) for 4 days to assess protein expression by western blot. Cells were induced for 6 days prior to use in experiments.
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5

Lentiviral vector production protocol

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Lentivirus was produced by cotransfecting pCDH-puro-cMyc (Addgene #46970) or pHIV-Luciferase vector (Addgene #21375) with
packaging vectors pCI-VSVG (Addgene #1733) and psPAX2 (Addgene #12260) into HEK293 cells using Lipofectamine 3000 (Thermo
Fisher).
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6

Genetic Manipulation of MYC, ATG7, and BECN1

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Short hairpin RNA (shRNA) plasmids for MYC (TRCN0000174055), ATG7 (TRCN0000007587) and BECN1 (TRCN0000033549) were purchased from Sigma-Aldrich (Sigma Aldrich, St. Louis, MO, USA). Vectors used for overexpressing MYC (pCDH-puro-cMYC, plasmid #46970) were from Addgene (Watertown, MA, USA). The pHluorin-mKate2-tagged human LC3 plasmid (FUGW-PK-hLC3, plasmid #61460) was purchased from Addgene, and its characteristics have been previously published [33 (link)].
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7

Lentiviral Transduction of MYC shRNA

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Viruses were prepared by co-transfection of the lentiviral vector expressing the MYC shRNA with pLM-mCerulean-2A-cMyc (Addgene, 23244) or pCDH-puro-cMYC (Addgene, 46970), the packaging plasmid psPAX2, and the envelope plasmid pMD2.G into HEK293 cells. ASPC1 cells were then infected with lentiviral supernatants in the presence of 4 μg ml−1 polybrene for 24 h and sorted for mCerulean positive cells or selected with puromycin treatment. Changes in cell size after infection were monitored by analysing the forward scatter (FSC) of intact cells via flow cytometry. MYC protein levels were analysed at 4 days post-infection by western blot.
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