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    CRISPR knock-in validation

    Leonardo A Parra-Rivas

    Published: 2023-11-12 DOI: 10.17504/protocols.io.n2bvj3qb5lk5/v1
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    Abstract

    CRISPR knock-in validation

    Steps

    1.

    Cultured hippocampal neurons tagged with oScarlet were prepared with Lucigen

    QuickExtract DNA extraction solution (Biosearch Technologies, cat# QE09050).

    Briefly, neurons were lysed by adding 50 ul of QuickExtract solution to each

    sample.

    2.

    The samples were mixed by pipetting and incubated at 68 °C for 15 min

    followed by 95 °C for 10 min in a thermocycler before being stored at -20 °C

    for downstream analysis.

    3.

    Two different PCR reactions were performed to amplify

    DNA products of ~500 bp corresponding to the 5’ and 3’ integration junctions.

    PCR#1 used the α-syn forward primer: TGTGCTTTCTCTTCCCTCTCTG and the reverse oScarlet primer CCGTCCTCGAAGTTCATCAC, whereas PCR#2 used the α-syn forward primer:

    ATAACACTTCGTGCAGCACC and the reverse oScarlet primer ACAGGATGTCCCAGGAGAAG.

    4.

    PCR products were extracted from the agarose gel using the Monarch DNA gel

    extraction kit (New England Biolabs, cat# T1020S), and samples were submitted for

    sequencing for analysis at MCLAB.

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