Can the ploidy of my cell line affect the results of my CRISPR-Cas9 gene editing experiment?
When using a CRISPR-Cas9 system to disrupt gene function, it is important to know as much as you can about the gene you are targeting and your cells of interest. In particular, the ploidy of your cells, the gene copy number and the presence of any SNPs are important considerations. In normal diploid cells, obtaining mutations on both alleles may be required for a complete knockout and an observable phenotype. Virtually all cancer lines and many immortalized cell lines exhibit aneuploidy and as such, mutation of multiple alleles may be necessary. The presence of SNPs and multiple genomic locations should also be taken into account when designing crRNAs, as they can affect whether a complete knockout can be achieved. Expansion of clones from single cells followed by sequence validation to verify the desired mutation on all alleles is the most rigorous approach for confirming complete gene knockout.