Detection of bacterial SNP using regular PCR primers

Question

[A_heath]

Hi all,

I have two bacterial strains that only differ from several SNPs in their genomes. I am wondering if designing specific primer sequences containing the SNP mutation will be enough to differentiate the two strains using regular PCR?

I have heard of locked nucleic acid oligonucleotides but I would rather use regular PCR if possible.

Thank you in advance for you much appreciated help and advices!

Audrey

[David Parry]

I doubt sequences differing by only a single SNP allow you to distinguish by PCR alone. If you want to avoid sequencing, would restriction digests be an option for your SNPs of interest?