Hi,
I plan on running qPCR to detect certain Genus from samples. How do I go about desinging them?
I know that I need to find a sequence preserved in all the species inside the genus, align them and the find a primer. But, how do I find a sequence that is preserved in all the species?
I am using NCBI for all my sequences.
Thanks
I'm not in that field, but I believe ribosomal coding regions are used for genus identification.
Hi
It is not clear which gene and which genus you plan to use for designing genus specific qPCR primers. If you are using NCBI...use BLAST program with 'genus-specific' search to retrieve the sequences similar to the GOI. DO a MSA for finding conserved regions and identify those suitable for qPCR analysis. This is commonly followed approach unless you are working ona gene or an organism for which not muc infromation is there in the data base.
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