Dear researchers,
I have identified the presence of efflux pump genes in only 65% of Pseudomonas and absent in 35% of Pseudomonas strains.
Where detection of the gene by PCR targeting MexAB-oprM like genes doesn't mean that they overexpressed or not?
I prefer qPCR-based quantification of expression of efflux pump gene from mRNA.
My query is what about the 35% of strains that lack either MexAB-oprM, MexXY-oprm, MexEF-oprN, MexCD-oprJ, or none of these pumps, which means only few, or resistant strains only carry efflux pump genes or all strain will carry certain efflux gene, but only resistant strains will overexpress?
Is PCR-based Efflux pump gene detection valuable or not?
Thanks in advance.
Dear Nandogopal
These efflux pumps encoded choromosally. So %35 of your strains must carry this pump. But some strains have lower expression then resistance form of your strains. In my opinion, real time pcr will be effective for measure the expression levels of your strains. Or you can sequence MeX genes for %35 strains by convential pcr and jel electrophoresis and blast it.
Best wishes
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