I am conducting Avian Influenza virus detection by real time rt PCR.
I did 4 target AI genes and 4 primer probe sets for PCR.
(H7 HA, H5 HA, NP and M target gene)
I run real time 4 time individually for that 4 target genes.
The result came out non-similarity.
(For Example,
In Sample no 1, H7 HA and H5 HA amplified (positive) but not amplified in NP gene and M gene .
In Sample no.2., result came all 4 gene were amplified.
In Sample no.3 NP gene and M gene and H5 HA gene came out positive result.)
How can I understand the nature of antigenic protein surfaces of virus and detection system of real time PCR.
Even though the same sample and same virus, can different results by using different target gene?
Due to viral load and genetic variability, the results of detecting AIV using variety of target genes can vary.
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