Iam working on pathotyping of avian influenza virus. I have sequenced some samples but it's quite difficult to detect HA cleavage site and presence of amino acids.
Did you sequence the whole HA or only certain fragment? , did your primers flank the cleavage site ?!
Do you have reference virus as a positive control for sequencing?
Hi Amjade Ali,
I think this published work will be helpful for you.
Article Genetic characterization of H5N2 influenza viruses isolated ...
Primers for sequencing of H5 and H7 subtypes of Influenza A virus you can find in this document : https://science.vla.gov.uk/flu-lab-net/docs/ai-influenza%20virus-pcr-H5-H7.pdf
Cleavage site motifs and pathotyping you can find in this document: http://www.offlu.net/fileadmin/home/en/resource-centre/pdf/Influenza_A_Cleavage_Sites.pdf
Best regards
Very easy to find out the HA cleavage site by searching the GLF after translation of nucleotide. Please read this documents and make it successfully.
http://www.offlu.net/fileadmin/home/en/resource-centre/pdf/Influenza_A_Cleavage_Sites.pdf
- Badges
- Science method