The circulation of Avian Influenza A (H5N1) and Swine Influenza A (H1N1) infection in Egypt increased the burden of a reassortant virus which may increased the human infection rate because it is unknown to the human immune system. This study was done from 2010 through 2016 to detect influenza viruses in Assiut Governorate among respiratory patients admitted to the Assiut University hospital using Real time PCR (rRT-PCR), as well as exhibit the factors associated with infection. Four (5.8%) and 19 (27.5%) out of 69 patients were infected with H5N1 and H1N1 subtypes respectively. Influenza virus activity was increased in cold weather resulted in increased influenza infection rate in both poultry and humans. Also, the clinical outcome toward patient recovery was increased with early detection and treatment of virus infection. In addition, people in contact with poultry, patients with chronic diseases, and those in contact with infected patients are highly significant for A (H5N1) and A (H1N1) infection. Strict implementation of control measures to eliminate the infection in both poultry and human is essential for reducing the risk of zoonotic transmission and human infection with influenza diseases.

Key words: Avian influenza, H1N1, H5N1, Real time PCR, Respiratory manifestations, Swine influenza