Identification of the Spread of the Influenza Virus Type A/H9N2 in Indonesia Using the Neighbor-Joining Algorithm with Felsenstein Models

Siti Amiroch, Mohammad Isa Irawan, Imam Mukhlash, Arif Nur Muhammad Ansori, Chairul A. Nidom


The H9N2 virus is an avian influenza disease that does not harm humans but causes respiratory infections and replicates in the tract reproduction in chickens, reducing egg production by 50% to 80%. This case is related to a bioinformatics review from a mathematical perspective, namely, analyzing the H9N2 virus spread using phylogenetic trees with other methods. The phylogenetic tree is a visualization of multiple alignment analysis obtained from the evolution analysis between each sequence pair based on the pairwise alignment method. As a way to identify the spread of the H9N2 virus, the formation of this phylogenetic tree uses pairwise alignment with the Needleman-Wunsch algorithm as the first step in processing the multiple alignments of the H9N2 virus. In this study, phylogenetic trees were constructed using a distance-based method, namely the neighbor-joining algorithm with the Felsenstein model, and simulated in MATLAB®. With this method, we can arrange the phylogenetic tree views with different colors according to the cluster and each branch's spacing shown in more detail. The pairwise alignment results also show mutations from the initial sequence to the entire series in the first cluster.



Keywords: avian influenza, H9N2, phylogenetics tree, neighbor-joining algorithm, Felsenstein models.




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