Identification of co-varying amino acid residue pairs from influenza A viral polymerase genes

• Main Authors: Shu Chuan Nien, 粘淑娟
• Other Authors: G. W. Chen
• Format: Others
• Published: 2008
• Online Access: http://ndltd.ncl.edu.tw/handle/06956695491801531348

碩士 === 長庚大學 === 資訊工程學研究所 === 96 === Biological diversities are observed at any time during the course of evolution. By observing and analyzing the sequence covariations among various species or entities would help in understanding such evolutionary activities and their consequences. Influenza virus is known for its high genomic variability and is capable of adapting itself in continuously infecting various species. Influenza ribonucleic proteins (RNPs), including PB2, PB1, PA and NP, are four viral proteins that are known to relate to virus replication. It is hypothesized that, any mutations occurred to one of these proteins, would be accompanied by corresponding mutations from the others, in order to maintain needed viral yields for the replication. In this work we intend to find, through computational analysis, co-varying amino acid pairs that occurred among these RNPs for influenza A virus during its evolutionary path. We hope that our system would provide a platform for users to enter their own protein sequence set, in which they believe there exists a co-evolutionary activity and would like to know what co-varying amino acid pairs are responsible for such co-evolution. In particular when searching for co-varying amino acid pairs for influenza A RNPs, one would know if replacing certain amino acid from one to the other would be able to inhibit viral replication, thus subsequent infection and transmission