Classification of Viruses Based on the Amino Acid Sequences of Viral Polymerases
2007
Nam, J.H. (Chungbuk National University, Cheongju, Republic of Korea) | Lee, D.H. (Chungbuk National University, Cheongju, Republic of Korea) | Lee, K.M. (Chungbuk National University, Cheongju, Republic of Korea) | Lee, C.H. (Chungbuk National University, Cheongju, Republic of Korea), E-mail: [email protected]
According to the Baltimore Scheme, viruses are classified into 6 main classes based on their replication and coding strategies. Except for some small DNA viruses, most viruses code for their own polymerases: DNA-dependent DNA, RNA-dependent RNA and RNA-dependent DNA polymerases, all of which contain 4 common motifs. We undertook a phylogenetic study to establish the relationship between the Baltimore Scheme and viral polymerases. Amino acid sequence data sets of viral polymerases were taken from NCBI GenBank, and a multiple alignment was performed with CLUSTAL X program. Phylogenetic trees of viral polymerases constructed from the distance matrices were generally consistent with Baltimore Scheme with some minor exceptions. Interestingly, negative RNA viruses (Class V) could be further divided into 2 subgroups with segmented and non-segmented genomes.
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