Molecular identification of enterovirus by analyzing a partial VP1 genomic region with different methods.

ABSTRACT: VP1 is the most suitable region for use in the identification of enterovirus. Although VP1 sequencing methods may vary, it is necessary to agree on a common strategy of sequence analysis. Identification of a strain type may be achieved by three different approaches: pairwise sequence alignment, multiple-sequence alignment, and phylogenetic inference. Other methods are also available, but they are not simple enough to be performed at a virology laboratory. The performances of these methods were evaluated with nucleotide and protein sequences obtained from 32 original samples, 8 enterovirus isolates, and 64 GenBank sequences. Pairwise sequence alignment methods had very different results. The DNASTAR package identified only 28.8% of enterovirus strains, while the Genetics Computer Group pack

SUBMITTER: Palacios G 

PROVIDER: S-EPMC120085 | biostudies-literature | 2002 Jan

REPOSITORIES: biostudies-literature