Nucleotide sequences of the infectious DNA clones of two mink enteritis virus isolates exhibit the diversity of the terminal palindromic sequences and predicted secondary structures

Abstract

In this study, the infectious RF-DNA clones of two mink enteritis viruses, MEV-SD1 and MEV-SD7, were constructed, which generated progeny virions and seemed to contain an almost or completely full-length genome. The genomes of MEV-SD1 and MEV-SD7 were 5162 bp and 5113 bp in length, respectively. The genomic organizations of MEV-SD1 and MEV-SD7 were similar to that of the other carnivore parvoviruses. The 3'-UTR of the virion strand of MEV-SD1 and MEV-SD7 were 311 bp and 313 bp in length, respectively, containing a 208 bp palindromic sequence assuming Y-shaped configurations. Interestingly, the difference of the 3' palindromic sequences between MEV-SD1 and MEV-SD7 resulted in the orientation inversion of the hairpin ears. And the 5'-UTRs of MEV-SD1 and MEV-SD7 were 582 bp and 531 bp, respectively, containing a 198 bp palindromic sequence assuming U-shaped configurations, a triplet mismatch (5'-TAC-3') in the center of the duplex stem and a triplet mismatch (5'-AGA-3') forming a small asymmetric bubble. The findings demonstrated that the genomic termini of the carnivore parvoviruses showed the diversity in length, base composition, and predicted secondary structure.

Keywords: Entire genomes; Infectious DNA clone; Mink; Mink enteritis virus; Secondary structure.