APPENDIX C Sequence and Analysis of the Genome of Human Papovavirus BKV

Abstract

This presentation and analysis of the nucleotide sequence for the Dunlop strain of human papovavirus BKV, BKV(Dun), derives from the study described by Seif et al. (1979a). The Dunlop strain of BKV was isolated by K. Takemoto and colleagues (Howley et al. 1975) from a patient with the immunologic disorder described as the Wiskott-Aldrich syndrome. The sequence of 5153 nucleotides of BKV (Dun) differs slightly from other isolates, such as prototype BKV (Gardner et al. 1971) and the BKV(MM) (Takemoto et al. 1974). The latter strain represents the equivalent of a large, naturally occurring, early viable deletion mutant of BKV (Yang and Wu 1979). By analogy to the presentations of the SV40 and polyoma virus (Py) sequences in Appendixes A and B, respectively, the numbering of the BKV(Dun) nucleotide sequence (Section 1) begins at a point near the origin for viral DNA replication and proceeds in a clockwise direction through the late region. It should be noted that an alternative numbering scheme was used in the original presentation of this sequence (Seif et al. 1979a), and it is this original numbering system that appears in other sections of this appendix.

Like SV40 and polyoma virus, BKV contains an early region and a late region (Sections 1 and 2) expressed at a different times during infection of the lytic host, which for BKV is usually a human embryonic kidney cell culture. As in SV40, two early and three late polypeptides have been defined. Their putative protein sequences, based on analysis of...