Comparative hybridization and nucleotide sequence information from two noncytopathic isolates of bovine viral diarrhea virus.

Comparative hybridizations of 8 cytopathic (CP) and 11 noncytopathic (NCP) isolates of bovine viral diarrhea virus (BVDV) were done using 4 different cDNA hybridization probes. The hybridization probes were prepared from cDNA synthesized from 1 CP BVDV (NADL) and 2 NCP BVDV isolates (SD-1 and NY-1) within the p80 region and from cDNA spanning the 5' untranslated region of NCP SD-1. Hybridization with the 5'/SD-1 probe detected 19 out of 19 isolates, whereas the p80/NADL, p80/NY-1 and p80/SD-1 hybridization probes detected only 12, 16 and 13 isolates, respectively. To determine the basis for the different patterns of hybridization, the nucleotide sequence was determined for the p80/NY-1. The nucleotide sequence was compared with the published CP NADL and CP Osloss and NCP SD-1 and NCP1 nucleotide sequences and in 45% of the base differences between NY-1 and NADL, NY-1 and Osloss were divergent from NADL, SD-1 and NCP1. Based on comparative nucleotide sequence data and the different reactivities of the p80/NADL, p80/NY-1 and p80/SD-1 hybridization probes the relationships of the various test isolates were characterized.