Most studies on the molecular biology and functional analysis of vesicular stomatitis virus Indiana 1 serotype (VSV-IN1) are based on the only full-length genomic sequence currently deposited in GenBank. This sequence is a composite of several VSV-IN1 laboratory strains passaged extensively in tissue culture over the years and it is not certain that this sequence is representative of strains circulating in nature. We describe here the complete genomic sequence of three natural isolates, each representing a distinct genetic lineage and geographical origin : 98COE (North America), 94GUB (Central America) and 85CLB (South America). Genome structure and organization were conserved, with a 47 nucleotide 3h leader, five viral genes -N, P, M, G and L -and a 59 nucleotide 5h trailer. The most conserved gene was N, followed by M, L and G, with the most variable being P. Sequences containing the polyadenylation and transcription stop and start signals were completely conserved among all the viruses studied, but changes were found in the non-transcribed intergenic nucleotides, including the presence of a trinucleotide at the M-G junction of the South American lineage isolate. A 102-189 nucleotide insertion was present in the 5h non-coding region of the G gene only in the viruses within a genetic lineage from northern Central America. These full-length genomic sequences should be useful in designing diagnostic probes and in the interpretation of functional genomic analyses using reverse genetics.

We report the orientational behavior of nematic phases of 4-cyano-4'-pentylbiphenyl (5CB) on cationic, anionic, and nonionic surfaces before and after contact of these surfaces with solutions containing the negatively charged vesicular stomatitis virus (VSV). The surfaces were prepared on evaporated films of gold by either adsorption of poly-L-lysine (cationic) or formation of self-assembled monolayers (SAMs) from HS(CH2)2SO3- (anionic) or HS(CH2)11(OCH2CH2)4OH (nonionic). Prior to treatment with virus, we measured the initial orientation of 5CB (delta epsilon = epsilon(parallel) - epsilon(perpendicular) > 0) to be parallel to the cationic surfaces (planar anchoring) but perpendicular (homeotropic) after equilibration for 5 days. A similar transition from planar to homeotropic orientation of 5CB was observed on the anionic surfaces. Only planar orientations of 5CB were observed on the nonionic surfaces. Because N-(4-methoxybenzylidene)-4-butylaniline (MBBA, delta epsilon = epsilon(parallel) - epsilon(perpendicular) < 0) exhibited planar alignment on all surfaces, the time-dependent alignment of 5CB on the ionic surfaces is consistent with a dipolar coupling between the 5CB and electrical double layers formed at the ionic interfaces. Treatment ofpoly-L-lysine-coated gold films (cationic) with purified solutions of VSV containing 10(8)-10(10) plaque-forming units per milliliter (pfu/mL) led to the homeotropic alignment of 5CB immediately after contact of 5CB with the surface. In contrast, treatment of anionic surfaces and nonionic surfaces with solutions of VSV containing approximately 10(10) pfu/mL did not cause immediate homeotropic alignment of 5CB. These results and others suggest that homeotropic alignment of 5CB on cationic surfaces treated with VSV of titer > or = 10(8) pfu/mL reflects the presence of virus electrostatically bound to these surfaces.

Foot-and-mouth disease virus (FMDV) isolates collected from various geographic locations in Afghanistan between 2003 and 2005 were genetically characterized, and their phylogeny was reconstructed utilizing nucleotide sequences of the complete VP1 coding region. Three serotypes of FMDV (types A, O, and Asia 1) were identified as causing clinical disease in Afghanistan during this period. Phylogenetic analysis revealed that the type A viruses were most closely related to isolates collected in Iran during 2002-2004. This is the first published report of serotype A in Afghanistan since 1975, therefore indicating the need for inclusion of serotype A in vaccine formulations that will be used to control disease outbreaks in this country. Serotype O virus isolates were closely related to PanAsia strains, including those that originated from Bhutan and Nepal during 2003-2004. The Asia 1 viruses, collected along the northern and eastern borders of Afghanistan, were most closely related to FMDV isolates collected in Pakistan during 2003 and 2004. Data obtained from this study provide valuable information on the FMDV serotypes circulating in Afghanistan and their genetic relationship with strains causing FMD in neighboring countries.