Small-ruminant lentiviruses (SRLVs), including Caprine arthritis encephalitis virus (CAEV) in goats and maedi-visna virus (MVV) in sheep, are lentiviruses that, despite overall similarities, show considerable genetic variation in regions of the SRLV genome. To gain further knowledge about the genetic diversity and phylogenetic relationships among field isolates of SRLVs occurring in geographically distinct areas, the full-length genomic sequence of a CAEV isolate (CAEV-1GA) and partial env sequences obtained from Norwegian CAEV-infected goats were determined. The genome of CAEV-1GA consisted of 8919 bp. Alignment studies indicated significant diversity from published SRLV sequences. Deletions and hypervariability in the 59 part of the env gene have implications for the size of the proposed CAEV-1GA Rev protein and the encoded surface glycoprotein (SU). The variable regions in the C-terminal part of SU obtained from Norwegian CAEV isolates demonstrate higher sequence divergence than has been described previously for SRLVs. Phylogenetic analysis based on SU sequences gives further support for a unique group designation. The results described here reveal a distant genetic relationship between Norwegian CAEV and other SRLVs and demonstrate that there is more geographical heterogeneity among SRLVs than reported previously.
INTRODUCTIONSmall-ruminant lentiviruses (SRLVs) are monocyte/ macrophage-tropic lentiviruses of goats and sheep. Caprine arthritis encephalitis virus (CAEV) and the ovine maedi-visna virus (MVV) cause persistent infections that can induce systemic diseases affecting joints, mammary glands and respiratory and central nervous systems after long incubation periods (Narayan et al., 1993). Ingestion of infected colostrum and milk or direct contact with infected animals are the major transmission modes of SRLV within flocks (reviewed by Blacklaws et al., 2004). SRLV infections are widespread in most regions of the world and are associated with economic losses in small-ruminant production (reviewed by Peterhans et al., 2004).Like other lentiviruses, SRLVs are characterized by high genetic diversity, resulting from factors such as high mutational rates and rapid virus production (Wain-Hobson, 1996). The SRLV genome contains the structural genes gag, pol and env, in addition to the regulatory genes rev, vif and tat. SRLVs are closely related genetically; however, one of the hallmarks of lentiviruses is the genetic variation, found mainly in the viral env and rev genes, as well as in the long terminal repeat (LTR) region (Pyper et al., 1986;Knowles et al., 1991). Sequence information from SRLVs occurring in geographically distinct areas is limited, and thus the extent of diversity and the impact that these variations may have on viral properties and various methods used for diagnosis of infection are only partly known.Prototypic full-length SRLV sequences include that of CAEVCo, a strain originally isolated in the USA (Saltarelli et al., 1990), the ovine South African SA-OMVV strain , the British EV-1 strain...