Author:

Keywords:

Amino Acid Sequence, Animals, Base Sequence, Cell Line, Genome, Viral, Human T-lymphotropic virus 2, Humans, Molecular Sequence Data, Nucleic Acid Conformation, Pan paniscus, Phylogeny, Polymerase Chain Reaction, RNA, Viral, Sequence Analysis, RNA, Sequence Homology, Amino Acid, Simian T-lymphotropic virus 1, Variation (Genetics), Science & Technology, Life Sciences & Biomedicine, Virology, CELL LEUKEMIA-VIRUS, COMPLETE NUCLEOTIDE-SEQUENCE, LONG TERMINAL REPEAT, RNA SECONDARY STRUCTURE, II GENE-EXPRESSION, VACUOLAR H+-ATPASE, DRUG-ABUSERS, PHYLOGENETIC RELATIONSHIP, VIRAL REPLICATION, MESSENGER-RNAS, Genetic Variation, 06 Biological Sciences, 07 Agricultural and Veterinary Sciences, 11 Medical and Health Sciences, 30 Agricultural, veterinary and food sciences, 31 Biological sciences, 32 Biomedical and clinical sciences

Abstract:

We have isolated a highly divergent simian T-lymphotropic virus, STLV-PP1664, from a wild-caught bonobo (Pan paniscus). Previous phylogenetic analysis suggested that this virus represents an additional type of STLV but this has now become a matter of discussion. We have now obtained and analyzed the entire genome of STLV-PP1664. All major genes and their corresponding viral messengers were identified. Sequence comparison and phylogenetic analysis indicated that this virus, together with the closely related panp isolate, belongs to an early lineage within the PTLV-2 clade, differing from HTLV-2 by about 25%. In contrast to the HTLV-1 and HTLV-2 LTR, only two 21-bp repeats instead of three were found in the STLV-PP1664 LTR. Additional messengers, resulting from alternative splicing, potentially encode five different accessory proteins from open reading frames in the pX region: prorfI, porfII, ptorfV', and two isoforms of Rex. The amino acid sequences of these proteins are only distinctly related to the accessory proteins from HTLV-2. These data suggest a different genomic organization of the STLV-PP1664 pX region than that of HTLV-2. We conclude that STLV-PP1664, although related to HTLV-2, has some distinct features in the LTR and the pX regions, the impact of which needs further investigation. Although arguments pro and contra a distinct classification are nearly equally balanced, we propose to classify this virus as an STLV-2, designated STLV-2PP1664.