Research
Ancient, independent evolution and distinct molecular features of the novel human T-lymphotropic virus type 4
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* Corresponding author: William M Switzer bis3@cdc.gov
- † Equal contributors
1 Laboratory Branch, Division of HIV/AIDS Prevention, National Center for HIV/AIDS, Viral Hepatitis, STD, and TB Prevention, Centers for Disease Control and Prevention, Atlanta, GA 30333, USA
2 Department of Pathology, Immunology and Laboratory Medicine, College of Medicine, University of Florida, Gainesville, FL 32610, USA
3 Department of Zoology, University of Oxford, Oxford, OX1 3PS, UK
4 Department of Molecular Virology & Microbiology, Baylor College of Medicine, Houston, Texas 77030, USA
5 Stanford University, Program in Human Biology, Stanford, CA 94305, USA
6 Global Viral Forecasting Initiative, San Francisco, CA 94105, USA
7 Graduate School of Public Health, University of Pittsburgh, Pittsburgh, PA 15261, USA
8 Southwest National Primate Research Center, San Antonio, TX 78227, USA
Retrovirology 2009, 6:9 doi:10.1186/1742-4690-6-9
Published: 2 February 2009Additional files
Additional file 1:
Supplementary figures. Figure S1. Pair-wise transition (s; blue line) and transversion (v, green line) versus divergence plots in different HTLV-4 (1863LE) genes using 1st + 2nd or 3rd codon positions (cdp). Genetic distances were calculated with the Tamura and Nei 1993 (TN93) model and plotted against the estimated number of transitions and transversions for each pair-wise comparison using the DAMBE program. Figure S2. Evolutionary relationship of major genes and the entire genome of HTLV-4(1863LE) to other PTLVs by using either Neighbor-Joining (NJ; a-f) or maximum likelihood (ML, g-j) methods. The percentage of replicate trees in which the associated taxa clustered together in the bootstrap test (100–1000 replicates) is shown at the branch nodes. Branch lengths are drawn to scale and only bootstrap values greater than 70% are shown. Branches leading to PTLV-1, HTLV-2, and PTLV-3 sequences are drawn in red, blue, and green, respectively. The branches leading to HTLV-4(1863LE), STLV-2, and to the divergent STLV-5(MarB43) strain are drawn in magenta, purple, and yellow, respectively.
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