Athila4 of Arabidopsis and Calypso of Soybean Define a Lineage of Endogenous Plant Retroviruses

A neighbor-joining tree of reverse transcriptases from Arabidopsis thaliana Ty3/gypsy retroelements. The tree was generated from amino acid sequences encompassing the seven conserved domains that define reverse transcriptase (Xiong and Eickbush 1990). Each major group (classic, Tat, and Athila) is labeled. Numbers along the branches indicate bootstrap support for 100 replicates. Arrows indicate the most recent common ancestor for each of the three lineages. Reverse transcriptases from Tma3-1, Tat4-1, and Athila1-1 were used in BLAST searches and are noted with an asterisk. BAC numbers for reverse transcriptases are in clockwise order, beginning with the branch marked number 1: T5E15, F23C08-2, MTO24, T16I21, T12H3, F23H14-4, T5M2/T17H1, F23H14-3, F9B22, T12K4, T14K23, T26P13-1, T5E15-2, T14A11, F13E17, F3D18,Tma3-1 9D12, MKD10, T1J24, MXE2, F28I8, T13P21/T6B13/F26C24-1-1, F23H14-4-4, F7F23, T5L23, T13H18/F3K12/F14P14-1, F9M13-2, F3H7, MJI6-1, F8D11, T32N15, T32B20, F17L24-2, F28J9-1, F5J5, F5K24, T14K23-2, T7B9-2, T10P12-3, F14I23, F11I2, T1O13, T29A4-3, F17L24, F19C17, T14A11-5, T27D20, T9F8/T4E14, T7B9-3, F15O4-2, MYM9, F7P1-2, F22D12, K11J14-2, F9M13, F6H5-2, T17A11/F15O11, T12K4-3, MTO24-2, T32E20, F12P23/T4D8, T10P12, T21C14, T13H18/F3K12/F14P14-2, F18P9, MJI6-2, F23H6, T8M17, F7K2, MOD1, T13P21/T6B13/F26C24-2, F26G5-2, T5N23, T21B14, K11J14, F1D9, MXC9, MVA11, F16J10/T20G20/T3P4, F28I8/F1O13, T17A11/F15O11-2, F19I11, T5L23, F6H5, F7M19, F1M23-4, F7I20, T24G3, F8N14, F8N14-2, F23M2, T15J14/F15A23, T4P3, T1O16/T13P21-1, Tat4-1 MXA21, T24H24, T12O21, F26H6, F7K15, F4M19, F5M15, T19K21/T17A11, F23H14-1-1, F12P23, T15D5, T19K21/T17A11-2, K11J14, T17A11/F15O11, F28H19, T24H24, F9M13-1, T27D6, F28L22, T7B9-1, F24C20/T27D6, F6H8, F15O11/F14O4/T26C18, F23C08-2, F3D18, F28L21, F1M23-2, F23C08, T13P21, F19N02, T5H22, F1M23-3, F17M07, F14G16, MIL15, F10A2, K2K18, T6L9, T3J11, F15K19/T13H18, Athila1 (Athila1-3 F4I4,Athila1-1 MXI10), Athila6 (F13C19, T32E20-2, F21I2-2, F7I20, F23H6-2, F5K7/F18P14/F28N16, F3D18-2, F26B15, F9M8,Athila6-2 F28N5, Athila6-1 T9E19), Athila4(T32O2-2, T25N22/T13E11, Athila4-3 F7F22, Athila4-4F7F22, F28L21, F9M8-2, Athila4-1 F1404, F7P3,Athila4-2 MED5, Athila4-10 T26P13, Athila4-7F7B19/T15D2, T32O2, F10A2, Athila4-6 F1809, Athila4-9T15D2 Athila4-5 F7K15, T26P13-2, T29A4, MIF6, T14A16, F21I2,Athila4-8 T6L9, F7B19/T15D9), Athila9(T13D4,T13H18/F3K12/F14P14, F28H19, Athila9-1 T24G23, T7B9, F14C23, F10A2-2, T27B3), Athila8 (F17L24/F9B22),Athila7 (T3B16, F21A17), Athila5 (F1M23, T22B15, T19K21/T17A11, Athila5-1 F23M2, F23C08, Athila5-1F14B16, T5E15-3, T32A11, T18O6/F7E22/F23M2, F11B20).