TABLE 2.
Gammaretrovirus sequences used for phylogenetic analyses in this study
| Strain (accession no.) | Full name | Host | gag | pol | env | Reference or GenBank accession no. |
|---|---|---|---|---|---|---|
| GALV SF | Gibbon ape leukemia virus strain San Francisco | Gibbon | ✓ | ✓ | ✓ | This study |
| GALV Brain | Gibbon ape leukemia virus strain Brain | Gibbon | ✓ | ✓ | ✓ | This study |
| GALV Hall's Island | Gibbon ape leukemia virus strain Hall’s Island | Gibbon | ✓ | ✓ | ✓ | This study |
| GALV SEATO | Gibbon ape leukemia virus strain SEATO | Gibbon | ✓ | ✓ | ✓ | This study |
| WMV | Woolly monkey virus | Gibbon | ✓ | ✓ | ✓ | This study |
| GALV SEATO (M26927) | Gibbon ape leukemia virus strain SEATO | Gibbon | ✓ | ✓ | ✓ | M26927 |
| GALV-X | Gibbon ape leukemia virus strain X | Gibbon | ✓ | ✓ | ✓ | U60065 |
| GALV SF (AF055063) | Gibbon ape leukemia virus strain San Francisco | Gibbon | ✓ | AF055063 | ||
| GALV SEATO (AF055060) | Gibbon ape leukemia virus strain SEATO | Gibbon | ✓ | AF055060 | ||
| WMV (AF055064) | Woolly monkey virus | Gibbon | ✓ | AF055064 | ||
| GALV Brain (AF055062) | Gibbon ape leukemia virus strain Brain | Gibbon | ✓ | AF055062 | ||
| GALV Hall’s Island (AF055061) | Gibbon ape leukemia virus strain Hall’s Island | Gibbon | ✓ | AF055061 | ||
| KoRV-A (KF786280) | Koala retrovirus, variant A | Koala | ✓ | ✓ | ✓ | KF786280 |
| KoRV-A (KF786284) | Koala retrovirus, variant A | Koala | ✓ | ✓ | ✓ | KF786284 |
| KoRV-A (AF151794) | Koala retrovirus, variant A (strain “Cindy”) | Koala | ✓ | ✓ | ✓ | AF151794 |
| KoRV-A (AB721500) | Koala retrovirus, variant A (strain “Aki”) | Koala | ✓ | ✓ | ✓ | AB721500 |
| KoRV-B | Koala retrovirus, variant B (strain Br2-1CETTG) | Koala | ✓ | ✓ | ✓ | KC779547 |
| KoRV-A (AB823238) | Koala retrovirus, variant A (strain OJ-4) | Koala | ✓ | AB823238 | ||
| KoRV-C | Koala retrovirus, variant C (strain OJ-4) | Koala | ✓ | AB828005 | ||
| KoRV-D | Koala retrovirus, variant D (strain OJ-4) | Koala | ✓ | AB828004 | ||
| KoRV-J | Koala retrovirus, variant J (strain OJ-4) | Koala | ✓ | AB822553 | ||
| MDEV | Mus dunni endogenous virus | Mouse | ✓ | ✓ | ✓ | AF053745 |
| McERV | Mus caroli endogenous virus | Mouse | ✓ | ✓ | ✓ | KC460271 |
| MmERV | Mus musculus retrovirus | Mouse | ✓ | ✓ | ✓ | AC005743 |
| MbRV | Melomys burtoni retrovirus | Mouse | ✓ | ✓ | KF572483 to KF572486 | |
| PERV-A 1 | Porcine endogenous retrovirus A | Pig | ✓ | ✓ | ✓ | AJ293656 |
| PERV-A 2 | Porcine endogenous retrovirus A | Pig | ✓ | ✓ | ✓ | HQ540592 |
| PERV-B 1 | Porcine endogenous retrovirus B | Pig | ✓ | ✓ | ✓ | HQ540593 |
| PERV-B 2 | Porcine endogenous retrovirus B | Pig | ✓ | ✓ | ✓ | AY099324 |
| PERV-C 1 | Porcine endogenous retrovirus C | Pig | ✓ | ✓ | ✓ | HQ536013 |
| PERV-C 2 | Porcine endogenous retrovirus C | Pig | ✓ | ✓ | ✓ | AM229311 |
| PERV-C MSL | Porcine endogenous retrovirus MSL | Pig | ✓ | ✓ | ✓ | AF038600 |
| RlRV | Rousettus leschenaultii retrovirus | Bat | ✓ | ✓ | JQ951957 to JQ951958 | |
| MlRV | Megaderma lyra retrovirus | Bat | ✓ | ✓ | JQ951955 to JQ951956 | |
| RfRV | Rhinolophus ferrumequinum retrovirus | Bat | ✓ | ✓ | ✓ | JQ303225 |
| CrERV | Odocoileus hemionus endogenous virus | Mule deer | ✓ | ✓ | ✓ | JN592050 |
| OOEV | Orcinus orca endogenous retrovirus | Killer whale | ✓ | ✓ | ✓ | GQ222416 |
| BaEV | Baboon endogenous virus | Baboon | ✓ | ✓ | ✓ | D10032 |
| RD114 | Feline RD114 retrovirus | Cat | ✓ | ✓ | ✓ | EU030001 |
| REV | Reticuloendotheliosis virus | Bird | ✓ | ✓ | ✓ | AY842951 |
| PreXMRV-1 | Prexenotropic MuLV-related virus 1 | Mouse | ✓ | ✓ | ✓ | FR871849 |
| M-CRV | Murine type C retrovirus | Mouse | ✓ | ✓ | ✓ | X94150 |
| M-MuLV | Moloney murine leukemia virus | Mouse | ✓ | ✓ | ✓ | AF033811 |
| F-MuLV | Friend murine leukemia virus | Mouse | ✓ | ✓ | ✓ | Z11128 |
| R-MuLV | Rauscher murine leukemia virus | Mouse | ✓ | ✓ | ✓ | U94692 |
| FeLV | Feline leukemia virus | Cat | ✓ | ✓ | ✓ | AF052723 |