TABLE 3.
Evaluation of the nef open reading frame in animals inoculated with Tyr-721 mutantsa
| Virus | Animal | Time (wk) | Total no. of clones | No. of clones with following amino acid encoded by nef codon 92:
|
||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Stop (TAA) | Glu (GAA) | Ser (TCA) | Tyr (TAC) | Gln (CAA) | Lys (AAA) | Leu (TTA) | Glu (GAG) | Asp (GAC) | ||||
| SIVmac239 | N2V | 8 | 8 | 1 | 1 | 2 | 3 | 1 | ||||
| K7K | 8 | 9 | 3 | 1 | 2 | 1 | 2 | |||||
| N7K | 4 | 7 | 4 | 1 | 2 | |||||||
| SIVmac239Y/I | VF3 | 2 | 11 | 6 | 3 | 2 | ||||||
| N8G | 4 | 10 | 6 | 1 | 3 | |||||||
| N8G | 12 | 6 | 1 | 3 | 2 | |||||||
| N8G | 44 | 6 | 5 | 1 | ||||||||
| N8G | 56 | 7 | 3 | 2 | 1 | 1 | ||||||
| N8G | 80 | 10 | 3 | 3 | 4 | |||||||
| SIVmac239ΔGY | WD1 | 2 | 11 | 7 | 2 | 2 | ||||||
| WD1 | 44 | 11 | 9 | 1 | 1 | |||||||
| WD1 | 56 | 2 | 1 | 1 | ||||||||
| AGP | 4 | 9 | 9 | |||||||||
| AGP | 8 | 10 | 3 | 3 | 4 | |||||||
| AGP | 25 | 5 | 2 | 3 | ||||||||
| AGP | 52 | 5 | 1 | 4 | ||||||||
| 2AJ | 2 | 11 | 10 | 1 | ||||||||
a
DNA from peripheral blood lymphocytes of the animals indicated was amplified using nested primers that flanked the premature termination codon in nef at position 92 that was present in all viruses during the initial infection. Fragments were cloned into pCDNA and sequenced. Codon 92 and the predicted amino acids are shown at the indicated weeks postinoculation. nef reverted to an open reading frame in wild-type SIVmac239 and the Y/I and ΔGY mutants, although persistence of the stop codon was seen in some clones for animal N8G at 56 and 80 weeks.