An African HIV-1 sequence from 1959 and implications for the origin of the epidemic

@article{Zhu1998AnAH,
  title={An African HIV-1 sequence from 1959 and implications for the origin of the epidemic},
  author={Tuofu Zhu and Bette T. Korber and Andr{\'e}j. Nahmias and Edward Hooper and Paul M. Sharp and David D. Ho},
  journal={Nature},
  year={1998},
  volume={391},
  pages={594-597}
}
There is considerable genetic diversity among viruses of different subtypes (designated A to J) in the major group of human immunodeficiency virus type 1 (HIV-1), the form of HIV that is dominant in the global epidemic. If available, HIV-1 sequences pre-dating the recognition of AIDS could be crucial in defining the time of origin and the subsequent evolution of these viruses in humans. The oldest known case of HIV-1 infection was reported to be that of a sailor from Manchester who died of an… 
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References

SHOWING 1-10 OF 48 REFERENCES
Sequence analysis of HIV-1 group O from Norwegian patients infected in the 1960s.
TLDR
Three Norwegians, a couple and their daughter, died from AIDS in 1976 after up to 10 years of clinical manifestations of HIV infection, and the presence of HIV DNA in autopsy materials from the father and the daughter suggests that the limited spread of these viruses is not due to a later emergence of the group O viruses.
The phylogenetic history of immunodeficiency viruses
TLDR
HIV-1 may have evolved from its common ancestor with HIV-2 as recently as 40 years ago, and the reconstruction of a minimum-length evolutionary tree based on the envelope-gene variable positions is concluded.
Tempo and Mode of Nucleotide Substitution in gag andenv Gene Fragments in Human Immunodeficiency Virus Type 1 Populations with a Known Transmission History
TLDR
Examination of seven different substitution models by maximum-likelihood methods revealed that the fit of the general reversible (REV) model was significantly better than that of simpler models, indicating that it is important to account for the asymmetric substitution pattern of HIV-1 and that the nucleotide substitution rate varied significantly across sites.
Accurate reconstruction of a known HIV-1 transmission history by phylogenetic tree analysis.
TLDR
The accuracy of the phylogenetic methods justifies their use in HIV-1 research and argues against convergent evolution and selective transmission of certain virus variants.
Intrahost human immunodeficiency virus type 1 evolution is related to length of the immunocompetent period
TLDR
The data suggest that intrahost evolution in human immunodeficiency virus type 1 infection is driven by selective forces, the strength of which is related to the duration of the immunocompetent period and there is no causative relationship between intra host evolution and CD4+ cell decline.
Rates and dates of divergence between AIDS virus nucleotide sequences.
TLDR
The analysis suggests that the AIDS virus had existed in central Africa before 1960 and spread to North America before the mid 1970s, and the result is consistent with the view that AIDS spread from Haiti to the United States.
An application of population genetic theory to synonymous gene sequence evolution in the human immunodeficiency virus (HIV).
  • J. Kelly
  • Medicine, Biology
    Genetical research
  • 1994
TLDR
The analysis of samples taken from several previous studies, which contain sequences of the envelope glycoprotein gene of HIV-1, suggests that the viral population within an infected patient at any specific time is likely to be composed of close relatives.
Evolutionary origin of human and simian immunodeficiency viruses.
TLDR
Nucleotide sequences of simian immunodeficiency viruses (SIVs) and HIVs are analyzed by using the techniques for understanding molecular evolution to show that the present HIVs may have emerged as different variants of Sivs of Old World monkeys, possibly from recombination between viruses related to SIVs.
Adaptive Evolution of Human Immunodeficiency Virus-Type 1 During the Natural Course of Infection
TLDR
The evolutionary dynamics exhibited by the HIV-1 quasispecies virus populations under natural selection are compatible with adaptive evolution.
Molecular cloning and analysis of functional envelope genes from human immunodeficiency virus type 1 sequence subtypes A through G. The WHO and NIAID Networks for HIV Isolation and Characterization
TLDR
The panel of env constructs described here should prove valuable for future structure-function studies of naturally occurring envelope glycoproteins as well as AIDS vaccine development efforts targeted against a broader spectrum of viruses.
...
1
2
3
4
5
...