The causes and consequences of HIV evolution (Q22251040)

Europe PubMed Central

title

The causes and consequences of HIV evolution (English)

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1

Andrew Rambaut

Andrew

Rambaut

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7 February 2023

David Posada

2

David

Posada

1 reference

7 February 2023

Keith A. Crandall

3

Keith A.

Crandall

1 reference

7 February 2023

Edward C. Holmes

4

Edward C.

Holmes

1 reference

1021056482

AIDS as a zoonosis: scientific and public health implications

7 February 2023

language of work or name

English

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publication date

January 2004

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published in

Nature Reviews Genetics

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volume

5

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issue

1

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page(s)

52-61

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cites work

1 reference

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Partial molecular characterization of two simian immunodeficiency viruses (SIV) from African colobids: SIVwrc from Western red colobus (Piliocolobus badius) and SIVolc from olive colobus (Procolobus verus).

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Preferential host switching by primate lentiviruses can account for phylogenetic similarity with the primate phylogeny

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The evolutionary rate of nonpathogenic simian immunodeficiency virus (SIVagm) is in agreement with a rapid and continuous replication in vivo

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Timing the ancestor of the HIV-1 pandemic strains

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Dating the common ancestor of SIVcpz and HIV-1 group M and the origin of HIV-1 subtypes using a new method to uncover clock-like molecular evolution

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Using human immunodeficiency virus type 1 sequences to infer historical features of the acquired immune deficiency syndrome epidemic and human immunodeficiency virus evolution

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Tracing the origin and history of the HIV-2 epidemic

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Recombination and the molecular clock

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A novel approach to detecting and measuring recombination: new insights into evolution in viruses, bacteria, and mitochondria

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

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Risk to human health from a plethora of simian immunodeficiency viruses in primate bushmeat

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Unprecedented degree of human immunodeficiency virus type 1 (HIV-1) group M genetic diversity in the Democratic Republic of Congo suggests that the HIV-1 pandemic originated in Central Africa.

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HIV-1 dynamics in vivo: virion clearance rate, infected cell life-span, and viral generation time

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Genetic drift and within-host metapopulation dynamics of HIV-1 infection

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Rapid evolution of the neutralizing antibody response to HIV type 1 infection

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Antibody neutralization and escape by HIV-1

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Immune-mediated positive selection drives human immunodeficiency virus type 1 molecular variation and predicts disease duration.

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Clustered mutations in HIV-1 gag are consistently required for escape from HLA-B27-restricted cytotoxic T lymphocyte responses.

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Quantitation of HIV-1-Specific Cytotoxic T Lymphocytes and Plasma Load of Viral RNA

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Human immunodeficiency virus genetic variation that can escape cytotoxic T cell recognition

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Clustering patterns of cytotoxic T-lymphocyte epitopes in human immunodeficiency virus type 1 (HIV-1) proteins reveal imprints of immune evasion on HIV-1 global variation

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Tat-specific cytotoxic T lymphocytes select for SIV escape variants during resolution of primary viraemia

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Acute phase cytotoxic T lymphocyte escape is a hallmark of simian immunodeficiency virus infection

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Eventual AIDS vaccine failure in a rhesus monkey by viral escape from cytotoxic T lymphocytes

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Causes of HIV diversity

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Adaptation in the env gene of HIV-1 and evolutionary theories of disease progression.

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Antigenic Diversity Thresholds and the Development of AIDS

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Patterns of HIV-1 evolution in individuals with differing rates of CD4 T cell decline

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Adaptive evolution of human immunodeficiency virus-type 1 during the natural course of infection

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Potential impact of recombination on sitewise approaches for detecting positive natural selection

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Biologic features of HIV-1 that correlate with virulence in the host

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Evidence for differences in MT2 cell tropism according to genetic subtypes of HIV-1: syncytium-inducing variants seem rare among subtype C HIV-1 viruses

31 March 2020

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Comparing the ex vivo fitness of CCR5-tropic human immunodeficiency virus type 1 isolates of subtypes B and C.

31 March 2020

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Homogeneous quasispecies in 16 out of 17 individuals during very early HIV-1 primary infection.

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Genotypic and phenotypic characterization of HIV-1 patients with primary infection

31 March 2020

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Perinatal transmission of major, minor, and multiple maternal human immunodeficiency virus type 1 variants in utero and intrapartum

31 March 2020

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Selective transmission of human immunodeficiency virus type-1 variants from mothers to infants

31 March 2020

1 reference

Diversity of the human immunodeficiency virus type 1 (HIV-1) env sequence after vertical transmission in mother-child pairs infected with HIV-1 subtype A.

31 March 2020

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Late escape from an immunodominant cytotoxic T-lymphocyte response associated with progression to AIDS

31 March 2020

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Evidence of HIV-1 adaptation to HLA-restricted immune responses at a population level

31 March 2020

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Evolution and transmission of stable CTL escape mutations in HIV infection

31 March 2020

1 reference

Human immunodeficiency virus type 1 recombination: rate, fidelity, and putative hot spots

31 March 2020

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Recombination: Multiply infected spleen cells in HIV patients

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A patient with HIV-1 superinfection

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Clade B HIV-1 superinfection with wild-type virus after primary infection with drug-resistant clade B virus

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Recombination in HIV-1

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Analysis of partial pol and env sequences indicates a high prevalence of HIV type 1 recombinant strains circulating in Gabon.

31 March 2020

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The effect of recombination on the accuracy of phylogeny estimation.

31 March 2020

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Intraspecific gene genealogies: trees grafting into networks

31 March 2020

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Network analysis of human and simian immunodeficiency virus sequence sets reveals massive recombination resulting in shorter pathways

31 March 2020

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Selection for human immunodeficiency virus type 1 recombinants in a patient with rapid progression to AIDS.

31 March 2020

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Genetic recombination and its role in the development of the HIV-1 pandemic

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Down or out in blood and lymph?

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Decay characteristics of HIV-1-infected compartments during combination therapy

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Transmission of multidrug-resistant human immunodeficiency virus--the wake-up call

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Identification of a reservoir for HIV-1 in patients on highly active antiretroviral therapy

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Macrophage are the principal reservoir and sustain high virus loads in rhesus macaques after the depletion of CD4+ T cells by a highly pathogenic simian immunodeficiency virus/HIV type 1 chimera (SHIV): Implications for HIV-1 infections of humans

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The central nervous system as a reservoir for simian immunodeficiency virus (SIV): steady-state levels of SIV DNA in brain from acute through asymptomatic infection

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Ordered accumulation of mutations in HIV protease confers resistance to ritonavir

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Recovery of replication-competent HIV despite prolonged suppression of plasma viremia

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Re-emergence of HIV after stopping therapy

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Antiretroviral resistance during successful therapy of HIV type 1 infection.

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Production of resistant HIV mutants during antiretroviral therapy

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Infectivity and replication capacity of drug-resistant human immunodeficiency virus type 1 variants isolated during primary infection

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Safety and immunogenicity of combinations of recombinant subtype E and B human immunodeficiency virus type 1 envelope glycoprotein 120 vaccines in healthy Thai adults.

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Reduced replication of 3TC-resistant HIV-1 variants in primary cells due to a processivity defect of the reverse transcriptase enzyme.

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Human neutralizing monoclonal antibodies of the IgG1 subtype protect against mucosal simian-human immunodeficiency virus infection

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Declining CD4 T-cell counts in a person infected with nef-deleted HIV-1

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Diversity considerations in HIV-1 vaccine selection

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Consensus and Ancestral State HIV Vaccines

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Isolation of a T-Lymphotropic Retrovirus from a Patient at Risk for Acquired Immune Deficiency Syndrome (AIDS)

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Epidemiology: Sexual transmission of HIV in Africa

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Inference of viral evolutionary rates from molecular sequences

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Simian immunodeficiency virus (SIV) from sun-tailed monkeys (Cercopithecus solatus): evidence for host-dependent evolution of SIV within the C. lhoesti superspecies.

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inferred from DOI database lookup

7 January 2021

based on heuristic

Human immunodeficiency virus type 1 intergroup (M/O) recombination in cameroon.

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inferred from DOI database lookup

7 January 2021

based on heuristic

Quantifying the uncertainty in forecasts of anthropogenic climate change

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27 September 2022

https://opencitations.net/index/coci/api/v1/citations/10.1038/35036559

Identifiers

DOI

10.1038/NRG1246

1 reference

Consolidated OpenCitations Corpus – April 2017

28880

1021056482

0 references

28880

1 reference

Consolidated OpenCitations Corpus – April 2017

Consolidated OpenCitations Corpus – April 2017

1 reference