Characterization of near full-length genomes of HIV type 1 strains in Denmark: basis for a universal therapeutic vaccine.

Betina S Andresen; Lasse Vinner; Sheila Tang; Karoline Bragstad; Gitte Kronborg; Jan Gerstoft; Sylvie Corbet; Anders Fomsgaard

doi:http://dx.doi.org/10.1089/aid.2007.0111

Characterization of near full-length genomes of HIV type 1 strains in Denmark: basis for a universal therapeutic vaccine.

Betina S Andresen, Lasse Vinner, Sheila Tang, Karoline Bragstad, Gitte Kronborg, Jan Gerstoft, Sylvie Corbet, Anders Fomsgaard

Institut for Klinisk Medicin

8 Citationer (Scopus)

Abstract

We report here the near full-length sequence characterization of 17 Danish clinical HIV-1 strains isolated from HLA-A02 patients not in need of ART, with relatively low viral loads and normal CD4 cell counts. Sequencing was performed directly on DNA extracted from short-term cocultures of PBMCs. The near full-length genomes did not contain any major insertions, deletions, or rearrangements. Sixteen of the isolates were characterized as nonrecombinant subtype B and one isolate as nonrecombinant subtype C. Phylogenetic analysis did not reveal any founder effect among the sequences. Also, we investigated the presence of infrequently targeted subdominant HLA-A02-binding CTL epitopes. The epitopes were conserved in the Danish strains as well as globally in reference sequences of all subtypes. Thus, the selected epitopes were not subtype-specific or region-specific. This lends support for the concept of a universal immunotherapeutic vaccine construct based on these epitopes.
Udgivelsesdato: 2007-Nov

Originalsprog	Engelsk
Tidsskrift	AIDS Research and Human Retroviruses
Vol/bind	23
Udgave nummer	11
Sider (fra-til)	1442-8
Antal sider	6
ISSN	0889-2229
DOI	https://doi.org/10.1089/aid.2007.0111
Status	Udgivet - 2007

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abstract = "directly on DNA extracted from short-term cocultures of PBMCs. The near full-length genomes did not contain any major insertions, deletions, or rearrangements. Sixteen of the isolates were characterized as nonrecombinant subtype B and one isolate as nonrecombinant subtype C. Phylogenetic analysis did not reveal any founder effect among the sequences. Also, we investigated the presence of infrequently targeted subdominant HLA-A02-binding CTL epitopes. The epitopes were conserved in the Danish strains as well as globally in reference sequences of all subtypes. Thus, the selected epitopes were not subtype-specific or region-specific. This lends support for the concept of a universal immunotherapeutic vaccine construct based on these epitopes",

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T1 - Characterization of near full-length genomes of HIV type 1 strains in Denmark: basis for a universal therapeutic vaccine.

AU - Andresen, Betina S

AU - Vinner, Lasse

AU - Tang, Sheila

AU - Bragstad, Karoline

AU - Kronborg, Gitte

AU - Gerstoft, Jan

AU - Corbet, Sylvie

AU - Fomsgaard, Anders

PY - 2007

Y1 - 2007

N2 - directly on DNA extracted from short-term cocultures of PBMCs. The near full-length genomes did not contain any major insertions, deletions, or rearrangements. Sixteen of the isolates were characterized as nonrecombinant subtype B and one isolate as nonrecombinant subtype C. Phylogenetic analysis did not reveal any founder effect among the sequences. Also, we investigated the presence of infrequently targeted subdominant HLA-A02-binding CTL epitopes. The epitopes were conserved in the Danish strains as well as globally in reference sequences of all subtypes. Thus, the selected epitopes were not subtype-specific or region-specific. This lends support for the concept of a universal immunotherapeutic vaccine construct based on these epitopes

AB - directly on DNA extracted from short-term cocultures of PBMCs. The near full-length genomes did not contain any major insertions, deletions, or rearrangements. Sixteen of the isolates were characterized as nonrecombinant subtype B and one isolate as nonrecombinant subtype C. Phylogenetic analysis did not reveal any founder effect among the sequences. Also, we investigated the presence of infrequently targeted subdominant HLA-A02-binding CTL epitopes. The epitopes were conserved in the Danish strains as well as globally in reference sequences of all subtypes. Thus, the selected epitopes were not subtype-specific or region-specific. This lends support for the concept of a universal immunotherapeutic vaccine construct based on these epitopes

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DO - http://dx.doi.org/10.1089/aid.2007.0111

M3 - Journal article

SN - 0889-2229

VL - 23

SP - 1442

EP - 1448

JO - AIDS Research and Human Retroviruses

JF - AIDS Research and Human Retroviruses

IS - 11

ER -

Characterization of near full-length genomes of HIV type 1 strains in Denmark: basis for a universal therapeutic vaccine.

Abstract

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