Subtype-specific sequence variation of the HIV type 1 long terminal repeat and primer-binding site

M. P. de Baar; A. de Ronde; B. Berkhout; M. Cornelissen; K. H. van der Horn; A. M. van der Schoot; F. de Wolf; V. V. Lukashov; J. Goudsmit

doi:https://doi.org/10.1089/088922200309160

Subtype-specific sequence variation of the HIV type 1 long terminal repeat and primer-binding site

M. P. de Baar, A. de Ronde, B. Berkhout, M. Cornelissen, K. H. van der Horn, A. M. van der Schoot, F. de Wolf, V. V. Lukashov, J. Goudsmit

Other Departments

Research output: Contribution to journal › Article › Academic › peer-review

41 Citations (Scopus)

Abstract

We studied sequence differences in regulatory elements of the long terminal repeat (LTR) and primer-binding site (PBS) among various human immunodeficiency virus type 1 (HIV-1) subtypes. Phylogenetic sequence analysis of a fragment of 729 base pairs (bp) covering the Gag-coding region for half of p24 and all of p17 revealed the gag subtype of all 60 viruses included in the study: A (n = 20), B (n = 12), C (n = 7), D (n = 10), E (n = 3), F (n = 4), G (n = 3), and H (n = 1). The subtype was also determined by analysis of a 689-bp fragment comprising the LTR and the PBS motif. Comparison of the LTR versus gag sequences showed a mosaic genome for seven isolates. After analysis of all sequences, we could describe subtype-specific differences in sequences encompassing the regulatory elements of the LTR and the PBS motif

Original language	English
Pages (from-to)	499-504
Journal	AIDS Research and Human Retroviruses
Volume	16
Issue number	5
DOIs	https://doi.org/10.1089/088922200309160
Publication status	Published - 2000

Access to Document

https://doi.org/10.1089/088922200309160

Cite this

@article{da5333f6e2914314839e39021852ff73,

title = "Subtype-specific sequence variation of the HIV type 1 long terminal repeat and primer-binding site",

abstract = "We studied sequence differences in regulatory elements of the long terminal repeat (LTR) and primer-binding site (PBS) among various human immunodeficiency virus type 1 (HIV-1) subtypes. Phylogenetic sequence analysis of a fragment of 729 base pairs (bp) covering the Gag-coding region for half of p24 and all of p17 revealed the gag subtype of all 60 viruses included in the study: A (n = 20), B (n = 12), C (n = 7), D (n = 10), E (n = 3), F (n = 4), G (n = 3), and H (n = 1). The subtype was also determined by analysis of a 689-bp fragment comprising the LTR and the PBS motif. Comparison of the LTR versus gag sequences showed a mosaic genome for seven isolates. After analysis of all sequences, we could describe subtype-specific differences in sequences encompassing the regulatory elements of the LTR and the PBS motif",

author = "{de Baar}, {M. P.} and {de Ronde}, A. and B. Berkhout and M. Cornelissen and {van der Horn}, {K. H.} and {van der Schoot}, {A. M.} and {de Wolf}, F. and Lukashov, {V. V.} and J. Goudsmit",

year = "2000",

doi = "https://doi.org/10.1089/088922200309160",

language = "English",

volume = "16",

pages = "499--504",

journal = "AIDS Research and Human Retroviruses",

issn = "0889-2229",

publisher = "Mary Ann Liebert Inc.",

number = "5",

}

TY - JOUR

T1 - Subtype-specific sequence variation of the HIV type 1 long terminal repeat and primer-binding site

AU - de Baar, M. P.

AU - de Ronde, A.

AU - Berkhout, B.

AU - Cornelissen, M.

AU - van der Horn, K. H.

AU - van der Schoot, A. M.

AU - de Wolf, F.

AU - Lukashov, V. V.

AU - Goudsmit, J.

PY - 2000

Y1 - 2000

N2 - We studied sequence differences in regulatory elements of the long terminal repeat (LTR) and primer-binding site (PBS) among various human immunodeficiency virus type 1 (HIV-1) subtypes. Phylogenetic sequence analysis of a fragment of 729 base pairs (bp) covering the Gag-coding region for half of p24 and all of p17 revealed the gag subtype of all 60 viruses included in the study: A (n = 20), B (n = 12), C (n = 7), D (n = 10), E (n = 3), F (n = 4), G (n = 3), and H (n = 1). The subtype was also determined by analysis of a 689-bp fragment comprising the LTR and the PBS motif. Comparison of the LTR versus gag sequences showed a mosaic genome for seven isolates. After analysis of all sequences, we could describe subtype-specific differences in sequences encompassing the regulatory elements of the LTR and the PBS motif

AB - We studied sequence differences in regulatory elements of the long terminal repeat (LTR) and primer-binding site (PBS) among various human immunodeficiency virus type 1 (HIV-1) subtypes. Phylogenetic sequence analysis of a fragment of 729 base pairs (bp) covering the Gag-coding region for half of p24 and all of p17 revealed the gag subtype of all 60 viruses included in the study: A (n = 20), B (n = 12), C (n = 7), D (n = 10), E (n = 3), F (n = 4), G (n = 3), and H (n = 1). The subtype was also determined by analysis of a 689-bp fragment comprising the LTR and the PBS motif. Comparison of the LTR versus gag sequences showed a mosaic genome for seven isolates. After analysis of all sequences, we could describe subtype-specific differences in sequences encompassing the regulatory elements of the LTR and the PBS motif

U2 - https://doi.org/10.1089/088922200309160

DO - https://doi.org/10.1089/088922200309160

M3 - Article

C2 - 10772536

SN - 0889-2229

VL - 16

SP - 499

EP - 504

JO - AIDS Research and Human Retroviruses

JF - AIDS Research and Human Retroviruses

IS - 5

ER -