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Identification of conserved lentiviral sequences as landmarks of genomic flexibility.

Authors
  • Moncany, Maurice L J1
  • Dalet, Karine
  • Courtois, Pascal R R
  • 1 Laboratoire de biologie cellulaire et moléculaire, UFR de sciences, Université de La Rochelle, av. Michel-Crépeau, 17042 La Rochelle cedex 1, France. [email protected] , (France)
Type
Published Article
Journal
Comptes Rendus Biologies
Publisher
Elsevier
Publication Date
Oct 01, 2006
Volume
329
Issue
10
Pages
751–764
Identifiers
PMID: 17027636
Source
Medline
Language
English
License
Unknown

Abstract

Considering that recombinations produce quasispecies in lentivirus spreading, we identified and localized highly conserved sequences that may play an important role in viral ontology. Comparison of entire genomes, including 237 human, simian and non-primate mammal lentiviruses and 103 negative control viruses, led to identify 28 Conserved Lentiviral Sequences (CLSs). They were located mainly in the structural genes forming hot spots particularly in the gag and pol genes and to a lesser extent in LTRs and regulatory genes. The CLS pattern was the same throughout the different HIV-1 subtypes, except for some HIV-1-O strains. Only CLS 3 and 4 were detected in both negative control HTLV-1 oncornaviruses and D-particle-forming simian viruses, which are not immunodeficiency inducers and display a genetic stability. CLSs divided the virus genomes into domains allowing us to distinguish sequence families leading to the notion of 'species self' besides that of 'lentiviral self'. Most of acutely localized CLSs in HIV-1s (82%) corresponded to wide recombination segments being currently reported.

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