Thiam M. auteur aut IRD Diop-Ndiaye H. auteur aut IRD Kebe K. auteur aut IRD Vidal Nicole auteur aut IRD Diakhate-Lo R. auteur aut IRD Diouara A. M. auteur aut IRD Leye N. auteur aut IRD Ndiaye O. auteur aut IRD Sow A. auteur aut IRD Ngom-Gueye N. F. auteur aut IRD Mboup S. auteur aut IRD Toure-Kane C. auteur aut IRD text journalArticle eng text/pdf born digital access The objective of this study was to investigate the performance of the ViroSeq HIV-1 Genotyping System v2.0 on HIV-1 non-B strains identified in Senegalese patients. The study involved 150 patients, and genotyping was performed using the ViroSeq HIV-1 Genotyping System v2.0 or an in-house method developed by the French National Agency on AIDS Research AC11 when the ViroSeq HIV-1 Genotyping System v2.0 failed. The sequences were edited to assess the performance of sequencing primers at their presumed binding regions. The Polymorphism was studied in the regions between the sequences of Senegalese patients and the subtype B strains used as references. The phylogenetic analysis showed a predominance of CRFO2_AG (88/150; 58.7%) and the circulation of 11 subtypes/CRFs, 16 unique recombinant forms (URFs) and one unclassified sample. The amplification and sequencing rates were 98% (147/150) and 96.6% (142/147), respectively. This study showed that only primer B exhibited 100% success, while the failure rate ranged from 1.4% to 71.4% for the other primers (D: 71.4%, A and H: 12.2%, F: 7.5%, G: 5.5% and C: 1.4%). These findings suggest the need for an alternative method or alternative primers for non-B strains that were not sequenced successfully using the ViroSeq HIV-1 Genotyping System v2.0. specialized ViroSeq HIV-1 Genotyping System v2.0 Performance Sequencing primers Senegal SENEGAL 052 020 084 188 1-2 97-103 2013 0166-0934 https://www.documentation.ird.fr/hor/fdi:010060786 10.1016/j.jviromet.2012.11.044 0166-0934 [F B010060786] https://www.documentation.ird.fr/hor/fdi:010060786 https://www.documentation.ird.fr/intranet/publi/2013/05/010060786.pdf Accès réservé (Intranet de l'IRD) IRD - Base Horizon / Pleins textes 2013-05-31 2017-08-23 fdi:010060786 fre