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. 2017 Aug 23;55(9):2785–2800. doi: 10.1128/JCM.00634-17

TABLE 4.

Longitudinal drug resistance mutation analysis using next-generation sequencing, Sanger sequencing, and ARMS-PCRa

Subject ID Time point Sample date (mo/day/yr) K103N result(s) Y181C result(s) K65R result(s) M184V result(s) T215F/Y result(s)
MDC008 1 2/8/2011 0 0 0 0 0
MDC008 2 8/11/2011 0 0 0 0 0
MDC008 3 2/4/2012 0 0 0 0 0
MDC044 1 4/26/2011 0 0 0 0 0
MDC044 3 6/19/2012 0 0 0 0 0
MDC044 7 1/12/2015 0 0 0 0 0
MDC058 1 4/26/2011 0 1 (99.4) 0 1 (100) 1 (96.2)
MDC058 3 10/13/2014 0 0 0 0 0
MDC068 1 4/26/2011 0 0 0 0 0
MDC068 3 6/19/2012 0 0 0 0 0
MDC068 4 5/12/2014 0 0 0 0 0
MDC086 1 5/31/2011 0 0 0 0 0
MDC086 3 10/16/2012 0 0 0 0 0
MDC086 4 2/17/2014 0 0 0 0 0
MDC091 1 5/31/2011 1 (100), 1S, 1A 0 0 1 (100), 1S, 1A 1 (7), 0S, 0A
MDC091 2 11/8/2011 1 (100), 1S, 1A 0 0 1 (100), 1S, 1A 0, 0S, 0A
MDC093 1 5/31/2011 0 0 (1.6) 0 0 0
MDC093 3 7/31/2012 0 0 0 0 0
MDC093 5 2/17/2014 0 0 0 0 0
MDC098 1 5/31/2011 0 0, 0S, 0A 0 0 0
MDC098 3 6/19/2012 0 0 0 0 0
MDC098 5 11/17/2014 0 1 (89.5), 1S, 1A 0 0 0
MDC100 1 5/31/2011 0 0 0 0 0
MDC100 3 6/19/2012 0 0 0 0 0
MDC100 5 11/17/2014 0 0 0 0 0
MDC128 1 6/28/2011 0 0 0 0 0
MDC128 3 6/19/2012 0 0 0 0 0
MDC128 6 10/13/2014 0 0 0 0 0
MDC131 1 6/28/2011 0 0 0 0 0
MDC131 3 6/19/2012 0 0 0 0 0
MDC131 6 8/25/2014 0 0 0 0 0
MDC146 1 6/28/2011 0 0 0 0 0
MDC146 3 7/31/2012 0 0 0 0 0
MDC146 6 4/13/2015 0 0 0 0 0
MDC166 1 8/9/2011 1 (100) 0 0 0 0
MDC166 3 10/16/2012 1 (100) 0 0 1 (100) 0
MDC179 1 8/9/2011 0 0 0 0 0
MDC179 3 6/19/2012 0 0 0 0 0
MDC179 5 10/8/2013 0 0 0 0 0
MDC189 1 8/9/2011 0 0 0 0 0
MDC189 2 2/14/2012 0 0 0 0 0
MDC189 3 4/14/2014 0 0 0 0 0
MDC192 1 8/9/2011 0 0 0 0 0
MDC192 2 2/14/2012 0 0 0 0 0
MDC192 3 6/18/2013 0 0 0 0 0
MDC194 1 8/9/2011 0 0 0 0 0
MDC194 2 6/18/2013 0 0 0 0 0
MDC195 1 8/9/2011 0 0 0 0 0
MDC195 2 2/14/2012 0 0 0 0 0
MDC203 1 8/9/2011 0 0 0 0 0
MDC203 2 3/26/2013 0 0 0 0 0
MDC220 1 10/4/2011 0 0 0 0 0
MDC220 3 10/16/2012 0 0 0 0 0
MDC220 4 10/8/2013 0 0 0 0 0
MDC246 1 7/31/2012 1 (100), 1S, 1A 0 0 0 0
MDC246 2 10/16/2012 0, 0S, 0A 0 0 0 0
MDC246 6 4/13/2015 1 (18), 0S, 0A 0 0 0 0
a

All study subjects with multiple time points were analyzed for changes in drug resistance mutations using NGS. The study subjects MDC058, MDC091, MDC098, MDC166, and MDC246 showed an HIV drug resistance mutation change in the longitudinal analysis (highlighted in gray). “0” indicates the absence of the respective drug resistance mutation, and “1” indicates the presence of the respective drug resistance mutation, with a threshold of 5% positive calls of total sequences. The numbers in parentheses indicate the percentages of NGS quasispecies harboring the respective mutation. Three study subjects with longitudinal changes in DRM were also longitudinally screened with Sanger sequencing (S) and ARMS-PCR (A).