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. Author manuscript; available in PMC: 2011 Oct 1.
Published in final edited form as: J Virol Methods. 2010 Jun 25;169(1):39–46. doi: 10.1016/j.jviromet.2010.06.012

TABLE 1.

Assay determination of viral tropism among isolates with known coreceptor usage

Test samples env subtypea tropisma no. replicates no. fulfilled criterion 1b no. fulfilled criterion 2c log dec assay result
Reference virusesd
JR-CSF B R5 1 1 0 R5
YU2 B R5 1 0 NA R5
Q23 A R5 2 2 0 R5
MJ4 C R5 24 2 0 R5
NL43 B X4 23 23 23 2.48 X4
HXB2 B X4 6 6 6 2.07 X4
LAI B X4 3 2 2 3.06 X4
SF2 B DM 3 3 3 0.65 DM
89.6 B DM 2 2 2 3.10 DM
Patient isolatese
96BWMO1.5 C R5 2 2 0 R5
96BWMO3.2 C R5 2 2 0 R5
96BW.0502 C R5 3 1 1 1.21 R5/DM
96BW.1210 C R5 2 2 0 R5
96BW17A09 C DM 2 2 2 3.27 DM
RM-08 B R5 2 0 NA R5
JC-06 B R5 2 0 NA R5
DK B X4 2 2 2 2.55 X4
14aPre B X4 1 1 1 0.30 X4
Subject 1 B DM 1 1 1 1.56 DM
Subject 4 B DM 4 3 3 1.32 DM
Subject 8 B DM 2 2 2 0.86 DM
Subject 9 B R5 3 0 NA R5
Subject 12 B R5 4 1 0 R5
Subject 13 B R5 4 1 0 R5
Subject 17 B R5 3 1 0 R5
Subject 19 B R5 4 1 0 R5
Subject 21 B R5 4 4 0 R5
a

Env subtype and tropism assignment based on published results from ARRRP and (Hosoya et al. 2009; Johnson et al. 1991; Ndung'u et al. 2006; Rusconi et al. 1999; Tremblay et al. 2005; Tremblay et al. 2003).

b

A one-sided t-test determines if infection in U87-CXCR4 cells is above background, using a nominal level of significance of p<0.05

c

A one-sided t-test determines if there is sufficient suppression of infection in the presence of AMD3100 with a log fold-change in the presence of the inhibitor is >0.3 log10 (approximately 50% reduction in RLU).

d

All of the reference viruses can be obtained from the AIDS Research Reagent and Reference Program (ARRRP), Rockville, MD.

e

Subtype C isolates were from Botswana (Ndung'u et al. 2006), 4 subtype B viruses (RM-08, JC-06, DK and 14aPre) were previously isolated from individuals with acute HIV infection (Johnson et al. 1991; Rusconi et al. 1999; Tremblay et al. 2005; Tremblay et al. 2003), and Subject 1–21 were isolates from ACTG study A5211 (Gulick et al. 2007; Hosoya et al. 2009) with tropism previously determined by the Trofile assay.