Guidelines For Basic Science
Copyright ©2012 Baishideng.
World J Virol. Jun 12, 2012; 1(3): 79-90
Published online Jun 12, 2012. doi: 10.5501/wjv.v1.i3.79
Table 1 Selection of short hairpin RNAs against human immunodeficiency virus type 1
shRNA nameHIV-1 target
HIV-1 inhibition
Target conservation (%)5
Viral escape6Lentiviral vector
Cell toxicity9
Drug resistance mutation10
Position1GeneTransient3Stable4Subtype BAll subtypesVector targeting7Titer reduction8In vitroIn vivo
LDR2327Leader95++6661ND+NDNDND-
LDR33282Leader94++6861ND+NDNDND-
LDR43292Leader99+++6861ND+NDNDND-
LDR53302Leader94++6861ND+NDNDND-
LDR73322Leader84-6961ND+NDNDND-
LDR83332Leader79++6961ND+NDNDND-
LDR93342Leader91+++7063ND+NDNDND-
CA1032CA-p2497-8767ND---ND-
Gag51365CA-p2486++8180+-+++-
Pol11119102Prot119711+++1189118511+11-11-11-11-11D30N, V32I11
Pol219112Prot86-8985ND-NDNDNDD30N, V32I
Pro 119122Prot99+++8581ND---NDD30N, V32I
Pro 219132Prot99ND8079ND-NDNDNDD30N, V32I
Pro 319142Prot99ND8079ND-NDNDNDD30N, V32I
Pro 419152Prot98ND7776ND-NDNDNDD30N, V32I, L33F
Pro 519162Prot97ND7978ND-NDNDNDD30N, V32I, L33F
Pro 619182Prot98ND7877ND-NDNDNDD30N, V32I, L33F
Pro 719192Prot98ND7776ND-NDNDNDD30N, V32I, L33F
Pro 82026RT87ND5817ND-NDNDNDD30N, V32I, L33F
Pol637552RT97-7275ND-NDNDND-
RT 1 (A)37572RT95++7174ND---ND-
RT 2 (B)37582RT98++7375ND--+ND-
RT 3 (C)37592RT95++7375ND---ND-
RT 4 (F)37602RT85++6969ND-NDNDND-
RT 5 (G)37622RT94-7272ND---ND-
Int 14310Int91ND7119ND-NDNDND-
Int 24344Int96+++6725ND++-ND-
Pol294393Int82-8080ND+NDNDND-
Int 344202Int95+++6861ND+++ND-
Int 444222Int99ND7164ND+NDNDND-
Int 54491Int81ND7033ND-NDNDND-
Pol4545432Int92++9175ND-NDNDND-
Pol471145452Int119211+++1191117311+11-11-11-11-11-11
Vif4646Int/Vif96-8231ND---ND-
R/T5115551Rev/Tat119311+++1187117311+11-11-11-11-11-11
Env 17250gp12081ND8376ND+NDNDND-
Env 278752gp4183ND4933ND-NDNDND-
Env 378812gp4189ND196ND+NDNDND-
Env 478842gp4185ND216ND+NDNDND-
Env 58026gp4196+++5314ND+++ND-
Env 682772gp4198++5318ND--+ND-
Env 782782gp4198++5618ND---ND-
Env 88359gp4197+++31ND---ND-
LTR90723’LTR95++531ND---ND-
1Position in human immunodeficiency virus type 1 (HIV-1) LAI mRNA;
2Overlapping short hairpin RNA (shRNA) clusters;
3Percentage of inhibition of HIV-1 production in co-transfected cells;
4Inhibition of HIV-1 replication in stably transduced cells: +++ = strong, ++ = medium, + = low, - = no inhibition;
5Percentage of sequences in Los Alamos database identical to shRNA target sequence;
6Detection of escape mutations after prolonged culturing;
7100% complementarity of the shRNA to JS1 lentiviral vector;
8Titers compared to JS1 lentiviral vector; + = reduction > 1 log, - = reduction < 1 log;
9Effects on cell growth; + = negative effect, - = no effect;
10Drug resistance mutations in the shRNA target region;
11Selected for the combinatorial gene therapy. ND: Not determined.