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C i.p. , C p.p. , and infectivity of HIV-1 virions as a function of harvest time post transfection. Filled circles are for virions produced using 1.0 mg pNL4-3E 2 plasmid and 0.2 mg pcDNA3.1REC. Open circles are for Gag particles produced using 1.0 mg pNL4-3E 2 plasmid only. The dashed line is (C) is fit of the time course to a sum of two-exponential kinetics. Error bars are standard deviations from three independent replicates of the same experiments. doi:10.1371/journal.pone.0067170.g004

C i.p. , C p.p. , and infectivity of HIV-1 virions as a function of harvest time post transfection. Filled circles are for virions produced using 1.0 mg pNL4-3E 2 plasmid and 0.2 mg pcDNA3.1REC. Open circles are for Gag particles produced using 1.0 mg pNL4-3E 2 plasmid only. The dashed line is (C) is fit of the time course to a sum of two-exponential kinetics. Error bars are standard deviations from three independent replicates of the same experiments. doi:10.1371/journal.pone.0067170.g004

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The infectivity of retroviruses such as HIV-1 in plasma or cultured media is less than 0.1% in general, the mechanisms of which are not yet fully understood. One possible explanation among others is the potential presence of large numbers of defective virions in a virus pool, which limits the apparent infectivity of HIV virions. To test this hypoth...

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... provirus together with an envelope plasmid pcDNA3.1REC encoding NL4-3 envelope and collected HIV-1 virions at different times post transfection. For each collection, we determined C i.p. by blue-cell counting and measured C p.p. by p24 ELISA. The infectivity of virions was then calculated as the ratio between these two concentrations. As shown in Fig. 4A, infectious particles can be detected as early as six hours post transfection (filled circles), reaching a peak value around 24 hours and the C i.p. starts to drop off slowly afterwards. In contrast, the concentration of physical particles C p.p. continues to increase until 48 hours and then drops off (Fig. 4B). As a result, the ...
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... these two concentrations. As shown in Fig. 4A, infectious particles can be detected as early as six hours post transfection (filled circles), reaching a peak value around 24 hours and the C i.p. starts to drop off slowly afterwards. In contrast, the concentration of physical particles C p.p. continues to increase until 48 hours and then drops off (Fig. 4B). As a result, the infectivity of virions collected at different times shows a pronounced dependence on harvest time, reaching a maximum at 18 hours and dropping off thereafter (Fig. 4C). The difference in infectivity can be as large as fivefold for virions collected at different time points post transfection. This time dependence has ...
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... C i.p. starts to drop off slowly afterwards. In contrast, the concentration of physical particles C p.p. continues to increase until 48 hours and then drops off (Fig. 4B). As a result, the infectivity of virions collected at different times shows a pronounced dependence on harvest time, reaching a maximum at 18 hours and dropping off thereafter (Fig. 4C). The difference in infectivity can be as large as fivefold for virions collected at different time points post transfection. This time dependence has interesting implications for the production of HIV-1 virions by 293T cells; either the virions produced at early times lose infectivity with time, or more defective virions are produced ...
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... infectivity decay of HIV-1 virions has been reported previously [1], which is attributable to loss of reverse transcriptase activity, biophysical instability of virion particles and possibly gp120 shedding, although the shedding of gp120 was later shown to be insignificant for NL4-3 virus [47]. The decay of HIV-1 virion infectivity in Fig. 4C has a half life of 6.6 hours or greater as determined by fitting the infectivity time course to a two- exponential kinetic model (dashed line). To examine the cause of this infectivity decay, we measured the apparent rate of virion inactivation. These experiments were done by incubating the harvested HIV virions at 37uC in either ...
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... decreases in C p.p. led to an overall increase in infectivity for all of the different virions we have produced. This phenomenon indicates that media change post transfection may remove potential sources of defective virions. Where do these defective virions come from? At six hours post transfection, the level of Gag production is still very low (Fig. 4). The observed decrease in C p.p. due to media change is more than the amount of C p.p. produced at six hours post transfection, suggesting that these defective virions are actually produced more than six hours after transfection. Gag particles that do not carry any envelope proteins may be one potential source of defective virions, ...
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... different mechanisms under current conditions. First, even though the two plasmids were transfected simultaneously during the production of single-cycle virions, some cells may receive only the mutant provirus instead of the two plasmids. We initially produced virions using 1 mg mutant provirus DNA (14.8 kb) and 0.2 mg envelope plasmid (8.6 kb) (Fig. 4). This amount of envelope plasmid was established during our initial optimization for virions collected 48 hours post transfection. Under these conditions, mutant provirus DNA is in , threefold molar excess over the envelope plasmid, which may favor the uptake of mutant provirus only. To test this hypothesis, we transfected 293T cells ...
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... which may give rise to less infectious virions. To test whether uptake of the mutant provirus alone can generate Gag particles under our conditions, we transfected 293T cells with just the mutant provirus DNA and assayed the amount of Gag proteins secreted into culture media using p24 ELISA. The time course of Gag particle production is shown in Fig. 4B as open circles, which displays a time dependent increase that is very similar to the time course of virion production. Infection assays using TZM-bl cells revealed negligible numbers of blue cells (open circles in Fig. 4A) and the resulting infectivity for these particles was five orders of magnitude lower than enveloped virions (Fig. ...
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... amount of Gag proteins secreted into culture media using p24 ELISA. The time course of Gag particle production is shown in Fig. 4B as open circles, which displays a time dependent increase that is very similar to the time course of virion production. Infection assays using TZM-bl cells revealed negligible numbers of blue cells (open circles in Fig. 4A) and the resulting infectivity for these particles was five orders of magnitude lower than enveloped virions (Fig. 4C). Taken together, the above results suggest that there is a mechanism for production of defective particles during the production of single-cycle virions. Cells that receive the mutant provirus only will generate Gag ...
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... shown in Fig. 4B as open circles, which displays a time dependent increase that is very similar to the time course of virion production. Infection assays using TZM-bl cells revealed negligible numbers of blue cells (open circles in Fig. 4A) and the resulting infectivity for these particles was five orders of magnitude lower than enveloped virions (Fig. 4C). Taken together, the above results suggest that there is a mechanism for production of defective particles during the production of single-cycle virions. Cells that receive the mutant provirus only will generate Gag particles without envelope glycoproteins, which reduce the overall infectivity of HIV-1 virions. Media change after ...
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... (Fig. 10C), suggesting that more envelope incorporation into Gag particles increases virion infectivity. Among these observations, we also notice that the infectivity of virions collected 18 hours post transfection with 0.2 mg envelope plasmid is slightly lower than that from 48 hours, which is not readily consistent with our early findings in Fig. 4, where early harvest time favors higher infectivity. This lower infectivity at 18 hours was possibly due to the inclusion of excess vector DNA under this condition, where 3.8 mg vector DNA was included together with 0.2 mg envelope plasmid. This result was confirmed in a side-by-side comparison, where 0.2 mg envelope plasmid was ...
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... These results can be explained by a combination of three different mechanisms: virion spontaneous inactivation, simultaneous production of defective or less infectious particles, and incorporation of envelope glycoprotein into Gag particles. An early harvest time generates virions of higher infectivity. This effect can be as large as fivefold (Fig. 4C). One mechanism behind this phenomenon is the decay of virion infectivity over time as a result of biophysical instability (Fig. 5), which competes with the production of infectious virions. Virions harvested at later times post transfection contain more defective virions, which results in an apparent lower infectivity. However, this is ...
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... particles are also produced by the cells together with infectious virions, which lowers the infectivity of a virus pool. When 293T cells are transfected with a mixture of mutant provirus and envelope plasmids, cells that carry the mutant provirus only will produce defective particles, the concentration of which increases with incubation time (Fig. 4B). Cells that carry both plasmids but have low envelope plasmid will produce less infectious particles (Fig. 10A). The presence of these defective or less infectious particles in a virus pool decreases the overall infectivity. More envelope DNA during transfection favors cells that carry both plasmids, and the increased expression of ...

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... The transfection reagent mixture was incubated at room temperature for 15 min before dropwise addition to the culture media, as we did previously. 40 At 6 h post transfection, the culture media together with the transfection reagents was replaced with fresh complete media, and the incubation was continued at 37°C with 5% CO 2 . At 48 h post transfection, the entire culture media containing single-cycle HIV-1 viruses was collected and filtered through a 0.45 μm syringe filter (Millex-HV poly-(vinylidene difluoride) (PVDF), Millipore). ...
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