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Transfection of 293 producer cells with expression plasmids encoding the Ebola virus nucleocapsid proteins NP, VP35, VP30, and L, a tetracistronic minigenome and the accessory T7 polymerase results in minigenome replication and transcription and reporter activity that is readily detectable at 72 hr (Figure 6). Importantly, the observed reporter activity (105.6 relative luminescence units (RLU)) exceeds that of a negative control in which the expression plasmid encoding L was omitted from the transfection (103 RLU) by more than 2 logs. The low level of activity observed even in absence of L is most likely due to a cryptic promoter in the minigenome plasmid. Target cells infected with trVLPs from the supernatant of producer cells actually show somewhat increased levels of reporter activity when compared to producer cells, and values reach between 106 and 107 RLUs, depending on the passage. In contrast, when the supernatant of –L control producer cells is passaged onto target cells (expressing all nucleocapsid protein, including L), reporter activity does not exceed the background noise of the luminometer (about 102 RLU).
The tetracistronic trVLP assay can be used to study the lifecycle of Ebola viruses. For example, infection of 293 cells with trVLPs is dependent on the presence of attachment factors such as Tim-1 16, which has to be provided in trans in these cells. Consequently, in a tetracistronic trVLP assay a drop in reporter activity in target cells of about 100-fold is observed in the absence of Tim-1 (Figure 7A). The role of specific (viral or cellular) proteins in the virus lifecycle can also be assessed using RNAi technology together with this approach. As an example, RNAi-mediated down-regulation of L results in a drop in reporter activity of about 100-fold, reflecting the central role of L in replication and transcription (Figure 7B)7. Further, it is possible to directly manipulate the minigenome to assess the effect of mutations on the virus lifecycle. As an example, when VP24-expression from the minigenome is abolished by introducing 3 stop codons immediately downstream of the start codon, reporter activity in producer cells is not dramatically changed; however, reporter activity in target cells is reduced by about 20-fold after one passage, and 400-fold after two passages, indicating a role of VP24 in the production of infectious trVLPs (Figure 7C)15.

Figure 1. Structure of the Ebola virus genome as well as monocistronic and tetracistronic minigenomes. Coding regions for the Ebola virus protein are shown as red (NP, VP35, VP30, and L), yellow (VP40 and VP24) or blue (GP1,2) boxes. Non-coding regions (NCRs) are shown in green, with the leader and trailer regions indicated. The subscript indicates which viral NCR was used for joining the coding regions. The coding region for the reporter (rep) is shown in purple.

Figure 2. Monocistronic minigenome assay. Cells are transfected with expression plasmids for the Ebola virus nucleocapsid proteins (NP, VP35, VP30, L), a monocistronic minigenome (mg) and the T7 polymerase. The minigenome is initially transcribed by the T7 polymerase (a) into a unencapsidated minigenome RNA in the same orientation as the viral genome (vRNA), which is then encapsidated by NP (b). This encapsidated vRNA is replicated via a complementary minigenome RNA (cRNA) intermediate (c), and then transcribed into reporter mRNAs (d) that are translated into reporter protein (e).

Figure 3. trVLP assay with a monocistronic minigenome. Cells are transfected with expression plasmids for the minigenome assay components (the Ebola virus nucleocapsid proteins NP, VP35, VP30, L, a monocistronic minigenome and the T7 polymerase) as well as VP40, GP1,2 and VP24. This leads to the formation of trVLPs that incorporate minigenome-containing nucleocapsids (f). These trVLPs can then infect target cells (g), which are either pretransfected with expression plasmids for NP, VP35, VP30, and L (top), resulting in replication and secondary transcription (d) leading to reporter expression (e), or naive target cells (bottom), resulting in primary transcription of the minigenomes (h), also leading to reporter expression (e).

Figure 4. trVLP assay with a tetracistronic minigenome. Cells are transfected with expression plasmids for the Ebola virus nucleocapsid proteins (NP, VP35, VP30, L), a tetracistronic minigenome (mg) and the T7 polymerase. Initial transcription (a), encapsidation (b), genome replication (c) and transcription (d) as well as translation (e) occur as in a monocistronic minigenome assay. However, in addition to reporter mRNA, mRNAs for VP40, GP1,2 and VP24 are also transcribed from the tetracistronic minigenome, resulting in the formation of trVLPs (f). These trVLPs infect target cells that have been pretransfected with expression plasmids for the nucleocapsid proteins NP, VP35, VP30 and L, as well as the cellular Ebola virus attachment factor Tim-1, resulting in genome replication and transcription, and production of trVLPs that can be used to infect fresh target cells.

Figure 5. Timing of a tetracistronic trVLP assay for 3 consecutive passages. The days for seeding cells (s), transfecting cells (t), infecting cells (i), medium change (c) and harvesting of cells and trVLPs (h) are indicated for three consecutive passages (indicated by arrows).

Figure 6. Typical levels of reporter activity observed in a tetracistronic trVLP assay. A tetracistronic trVLP assay was performed over 5 passages following the protocol outlined in this manuscript. As a negative control the expression plasmid encoding L was omitted (-L) from transfection of the p0 producer cells. Target cells in passages p1 to p5 were transfected with expression plasmids for all nucleocapsid proteins, including L. The background noise of the luminometer is indicated as a dashed line. Means and standard deviations of 4 biological replicates from 3 independent experiments are shown.

Figure 7. Assessing the impact of various viral and cellular factors on the viral lifecycle using tetracistronic trVLPs. (A) Tim-1 as an attachment factor. Target cells that were pretransfected with expression plasmids encoding for the nucleocapsid proteins and with or without a plasmid encoding for Tim-1 (described in 15) were infected with tetracistronic trVLPs. 72 hr post infection reporter activity in p1 target cells was determined. Means and standard deviations of 4 biological replicates from 4 independent experiments are shown. (B) Effect of RNAi knockdown of L on genome replication and transcription. Target cells that were pretransfected with expression plasmids for the nucleocapsid components, Tim-1 and miRNAs directed against L (anti-L) or an unrelated protein (anti-GFP) (described in 15) were infected with tetracistronic trVLPs. 72 hr post infection reporter activity in p1 target cells was determined. Means and standard deviations of 5 biological replicates from 2 independent experiments are shown. (C) Effect of mutations in the minigenome on trVLP infectivity. A tetracistronic trVLP assay was performed using either a wild-type minigenome (4cis-WT) or a minigenome in which 3 stop codons had been introduced immediately after the start codon of VP24, abolishing expressing of this protein but introducing only minimal changes to the minigenome in regards to length, nucleic acid composition, secondary structures etc. Reporter activity in p0, p1 and p2 was measured 72 hr after transfection / infection. Means and standard deviations of 3 biological replicates from 3 independent experiments are shown.
| Producer Cells (p0) | Target Cells (p1 and higher) |
| pCAGGS-NP | 125 | 125 |
| pCAGGS-VP35 | 125 | 125 |
| pCAGGS-VP30 | 75 | 75 |
| pCAGGS-L | 1,000 | 1,000 |
| p4cis-vRNA-RLuc | 250 | - |
| pCAGGS-T7 | 250 | - |
| pCAGGS-Tim1 | - | 250 |
Table 1. DNA amounts for transfection. The amount of each plasmid required for the transfection of producer and target cells is shown in ng per well of a 6-well plate. All plasmids are described in Watt et al15.