Stan Langevin and Carolyn wanted to see if this particular gene was found in the withering syndrome (RLO) or phage (RLOv) genomes. I previously identified 10 samples of each of the following combinations:
Master mix calcs are here (Google Sheet): 20160331 – qPCR Black Ab 08:13 XenoCal phage portal check
All samples were run in duplicate.
Plate layout, cycling params, etc can be viewed in the qPCR Report (see Results below).
The results are definitely interesting!
Quick summary: Amplification only seen in RLO+/RLOv- samples!
Oddly, there is no amplification in the other group of RLO+ samples (RLO+/RLOv+). Based on the fact that there is amplification in RLO+/RLOv- samples, which implies this prophage portal gene is present in withering syndrome, we would expect to also have amplification in the other group of samples that are positive for withering syndrome.
Compiled qPCR data with WSN1, RLOv_DNA_helicase, and XenoCal prophage portal gene (Google Sheet): 20160331_qPCR_summary_RLO_RLOv_pos_negs
Amplification Plots (PINK= RLO+/RLOv-, BLUE = RLO-/RLOv-; GREEN = RLO-/RLOv+; BLACK = RLO+/RLOv+)
Melt Curve Plots (see amplification plots for color scheme)