PMC

While a similar amount of proteins were identified at each of the two infection time points, the overlap is only 28% and 27% of the total identification in the 30 and 90-day samples, respectively.

Illustration showing the number of proteins identified during 10 replicates (x-axis). The circles signify 50 ng injections of the same WCL digest peptide mixture (standard deviation = 13.1). Squares represent the additive effect of protein identifications after each replicate after combining the Sequest and Mascot result files in Scaffold (left y-axis). The triangles depict the percentage (right y-axis) of unique protein identifications gained per additional replicate.

Guinea pigs were aerosolized with a low dose infection of virulent Mtb (H37Rv). Tissues were stained (H&E) to demonstrate differences in granulomas based on size (primary granuloma, marked with the letter P) and the absence (secondary granuloma, marked with the letter S) of a necrotic core. Bars are 200 µm.

Each bar in the graph corresponds to the normalized spectral count for each protein within the same category. Each color signifies the infection time-point: blue = 30-day, red = 90-day and green = proteins found at both time-points, of which the area below the black line is the 30-day count and above equals the 90-day count. To the right of each category is the percent breakdown of the total spectral counts in the 30 versus 90-day samples.

A) Comparison of functional categories. The 30-day (blue), 90-day (red) and total identifications (green) were broken down by functional categories. Categories codes are assigned by TubercuList (http://genolist.pasteur.fr/TubercuList/help/function-codes.html): 0 = virulence, detoxification & adaptation; 1 = lipid metabolism; 2 = information pathways; 3 = cell wall & cell processes; 5 = insertion sequences & phages; 6 = PE/PPE; 7 = intermediary metabolism & respiration; 8 = unknown; 9 = regulatory proteins; 10 = conserved hypotheticals and 16 = conserved hypotheticals with an ortholog in M. bovis. B) Venn diagram showing the overlap between the 30-day and 90-day infection in category 3 and C) category 7.