There is a significant degree of overlap between the predicted proteomes of sequenced Brucella species.
The average protein similarity between the predicted proteomes of KF-25 and Wisconsin 54-1255 was 75.1%.
To identify differences between Pta 11528 and the previously sequenced Pph 1448A, Psy B728a and Pto DC3000 with respect to their repertoires of virulence factors, we performed BLASTP searches between the predicted proteomes.
Thus, these results showed little correspondence between the predicted proteome plasticity shaped by AS, and observed translation of particular isoforms at the proteome level.
Apparently, our results indicate little correspondence between the predicted proteome plasticity shaped by AS, and the observed translation of particular isoforms at the proteomic level.
For the first in silico workflow, orthologs shared between the predicted proteome of S. mansoni [19], and the proteomes of C. elegans and D. melanogaster available at Wormbase [23] and Flybase [24], respectively, were determined (Figure 1A).
The predicted proteomes in the DBM genome and those from the genomes of 11 insect species13,14,64,65,66,67,68,69,70,71 and 1 Arachnida outgroup species72 were used in BLAST (1 × 10−7).
The predicted proteomes of D. melanogaster, B. mori, Anopheles gambiae and Tribolium castaneum were aligned with the DBM genome using TBLASTN (1 × 10−5).
The predicted proteomes of the parasites were run as blast queries against the control proteomes and against H. sapiens.
Initially, the predicted proteomes of Tcm and Tcc X10 were queried with BLASTp against the predicted proteome of Tcc CLBR using the E-value threshold 1e-20.
albimanus predicted proteome, as well as the predicted proteomes of An. darlingi An. gambiae Ae. aegypti C. quinquefasciatus D. melanogaster, I. scapularis, P. humanus and Rhodnius prolixus.
