FIG. 1.

Descriptive workflow of the automatic Perl bioinformatics-based analysis of the PathogenID v2.0 data. (A) Systematic BLAST strategy. This strategy consists of filtering of the sequences obtained from the output data of the RMA with filter parameters defined by the user (see Materials and Methods for further details), systematic researching of homologues using a local BLAST viral and bacterial database, and finally retrieval of the taxonomy of the best BLAST hits. (B) Consensus sequence determination strategy. A consensus sequence is generated using a multiple alignment with CLUSTAL W based on the sequences obtained from prototype rhabdovirus sequences tiled on the microarray. With this process, the length and accuracy of the query sequence can be increased. Homology searching of the consensus sequences is performed with BLAST using the previously described parameters and database. The taxonomy of the best BLAST hit is retrieved as for the systematic homology searching approach.