Distribution of observed SNPs in the TcSMO-like genes of T. cruzi.
Based on the prediction of trans-membrane spanning domains (see TMHMM probability plot at the bottom), we created two alternative representations, following Sperling, Ternes, Zank et al (2003). The distribution of synonymous and non- synonymous SNPs is shown according to these models. The representations differ in the presence/absence of the second (non-predicted) trans-membrane domain. In these two representations the location of the 3rd histidine box always lies on the opposite side of the membrane. Both topologies may be wrong and an in-depth study (similar to the one performed by Diaz, Mansilla, Vila et al., 2002) may be required to establish the correct topology of these proteins.
Reciprocal BLASTP searches between fungal and kinetoplastid ERG25/ERG3 homologs.
The file contains a summary of BLASTP searches against fungal and kinetoplastid protein databases. BLAST searches using the yeast ERG3/ERG25 protein sequences as query, were run at the TriTrypDB BLAST server against a database of Kinetoplastid proteomes from reference and draft genomes. BLAST searches using a number of putative T. cruzi orthologs of these yeast genes were run at the SGD Fungal BLAST Server, against a database containing a selection of fungal genomes. Each BLASTP search is shown in a separate tab in the Excel workbook.
List of nucleotide changes (SNPs, fixed differences) identified for each gene analyzed.
The excel file contains one spreadsheet per gene with information on the location of each SNP relative to the start codon, the PolyPhred score for the SNP, and the character state of the SNP in each strain/lineage.