Sakai and S. Typhi strain Ty2 where it is connected to the conserved gene string artP- artI- artQ- artM.
On one hand, the artI gene is present in six genomes, including those of Pasteurellaceae, where it belongs to the conserved gene string artP- artI- artQ- artM.
STRING searches revealed that the xylA and xylB genes are present in four genomes, including only one Pasteurellaceae genome, where they belong to the conserved gene string xylA- xylB.
STRING searches revealed that the hslV and hslU genes are present in 15 genomes, including those of Pasteurellaceae, where they belong to the conserved gene string hslV- hslU, suggesting that these genes comprise an operon.
The problem is to identify recurring patterns of conserved short strings that appear in a large fraction of nucleotide sequences.
A program designed to predict gene function by building gapped local alignment of genome contexts between prokaryotic genomes, followed by studying the conserved gene strings provided significant predictions, yet it could not cover the majority of genes either [ 33].
Based on the notion that statistically significant conserved gene strings can be confidently predicted to form operons [ 4], we have analyzed a set of 17 proteobacterial genomes in order to determine the operon organization of the 5' flanking genes.
The GeneSyn program [ 71] allowed the detection of gene strings conserved in chordate mtDNAs.
We hereby demonstrated that immunization with HIVBr18, a DNA plasmid encoding a string of conserved multiple HLA class II-binding HIV-1 CD4+ T cell epitopes, can induce broad, polyfunctional, long-lived CD4+ and CD8+ T cell responses.
We hereby demonstrate that immunization with HIVBr18, a DNA plasmid encoding a string of conserved multiple HLA class II-binding HIV-1 CD4+ T cell epitopes, can induce IFN-γ secretion, CD4+ and even some CD8+ T cell proliferation against multiple epitopes.
