Desenho de primers in silico para o gene 16S rRNA

Abstract

The 16S rRNA gene is the most useful to establish relations, because of its high information content, and its conservative nature for universal distribution. because it is a component too conserved, being used extensively to identify genera, species, and taxonomic definitions of bacteria and archaea. Thanks to its conservation rate, and its small number of variations between its species, its modification rate is estimated in nine hypervariable zones, which configured considerable taxonomic data, making it ideal for phylogeny. Molecular markers have a great importance in genetic improvement procedures. In this work the in silico primer design method was used, and the programs of bioinformatics, aimed at the genetic alignment, was found and validated a set of primers, between the interest of interest to the studied gene, going between V2, V3 and V4 of the 16S rRNA gene, with the genetic information of 33 different bacterial genera, subdivided and classified into two groups, gram positive and gram negative. The results obtained in the analyzes were, two primers with query coverage between 100% and 81%, the ELY-1Fx ELY-R1 primer pair was chosen for its score, for presenting degenerate bases and for obtaining a greater number of species genera, and it was effective in identifying organisms for the V3 region of the 16S gene.