Identification and phylogenetic sorting of bacterial lineages with universally conserved genes and proteins.

摘要: Summary Molecular characterizations of bacteria often employ ribosomal DNA (rDNA) to establish the identity and relationships among organisms, but use rRNA sequences can be problematic as result alignment ambiguities caused by indels, lack informative characters, varying functional constraints over molecule. Although protein-coding regions have been used an alternative rRNA, there is neither consensus genes examined nor ways rapidly obtain sequence information for such from uncharacterized bacterial species. To standardize set loci assayed in genomes, we 100 widely distributed identify sets universal primers PCR amplification protein coding that are common virtually all bacteria. From this set, developed primer each target 10 spanning array genomic locations categories. many contain degeneracies aid targeting across diverse taxa, most adequate direct sequencing products, thereby eliminating intermediate cloning before determination. We foresee analysis these being complementary answering questions pertaining identification, classification, phylogenetics evolution.