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Chapter 42 : Online Identification of Legionella Species by DNA Sequence Analysis: the Macrophage Infectivity Potentiator Gene as an Example
Online Identification of Legionella Species by DNA Sequence Analysis: the Macrophage Infectivity Potentiator Gene as an Example, Page 1 of 2< Previous page Next page > /docserver/preview/fulltext/10.1128/9781555815660/9781555813901_Chap42-1.gif /docserver/preview/fulltext/10.1128/9781555815660/9781555813901_Chap42-2.gif
This chapter investigates the feasibility of providing a dedicated database allowing the online identification of putative Legionella spp. following standard PCR amplification and sequencing using a previously published identification scheme for Legionella. A standard PCR and sequencing protocol based on a previously published sequence-based identification scheme was used to generate a DNA sequence from the macrophage infectivity potentiator gene (mip). Identification of user-generated sequences was performed using tools showing: (i) an alignment of all the sequences from the reference alignment, top five database matches, and the user sequence; (ii) a neighbor-joining tree of the alignment, including the reference species, five closest matches from the database, and the user sequence; and (iii) an alignment of the eight sequences from the combined alignment that are most similar to the user sequence together with percentage similarity scores. It is anticipated that additional genes, including those coding for 16S rRNA, RpoB, and RnpB, will be added to the current identification system to aid in the characterization and identification of known and potential novel members of this genus.