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The genera  Actinobacillus, Haemophilus,  and  Pasteurella  exhibit extensive polyphyletic branching in phylogenetic trees and do not represent coherent clusters of species. In this study, we have utilized molecular signatures identified through comparative genomic analyses in conjunction with genome based and multilocus sequence based phylogenetic analyses to clarify the phylogenetic and taxonomic boundary of these genera. We have identified large clusters of  Actinobacillus, Haemophilus,  and  Pasteurella  species which represent the “ sensu stricto ” members of these genera. We have identified 3, 7, and 6 conserved signature indels (CSIs), which are specifically shared by  sensu stricto  members of  Actinobacillus, Haemophilus,  and  Pasteurella , respectively. We have also identified two different sets of CSIs that are unique characteristics of the pathogen containing genera  Aggregatibacter  and  Mannheimia , respectively. It is now possible to demarcate the genera  Actinobacillus sensu stricto, Haemophilus sensu stricto,  and  Pasteurella sensu stricto  on the basis of discrete molecular signatures. The other members of the genera  Actinobacillus, Haemophilus,  and  Pasteurella  that do not fall within the “ sensu stricto ” clades and do not contain these molecular signatures should be reclassified as other genera. The CSIs identified here also provide useful diagnostic targets for the identification of current and novel members of the indicated genera.

international journal of genomics

Phylogenomic and Molecular Demarcation of the Core Members of the PolyphyleticPasteurellaceaeGeneraActinobacillus,Haemophilus, andPasteurella