Oral Presentation International Pasteurellaceae Conference 2014

The whole-genome phylogeny of the Pasteurellaceae family: An update (#11)

Paul Planet 1 2 , A. Narechania 2
  1. Department of Pediatrics, Division of Pediatric Infectious Diseases, Columbia University, College of Physicians and Surgeons, New York, NY, USA
  2. Sackler Institute for Comparative Genomics, American Museum of Natural History, New York, NY, USA

Whole genome phylogenies offer unparalleled opportunities to understand diversity, taxonomy, and evolution of bacterial species. As of March 2014, 149 whole genomes from the Pasteurellaceae are publically available. There are 48 complete circularized genomes and 101 draft genome sequences.  In 2011, at the last Pasteurellaceae conference, there were a total of 56 genomes available (21 complete, 35 draft).  Genome sequences are now available from 29 species and 9 genera representing, 40% of species (59% of validly named species) and 50% of genera from the group.  Six species, Haemophilus influeanzae (n=22) Pasteurella multocida (n=22), Aggregatibacter actinomycetemcomitans (n=20), Mannheimia haemolytica (n=17), and Actinobacillus pleuropneumoniae (n=16) account for the bulk of available sequences, but 12 other species have two whole genomes or more. Using both whole genome alignment and gene concatenation techniques, we present a rigorous phylogenetic analysis of the Pasteurellaceae family using all 149 whole genome sequences. Our phylogeny shows robust relationships amongst the major taxa, with stability of the two major subdivisions noted previously.  We explore the core and shell genome of this family and show that there is strong phylogenetic signal emanating from both genomic partitions.   As with previous studies, species boundaries appear to be demarcated by strong support, but weak phylogenetic signal characterizes the relationships amongst the major intraspecies lineages.  We present a feasible plan for a comprehensive whole genome survey of representatives from all species in this family.