The Genomic Sequence of the Oral Pathobiont Strain NI1060 Reveals Unique Strategies for Bacterial Competition and Pathogenicity

• Published in: PloS one 2016-07, Vol.11 (7), p.e0158866-e0158866
• Main Authors: Darzi, Youssef, Jiao, Yizu, Hasegawa, Mizuho, Moon, Henry, Núñez, Gabriel, Inohara, Naohiro, Raes, Jeroen
• Format: Article
• Language: English
• Subjects: Adhesins; Aggregatibacter actinomycetemcomitans; Bacteria; Bacterial genetics; Base Sequence; Bioengineering; Biology; Biology and Life Sciences; Competition; DNA, Bacterial - genetics; Dysbacteriosis; Energy sources; Frameshift mutation; Gene expression; Genes; Genetic aspects; Genome, Bacterial - genetics; Genomes; Gum disease; Immunology; Infectious diseases; Lipopolysaccharides - chemistry; Medicine and Health Sciences; Metabolic pathways; Microbiota; Mutation; Nod1 protein; Nucleotide sequence; Pasteurella; Pasteurella pneumotropica; Pasteurellaceae; Pasteurellaceae - classification; Pasteurellaceae - genetics; Pasteurellaceae - pathogenicity; Pathogenic bacteria; Pathogenicity; Pathogens; Pathology; Peptidoglycans; Periodontitis; Periodontitis - microbiology; Phylogenetics; Phylogeny; Physiological aspects; Proteins; Research and Analysis Methods; RNA, Ribosomal, 16S - genetics; rRNA 16S; Sequence Analysis, DNA; Virulence; Virulence Factors
• ISSN: 1932-6203; 1932-6203
• DOI: 10.1371/journal.pone.0158866

Strain NI1060 is an oral bacterium responsible for periodontitis in a murine ligature-induced disease model. To better understand its pathogenicity, we have determined the complete sequence of its 2,553,982 bp genome. Although closely related to Pasteurella pneumotropica, a pneumonia-associated rodent commensal based on its 16S rRNA, the NI1060 genomic content suggests that they are different species thriving on different energy sources via alternative metabolic pathways. Genomic and phylogenetic analyses showed that strain NI1060 is distinct from the genera currently described in the family Pasteurellaceae, and is likely to represent a novel species. In addition, we found putative virulence genes involved in lipooligosaccharide synthesis, adhesins and bacteriotoxic proteins. These genes are potentially important for host adaption and for the induction of dysbiosis through bacterial competition and pathogenicity. Importantly, strain NI1060 strongly stimulates Nod1, an innate immune receptor, but is defective in two peptidoglycan recycling genes due to a frameshift mutation. The in-depth analysis of its genome thus provides critical insights for the development of NI1060 as a prime model system for infectious disease.