Acquisition and loss of virulence-associated factors during genome evolution and speciation in three clades of Bordetella species

BMC Genomics

Research Article

Yury V. Ivanov¹  Bodo Linz¹  Laura L. Goodfield¹  Eric T. Harvill²  Maria Kim³  Liliana Losada³  Lauren Brinkac³  Simon R. Harris⁴  Julian Parkhill⁴  Andrew R. Gorringe⁵  Norman K. Fry⁶  Andrew Preston⁷  Tracy L. Nicholson⁸  Karen B. Register⁸ 

[1] Department of Veterinary and Biomedical Sciences, Pennsylvania State University, University Park, PA 16802, USA;Department of Veterinary and Biomedical Sciences, Pennsylvania State University, University Park, PA 16802, USA;Singapore Centre on Environmental Life Sciences Engineering, Lee Kong Chian School of Medicine, Nanyang Technological University, Singapore 637551, Singapore;Department of Infectious Diseases, College of Veterinary Medicine, University of Georgia, Athens, GA 30602, USA;J. Craig Venter Institute, Rockville, MD, USA;Pathogen Genomics, The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK;Public Health England, Porton Down, Salisbury, UK;Public Health England, Respiratory and Vaccine Preventable Bacteria Reference Unit, London, UK;The Millner Centre for Evolution and Department of Biology and Biochemistry, University of Bath, Bath, UK;USDA, Agricultural Research Service, National Animal Disease Center, Ames, IA, USA;

关键词: Bordetella;    Evolution;    Virulence factor;    Gene acquisition;    Gene loss;   

DOI  :  10.1186/s12864-016-3112-5

 received in 2015-12-24, accepted in 2016-09-23,  发布年份 2016

来源: Springer

【 摘 要 】

BackgroundThe genus Bordetella consists of nine species that include important respiratory pathogens such as the ‘classical’ species B. bronchiseptica, B. pertussis and B. parapertussis and six more distantly related and less extensively studied species. Here we analyze sequence diversity and gene content of 128 genome sequences from all nine species with focus on the evolution of virulence-associated factors.ResultsBoth genome-wide sequence-based and gene content-based phylogenetic trees divide the genus into three species clades. The phylogenies are congruent between species suggesting genus-wide co-evolution of sequence diversity and gene content, but less correlated within species, mainly because of strain-specific presence of many different prophages. We compared the genomes with focus on virulence-associated genes and identified multiple clade-specific, species-specific and strain-specific events of gene acquisition and gene loss, including genes encoding O-antigens, protein secretion systems and bacterial toxins. Gene loss was more frequent than gene gain throughout the evolution, and loss of hundreds of genes was associated with the origin of several species, including the recently evolved human-restricted B. pertussis and B. holmesii, B. parapertussis and the avian pathogen B. avium.ConclusionsAcquisition and loss of multiple genes drive the evolution and speciation in the genus Bordetella, including large scale gene loss associated with the origin of several species. Recent loss and functional inactivation of genes, including those encoding pertussis vaccine components and bacterial toxins, in individual strains emphasize ongoing evolution.

【 授权许可】

CC BY   
© The Author(s). 2016