Abstract
The Burkholderia cenocepacia epidemic ET12 lineage belongs to the genomovar IIIA including the reference strain J2315, a highly transmissible epidemic B. cenocepacia lineage. Members of this lineage are able to cause lung infections in immunocompromised and cystic fibrosis patients. In this study, we describe the genome of F01, an environmental B. cenocepacia strain isolated from soil in Burkina Faso that is, to our knowledge, the most closely related strain to this epidemic lineage. A comparative genomic analysis was performed on this new isolate, in association with five clinical and one environmental B. cenocepacia strains whose genomes were previously sequenced. Antibiotic resistances, virulence phenotype, and genomic contents were compared and discussed with an emphasis on virulent and antibiotic determinants. Surprisingly, no significant differences in antibiotic resistance and virulence were found between clinical and environmental strains, while the most important genomic differences were related to the number of prophages identified in their genomes. The ET12 lineage strains showed a noticeable greater number of prophages (partial or full-length), especially compared to the phylogenetically related environmental F01 strain (i.e., 5–6 and 3 prophages, respectively). Data obtained suggest possible involvements of prophages in the clinical success of opportunistic pathogens.
Highlights
The Burkholderia cepacia complex (Bcc) is a group of opportunistic pathogens that cause lung infections in immunocompromised and cystic fibrosis (CF) patients
We describe the genome of F01, a new environmental B. cenocepacia strain isolated from soil in Burkina Faso
The B. cenocepacia strain H111 is a member of the genomovar IIIA isolated from CF patient, but this strain is not included in the ET12 lineage (Carlier et al, 2014)
Summary
The Burkholderia cepacia complex (Bcc) is a group of opportunistic pathogens that cause lung infections in immunocompromised and cystic fibrosis (CF) patients. Burkholderia multivorans and B. cenocepacia (formerly Genomovar II and III, respectively) are Environmental Burkholderia Related to Epidemic Lineage the most clinically frequent members of Bcc, representing from 50% up to 80% of the infections caused by this complex (Mahenthiralingam et al, 2002; Holden et al, 2009; Peeters et al, 2017). Unlike other opportunistic pathogens isolated from CF patients (e.g., Haemophilus influenzae or P. aeruginosa), members of the Bcc could lead to the “cepacia syndrome.”. This syndrome is characterized by a rapid clinical deterioration due to necrotizing pneumonia or sepsis, resulting in early death (Isles et al, 1984; Gibson et al, 2003). Several Bcc species have been shown to be transmissible among CF patients and are able to cause epidemic outbreaks (Biddick et al, 2003)
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