Challenges of Francisella classification exemplified by an atypical clinical isolate.

TitleChallenges of Francisella classification exemplified by an atypical clinical isolate.
Publication TypeJournal Article
Year of Publication2018
AuthorsMatz, LM, Kamdar, KY, Holder, ME, Metcalf, GA, Weissenberger, GM, Meng, Q, Vee, V, Han, Y, Muzny, DM, Gibbs, RA, Johnson, CL, Revell, PA, Petrosino, JF
JournalDiagn Microbiol Infect Dis
Date Published2018 Apr
KeywordsChild, DNA, Bacterial, Francisella, Genes, Bacterial, Genetic Variation, Genome, Bacterial, Genotype, Humans, Lymph Nodes, Male, Oxidoreductases, Sequence Analysis, DNA, Tularemia, Virulence Factors, Whole Genome Sequencing

The accumulation of sequenced Francisella strains has made it increasingly apparent that the 16S rRNA gene alone is not enough to stratify the Francisella genus into precise and clinically useful classifications. Continued whole-genome sequencing of isolates will provide a larger base of knowledge for targeted approaches with broad applicability. Additionally, examination of genomic information on a case-by-case basis will help resolve outstanding questions regarding strain stratification. We report the complete genome sequence of a clinical isolate, designated here as F. novicida-like strain TCH2015, acquired from the lymph node of a 6-year-old male. Two features were atypical for F. novicida: exhibition of functional oxidase activity and additional gene content, including proposed virulence determinants. These differences, which could potentially impact virulence and clinical diagnosis, emphasize the need for more comprehensive methods to profile Francisella isolates. This study highlights the value of whole-genome sequencing, which will lead to a more robust database of environmental and clinical genomes and inform strategies to improve detection and classification of Francisella strains.

Alternate JournalDiagn Microbiol Infect Dis
PubMed ID29329757
PubMed Central IDPMC5857240
Grant ListU54 AI057156 / AI / NIAID NIH HHS / United States
U54 HG003273 / HG / NHGRI NIH HHS / United States

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