Whole-genome typing of Bacillus anthracis isolates by next-generation sequencing accurately and rapidly identifies strain-specific diagnostic polymorphisms

Craig A. Cummings, Christina A. Bormann Chung, Rixun Fang, Melissa Barker, Pius M. Brzoska, Phillip Williamson, Jodi A. Beaudry, Molly Matthews, James M. Schupp, David M Wagner, Manohar R. Furtado, Paul S Keim, Bruce Budowle

Research output: Contribution to journalArticle

10 Citations (Scopus)

Abstract

In the event of bioterrorism, infectious disease outbreaks in the food supply chain, or hospital acquired infections, rapid, high-resolution genetic characterization is critical for determining the identity of the agent and attributing it to a specific source. Four Bacillus anthracis strains were sequenced to demonstrate the utility of next-generation sequencing technology, specifically the SOLiD™ system (Applied Biosystems™, Foster City, CA), for microbial forensics investigations. Reads from the B. anthracis Ames ancestor strain detected only a single false positive SNP. Of the 148 SNPs that distinguish the Ames and Sterne strains, 126 (85%) were identified with 19 of the 22 uncalled SNPs in two dense clusters that precluded mapping of reads. Three previously unsequenced, geographically distinct B. anthracis strains from the A branch lineage were found to have between 352 and 471 SNPs each, relative to the Ames ancestor reference genome. The high throughput, multiplexing capability, and accuracy of the SOLiD™ system make it suitable for rapid whole-genome typing of microbial pathogens during a forensic or epidemiological investigation.

Original languageEnglish (US)
Pages (from-to)300-301
Number of pages2
JournalForensic Science International: Genetics Supplement Series
Volume2
Issue number1
DOIs
StatePublished - Jan 2009

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Bacillus anthracis
Single Nucleotide Polymorphism
Genome
Microbial Genome
Bioterrorism
Food Chain
Food Supply
Cross Infection
Disease Outbreaks
Technology

Keywords

  • Bacillus anthracis
  • Microbial forensics
  • Sequencing
  • SOLiD system

ASJC Scopus subject areas

  • Genetics
  • Pathology and Forensic Medicine

Cite this

Whole-genome typing of Bacillus anthracis isolates by next-generation sequencing accurately and rapidly identifies strain-specific diagnostic polymorphisms. / Cummings, Craig A.; Bormann Chung, Christina A.; Fang, Rixun; Barker, Melissa; Brzoska, Pius M.; Williamson, Phillip; Beaudry, Jodi A.; Matthews, Molly; Schupp, James M.; Wagner, David M; Furtado, Manohar R.; Keim, Paul S; Budowle, Bruce.

In: Forensic Science International: Genetics Supplement Series, Vol. 2, No. 1, 01.2009, p. 300-301.

Research output: Contribution to journalArticle

Cummings, Craig A. ; Bormann Chung, Christina A. ; Fang, Rixun ; Barker, Melissa ; Brzoska, Pius M. ; Williamson, Phillip ; Beaudry, Jodi A. ; Matthews, Molly ; Schupp, James M. ; Wagner, David M ; Furtado, Manohar R. ; Keim, Paul S ; Budowle, Bruce. / Whole-genome typing of Bacillus anthracis isolates by next-generation sequencing accurately and rapidly identifies strain-specific diagnostic polymorphisms. In: Forensic Science International: Genetics Supplement Series. 2009 ; Vol. 2, No. 1. pp. 300-301.
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