Details

Autor(en) / Beteiligte

• McGann, Patrick
• Bunin, Jessica L
• Snesrud, Erik
• Singh, Seema
• Maybank, Rosslyn
• Ong, Ana C
• Kwak, Yoon I
• Seronello, Scott
• Clifford, Robert J
• Hinkle, Mary
• Yamada, Stephen
• Barnhill, Jason
• Lesho, Emil

Titel

Real time application of whole genome sequencing for outbreak investigation – What is an achievable turnaround time?

Ist Teil von

• Diagnostic microbiology and infectious disease, 2016-07, Vol.85 (3), p.277-282

Ort / Verlag

United States: Elsevier Inc

Erscheinungsjahr

2016

Quelle

MEDLINE

Beschreibungen/Notizen

• Abstract Whole genome sequencing (WGS) is increasingly employed in clinical settings, though few assessments of turnaround times (TAT) have been performed in real-time. In this study, WGS was used to investigate an unfolding outbreak of vancomycin resistant Enterococcus faecium (VRE) among 3 patients in the ICU of a tertiary care hospital. Including overnight culturing, a TAT of just 48.5 h for a comprehensive report was achievable using an Illumina Miseq benchtop sequencer. WGS revealed that isolates from patient 2 and 3 differed from that of patient 1 by a single nucleotide polymorphism (SNP), indicating nosocomial transmission. However, the unparalleled resolution provided by WGS suggested that nosocomial transmission involved two separate events from patient 1 to patient 2 and 3, and not a linear transmission suspected by the time line. Rapid TAT’s are achievable using WGS in the clinical setting and can provide an unprecedented level of resolution for outbreak investigations.