In this before-after study, different new methods for bacterial species identification from positive blood cultures will be compared towards historic controls. All samples are analyzed within the routine workflow for bacterial species identification and antibiotic resistance profiling. Patients with positive blood cultures from 2016 to 2018 receiving a conventional identification methods (controls) will be compared to patients from 2018 and 2019 with a new identification method (cases). The conventional identification method consisted in general of an over-night subculture and subsequent identification of the bacterial pathogen using either biochemical profiling or Matrix-assisted Laser-Desorption/Ionization Time-of-Flight (MALDI-TOF MS). The new identification of positive blood cultures methods include (i) either the newly introduced Biofire FilmArray© Blood Culture Identification (BCID) panel or (ii) in a subset of patients whole genome sequencing (WGS) approaches.
Study Type
OBSERVATIONAL
Enrollment
800
Identification of bacteria in positive blood cultures with MALDI-TOF MS from a subculture usually one day after the signal for a positive blood culture appears (from 2016 to 2018)
The Biofire FilmArray© BCID Panel is performed directly from the positive blood culture without the need of subculture to reach single bacterial colonies (from 2018 and 2019)
shotgun metagenomic approach allows to sequence the whole genome (WGS) of pathogens and thereby potentially detect every potential pathogen and also resistance and virulence gene (from 2018 and 2019)
Division of Clinical Bacteriology & Mycology, University Hospital Basel
Basel, Switzerland
Time to optimal antibiotic treatment in hours from positive blood cultures (hours)
Time from blood draw for blood culture testing to start of optimal antibiotic treatment (hours)
Time frame: 24 hours from collection of blood cultures
Time to effective antibiotic treatment in hours from positive blood cultures (hours)
Time from blood draw for blood culture testing to start of effective antibiotic treatment (hours)
Time frame: 24 hours from collection of blood cultures
all-cause in hospital mortality (number)
all-cause in hospital mortality (number)
Time frame: from admission to hospital until release from hospital (approximately 30 days)
duration on ICU in days
duration on ICU in days
Time frame: from admission to ICU until release from ICU (approximately 20 days)
time to Gram staining and resistance profile from positive blood cultures (hours)
time to Gram staining and resistance profile from positive blood cultures (hours)
Time frame: 24 hours from collection of blood cultures
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