Rapid detection of microorganisms is a promising approach towards early administration of appropriate antibiotics for sepsis. This study aims to investigate the potential of a new NGS platform for the rapid diagnosis of circulating bacteria in blood.
Early start of antimicrobials is the cornerstone of management of critically ill patients. The appropriate time window for this early intervention may vary greatly, but it is considered to be one to 3 hours from hospital admission. However, the choice of the antimicrobials for early intervention relies on empirical selection and may several times be inappropriate due to the emergence of antimicrobial resistance. The only way to overcome this difficulty is guidance through early microbial identification and antibiotic susceptibility testing (AST). However, blood cultures are positive in almost 20% of critically ill patients and AST may delay as much as 72 hours. This means that another type of approach is warranted which will tackle the major limitation of standard-of-care (SoC) microbiology, namely, the need to incubate whole blood into flasks enriched with growth media which necessitates subculturing once a blood flask turns positive. It is evident that rapid identification of the pathogen followed by AST using whole blood without the need of blood culture can be a major advance in the diagnostic field. The present study is based on previous analysis of ethylenediaminetetraacetic acid (EDTA) whole blood coming from patients with known bloodstream infection. Next generation sequencing (NGS) of bacterial DNA extracted from whole blood managed to identify the correct pathogen. This study is aiming at the validation of this NGS -based assay in a broader number of patients.
Study Type
OBSERVATIONAL
Enrollment
100
A total volume of 26ml of whole blood will be sampled from each enrolled patient for three consecutive days. This will be used for Standard-of-Care (SoC) culture and Next Generation Sequencing (NGS), for identification of circulating microorganisms.
4th Department of Internal Medicine,"Attikon" University Hospital, National and Kapodistrian University of Athens, Medical School
Chaïdári, Attica, Greece
1st Department of Internal Medicine, General Hospital of Eleusis THRIASIO
Athens, Greece
3rd University Department of Internal Medicine, General Hospital of Chest Diseases of Athens SOTIRIA
Athens, Greece
3rd Department of Internal Medicine, General Hospital of Nikaia AGIOS PANTELEIMON
Nikaia, Greece
The rate of matching between the results of Next Generation Sequencing and the Standard-of-Care culture for patients with sepsis.
This will be done by assessing the sensitivity, the specificity, the positive predictive value and the negative predictive value of Next Generation Sequencing and Standard-of-Care. For the analysis of this diagnostic performance, the results of the SoC cultures will be considered the "gold standard" for comparisons.
Time frame: 7 days
Difference in time to identification of the bacterial pathogen between Next Generation Sequencing and the Standard-of-Care culture
The time from start of incubation until final identification will be recorded and compared between the two methods.
Time frame: 7 days
Difference in time to Antibiotic Susceptibility Testing between Next Generation Sequencing and the Standard-of-Care culture
The time from start of incubation until the Antibiotic Susceptibility Testing will be recorded and compared between the two methods.
Time frame: 7 days
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