| Literature DB >> 34249774 |
Adam D Irwin1,2, Lachlan J M Coin3,4, Patrick N A Harris1, Menino Osbert Cotta1, Michelle J Bauer1, Cameron Buckley1, Ross Balch1, Peter Kruger5, Jason Meyer5, Kiran Shekar1,6, Kara Brady6, Cheryl Fourie7, Natalie Sharp8, Luminita Vlad1, David Whiley1, Scott A Beatson9, Brian M Forde1, David Paterson1, Julia Clark2, Krispin Hajkowicz7, Sainath Raman8, Seweryn Bialasiewicz9, Jeffrey Lipman1, Luregn J Schlapbach8,10, Jason A Roberts1.
Abstract
Background: Sepsis contributes significantly to morbidity and mortality globally. In Australia, 20,000 develop sepsis every year, resulting in 5,000 deaths, and more than AUD$846 million in expenditure. Prompt, appropriate antibiotic therapy is effective in improving outcomes in sepsis. Conventional culture-based methods to identify appropriate therapy have limited yield and take days to complete. Recently, nanopore technology has enabled rapid sequencing with real-time analysis of pathogen DNA. We set out to demonstrate the feasibility and diagnostic accuracy of pathogen sequencing direct from clinical samples, and estimate the impact of this approach on time to effective therapy when integrated with personalised software-guided antimicrobial dosing in children and adults on ICU with sepsis.Entities:
Keywords: antimicrobial resistance; antimicrobials; nanopore sequencing; personalised dosing; sepsis diagnostics; trial protocol
Mesh:
Substances:
Year: 2021 PMID: 34249774 PMCID: PMC8261237 DOI: 10.3389/fcimb.2021.667680
Source DB: PubMed Journal: Front Cell Infect Microbiol ISSN: 2235-2988 Impact factor: 5.293
Inclusion and exclusion criteria for the DIRECT study.
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Age >1month Admitted to paediatric or adult ICU at one of the participating centres Decision to treat for suspected sepsis, defined as suspected or proven infection with or without confirmed organ dysfunction. Commenced within 24h on intravenous broad-spectrum antibiotics, or within 24h of a change to new antibiotics consistent with treatment for a new episode of suspected sepsis. Blood cultures are being obtained or were obtained within the past 12 hours |
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Inability to gain informed consent during the study period Neonates Death is likely imminent Palliative care patient Renal replacement therapy Extra-corporeal membrane oxygenation |
Figure 1Study flow diagram. Phase 1: In an initial observational phase of the study, participants will be recruited to a diagnostic accuracy study of MinION nanopore pathogen sequencing. The sample size for this phase of the study is 50 patients with blood culture-confirmed sepsis admitted to ICU. Phase 2: In Phase 2, consecutive patients with suspected sepsis admitted to ICU will undergo MinION nanopore pathogen sequencing integrated with personalised antibiotic therapy using a combination of Bayesian dosing software (ID-ODS™) and measured antibiotic plasma concentrations. A senior ICU pharmacist/clinician at each site will lead this software-guided intervention of antimicrobial dose optimisation. All dosing regimens will be checked by both the senior ICU pharmacist and attending ICU consultant prior to prescription. The final decision regarding the use of the optimised dosing of antibiotics will remain at the discretion of the attending ICU consultant. Software-guided dosing will continue until either: 1) the study antibiotic(s) have been ceased by the treating clinician, 2) the patient is discharged from ICU, 3) after 5 days of study antibiotic therapy. If antibiotic therapy is still required thereafter, dosing will be guided by the treating clinician. Adherence to dosing strategies informed by the dosing software will be supported by the use of senior ICU pharmacists trained in the use of this software-guided approach to antimicrobial dose optimisation. All dosing regimens will be checked by both the senior ICU pharmacist and attending ICU consultant prior to prescription, to ensure appropriateness and safety.
Appropriate study sample volumes according to age, and sample type. ‘T’ is time of sampling in hours since recruitment.
| Age category | EDTA (T=0) | Plasma (T=24,48,72,96h) |
|---|---|---|
| Infants and Young children (<5y) | 1-2ml | 0.5ml |
| Older children (5-12y) | 2-6ml | 1-2ml |
| Adolescents and adults (>12y) | 6-10ml | 3-5ml |
The volume of blood obtained (for both children and adults) will be documented at the time of recruitment and sampling. Consent will be sought to use residual EDTA samples for the evaluation of emerging, rapid methods of bacterial detection and antimicrobial resistance identification.