Jawad Ali

• Ali, Jawad; Johansen, Wenche & Ahmad, Rafi (2024). Short turnaround time of seven to nine hours from sample collection until informed decision for sepsis treatment using nanopore sequencing. Scientific Reports. ISSN 2045-2322. 14(1). doi: 10.1038/s41598-024-55635-z. Vis sammendrag

  Bloodstream infections (BSIs) and sepsis are major health problems, annually claiming millions of lives. Traditional blood culture techniques, employed to identify sepsis-causing pathogens and assess antibiotic susceptibility, usually take 2–4 days. Early and accurate antibiotic prescription is vital in sepsis to mitigate mortality and antibiotic resistance. This study aimed to reduce the wait time for sepsis diagnosis by employing shorter blood culture incubation times for BD BACTEC™ bottles using standard laboratory incubators, followed by real-time nanopore sequencing and data analysis. The method was tested on nine blood samples spiked with clinical isolates from the six most prevalent sepsis-causing pathogens. The results showed that pathogen identification was possible at as low as 102–104 CFU/mL, achieved after just 2 h of incubation and within 40 min of nanopore sequencing. Moreover, all the antimicrobial resistance genes were identified at 103–107 CFU/mL, achieved after incubation for 5 h and only 10 min to 3 h of sequencing. Therefore, the total turnaround time from sample collection to the information required for an informed decision on the right antibiotic treatment was between 7 and 9 h. These results hold significant promise for better clinical management of sepsis compared with current culture-based methods.

• Bellankimath, Anurag Basavaraj; Chapagain, Crystal; Branders, Sverre; Ali, Jawad; Wilson, Robert Charles & Johansen, Truls E. Bjerklund [Vis alle 7 forfattere av denne artikkelen] (2024). Detection of pathogens and antimicrobial resistant genes from urine within 5 hours using Nanopore sequencing. bioRxiv. ISSN 2692-8205. doi: 10.1101/2024.03.04.582689.
• Ali, Jawad; Ahmad, Rafi; Strætkvern, Knut Olav; Ahmadi, Asal & Joshi, Mukund (2023). Increased growth temperature and vitamin B12 supplementation reduces the lag time for rapid pathogen identification in BHI agar and blood cultures. Faculty of 1000. doi: 10.12688/f1000research.129668.2.
• Avershina, Ekaterina; Frye, Stephan Alfons; Ali, Jawad; Taxt, Arne Michael & Ahmad, Rafi (2022). Ultrafast and Cost-Effective Pathogen Identification and Resistance Gene Detection in a Clinical Setting Using Nanopore Flongle Sequencing. Frontiers in Microbiology. ISSN 1664-302X. doi: 10.3389/fmicb.2022.822402.

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• Ali, Jawad; Johansen, Wenche & Ahmad, Rafi (2024). Short turnaround time of seven to nine hours from sample collection until informed decision for sepsis treatment using nanopore sequencing.
• Ali, Jawad & Ahmad, Rafi (2023). Multi-excitation Raman spectroscopy complements whole genome sequencing for rapid detection of bacterial infection and resistance in WHO priority pathogens.
• Ali, Jawad & Ahmad, Rafi (2023). Rapid Diagnostics of Pathogens and AMR-encoding Genes in Blood Cultures Using Nanopore Sequencing .
• Chapagain, Crystal; Ali, Jawad; Branders, Sverre & Ahmad, Rafi (2023). Rapid Detection of Pathogens and Antimicrobial Resistance in Urine Using Nanopore Sequencing.
• Ali, Jawad & Ahmad, Rafi (2022). Ultrafast and Cost-Effective Pathogen Identification and Resistance Gene Detection in a Clinical Setting Using Nanopore Flongle Sequencing.
• Ali, Jawad & Ahmad, Rafi (2022). Rapid diagnostics of pathogens and AMR genes in blood samples using nanopore sequencing.

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