An overview of the workflow is detailed in Fig. 1 . A total of 66 isolates (17 P. aeruginosa, 28 K. pneumoniae, and 21 A. baumannii isolates) were recovered from different clinical specimens (blood, urine, sputum, and others). All samples were randomly collected from patients admitted to bacteriological testing at Mabaret El Asafra Labs, Alexandria, Egypt during the period between August 2020 and March 2021. Bacterial identification at the species level was carried out using the VITEK 2 Compact GN ID card (bioMérieux, Marcy-l’Étoile, France). DNA extraction was performed using QIAamp DNA Mini Kit (QIAGEN) according to the manufacturer’s instructions. DNA quality and concentration were determined using a Qubit 3.0 fluorometer. The Illumina NextSeq 550 sequencing platform was used for whole-genome sequencing of the isolates. For library preparation, 1 μg of genomic DNA and the NEXTflex Rapid XP DNA-Seq library Preparation Kit following the manufacturer’s instructions was used (PerkinElmer, https://perkinelmer-appliedgenomics.com/ ). The libraries were sequenced using the NextSeq system by NextSeq 500/550 mid output kit v2.5 (300 cycles) paired-end kit.
Vitek 2 compact gn id card
Manufactured by bioMérieux
Sourced in France
The VITEK 2 Compact GN ID card is a laboratory instrument used for the identification of Gram-negative bacteria. It is designed to provide rapid and accurate bacterial identification results through automated analysis of biochemical reactions.
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Lab products found in correlation
2 protocols using vitek 2 compact gn id card
1
Whole-Genome Sequencing of Multidrug-Resistant Isolates
2
Gram-Negative Bacterial Isolates Analysis
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One hundred and eleven non-duplicate Gram-negative isolates (including 46 K. pneumoniae, 45 A. baumannii, and 20 P. aeruginosa) were recovered from different clinical specimens (blood, urine, sputum, and respiratory secretions). Samples were obtained between August 2020 to April 2021 Mabaret El Asafra microbiology Lab that serves as a diagnostic center for many hospitals in Alexandria, Egypt. All samples were promptly transported to the laboratory in sterile containers within 12 h of collection. Isolation and enrichment steps were performed as previously described.15 Species identification was confirmed using VITEK 2 Compact GN ID card (bioMérieux, Marcy-l’Étoile, France).
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