2019
DOI: 10.29333/ejgm/108690
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Relating next-generation sequencing and bioinformatics concepts to routine microbiological testing

Abstract: Next-Generation Sequencing (NGS) is becoming a reality in the clinical microbiology laboratory because it can speed diagnosis when compared to traditional culture based-methods and moreover, to aid in unravelling key virulence traits of important pathogens. Nonetheless, there are many limitations for its wide application in routine testing, as the requirement of high performance hardware and software to support bioinformatics analysis, as well as the expertise in different programming languages to perform the … Show more

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Cited by 2 publications
(1 citation statement)
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References 77 publications
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“…The WGS has been used in different types of bacterial analysis, including evolution, epidemiology, pathogenicity and antimicrobial resistance (Almeida and De Martinis, 2019), and WGS-based typing of bacteria has been increasingly used for investigation of outbreaks and surveillance studies (Ruan and Feng, 2016). Different relatedness criteria for cgMLST were described for representative clinically relevant bacteria, including NFGNB, Enterococcus sp.…”
Section: Discussionmentioning
confidence: 99%
“…The WGS has been used in different types of bacterial analysis, including evolution, epidemiology, pathogenicity and antimicrobial resistance (Almeida and De Martinis, 2019), and WGS-based typing of bacteria has been increasingly used for investigation of outbreaks and surveillance studies (Ruan and Feng, 2016). Different relatedness criteria for cgMLST were described for representative clinically relevant bacteria, including NFGNB, Enterococcus sp.…”
Section: Discussionmentioning
confidence: 99%