Titlebook: Antibiotic Resistance Protocols; Stephen H. Gillespie Book 2024Latest edition The Editor(s) (if applicable) and The Author(s), under exclu

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https://doi.org/10.1007/978-3-642-95369-9are often customized and detailed protocols are difficult to access. Here, we provide a step-by-step workflow for the processing and interpretation of short-read sequencing data and give an overview of available analysis pipelines.

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Phylogenetic Survival Analysis,rculating strains in the future. Here, we present a novel genome-wide survival analysis and use the emergence of drug resistance in . as an example to demonstrate the potential and utility of the technique.

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Use of Whole Genome Sequencing for , Complex Antimicrobial Susceptibility Testing: From Sequence Daare often customized and detailed protocols are difficult to access. Here, we provide a step-by-step workflow for the processing and interpretation of short-read sequencing data and give an overview of available analysis pipelines.

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https://doi.org/10.1007/978-3-642-95369-9evolutionize the investigation and management of outbreaks replacing conventional genotyping and other discrimination systems. Here, we outline specific procedures and protocols to implement WGS into investigation of outbreaks in healthcare settings.

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https://doi.org/10.1007/978-3-642-95369-9ch laboratory to implement WGS technology effectively. Here, we provide a detailed workflow for a DNA-library preparation based on an adapted Illumina protocol optimized for the reduction of reagent costs.

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Investigating Photoactive Antimicrobials as Alternatives (or Adjuncts) to Traditional Therapy,ng oxidative stress when compared with human cells therefore a degree of selective toxicity can be achieved with aPDT..In this chapter, we outline methodologies for testing aPDT in vitro using standard lab equipment.

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Application of Pathogen Genomics to Outbreak Investigation,evolutionize the investigation and management of outbreaks replacing conventional genotyping and other discrimination systems. Here, we outline specific procedures and protocols to implement WGS into investigation of outbreaks in healthcare settings.

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Use of Whole Genome Sequencing for , Complex Antimicrobial Susceptibility Testing,ch laboratory to implement WGS technology effectively. Here, we provide a detailed workflow for a DNA-library preparation based on an adapted Illumina protocol optimized for the reduction of reagent costs.