The role of whole genome sequencing in antimicrobial susceptibility testing of bacteria: report of EUROCAST committee

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The role of whole genome sequencing in antimicrobial susceptibility testing of bacteria: report of EUROCAST committee 

Scientists seek a way to predict antibiotic resistance
S Love, Stat News, November 7, 2016

Strain Dependent Genetic Networks for Antibiotic-Sensitivity in a Bacterial Pathogen with a Large Pan-Genome.
van Opijnen Tim et al. PLoS pathogens 2016 Sep (9) e1005869

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Last Posted: Dec 23, 2016

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• The role of whole genome sequencing in antimicrobial susceptibility testing of bacteria: report of EUROCAST committee 
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• MEGARes: an antimicrobial resistance database for high throughput sequencing.
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• Emergence of plasmid-mediated colistin resistance and New Delhi metallo-β-lactamase genes in extensively drug-resistant Escherichia coli isolated from a patient in Thailand.
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• Markov Networks of Collateral Resistance: National Antimicrobial Resistance Monitoring System Surveillance Results from Escherichia coli Isolates, 2004-2012.
  Love William J et al. PLoS computational biology 2016 Nov (11) e1005160
• Antimicrobial resistance surveillance in the genomic age.
  McArthur Andrew G et al. Annals of the New York Academy of Sciences 2016 Nov
• Methods to Study Antimicrobial Resistance in Campylobacter jejuni.
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• Scientists seek a way to predict antibiotic resistance
  S Love, Stat News, November 7, 2016
• Strain Dependent Genetic Networks for Antibiotic-Sensitivity in a Bacterial Pathogen with a Large Pan-Genome.
  van Opijnen Tim et al. PLoS pathogens 2016 Sep (9) e1005869
• Genomic and functional techniques to mine the microbiome for novel antimicrobials and antimicrobial resistance genes.
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This database includes published scientific literature on evidence-based translation of genomic discoveries into improved health care and disease prevention that have a potential impact on population health.

• Emergence of plasmid-mediated colistin resistance and New Delhi metallo-β-lactamase genes in extensively drug-resistant Escherichia coli isolated from a patient in Thailand.
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This database includes published scientific literature, popular press articles, tools, and databases on the emerging role of pathogen genomics and host-pathogen interactions in infectious disease control and prevention. It includes information on methods, evolution and pathogenicity, detection and diagnosis, outbreaks, epidemiology and transmission, antimicrobials, and vaccines and host-pathogen interactions.

• Evaluation of Machine Learning and Rules-Based Approaches for Predicting Antimicrobial Resistance Profiles in Gram-negative Bacilli from Whole Genome Sequence Data.
  Pesesky Mitchell W et al. Frontiers in microbiology 2016 1887
• MEGARes: an antimicrobial resistance database for high throughput sequencing.
  Lakin Steven M et al. Nucleic acids research 2016 Nov
• Markov Networks of Collateral Resistance: National Antimicrobial Resistance Monitoring System Surveillance Results from Escherichia coli Isolates, 2004-2012.
  Love William J et al. PLoS computational biology 2016 Nov (11) e1005160
• Antimicrobial resistance surveillance in the genomic age.
  McArthur Andrew G et al. Annals of the New York Academy of Sciences 2016 Nov
• Methods to Study Antimicrobial Resistance in Campylobacter jejuni.
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This database contains CDC-authored publications in public health genomics including infectious diseases, newborn screening, reproductive health, genetic testing, cancer, chronic diseases, birth defects and developmental disabilities, environmental and occupational health as well as laboratory, bioinformatics and statistical methods.

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• Streptococcus pneumoniae of Serotypes 9 and 14 Circulating in Brazil Over a 23-Year Period Prior to the Introduction of PCV10: Role of International Clones in the Evolution of Antimicrobial Resistance and Description of a Novel Genotype.
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• Genomic analyses of Neisseria gonorrhoeae reveal an association of the gonococcal genetic island with antimicrobial resistance.
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