There are two approaches for molecular antimicrobial resistance (AMR) surveillance: 1.Typing-based, in which resistance is predicted by association with genotype, and 2. The direct detection of genetic markers of AMR.
If the prevalence of Neisseria gonorrhoeae is low in a city(for example 25-30 isolates during 6 month sampling), which approach is suitable for molecular AMR surveillance?
Hi, if you have 25-30 isolates and you have the fund as well, I will go for whole genome sequencing (WGS). With WGS you will definitely get all the resistance genes. However, if you have specific AMR genes you are interested in, you can do conventional PCR detection of the genes or qPCR.
Hi. many thanks for your answer. unfortunately I don't have enough fund for WGS. many genes related to drug-resistance were detected in Neisseria gonorrhoeae such as; penA, gyrA, TetM,...
What is your idea about detecting and sequencing of genes related to drug resistance? especially drugs that are most prescribed by Iranian physician?
Detecting and sequencing of AMR genes, is also an option, however that mean your selection of genes to be detected or sequenced will be based phenotypic characteristics of the isolates at MIC level. Some researcher also select the genes to be sequence based on previous history of existing resistance gene circulating within a geographical area. take for example blaCMY2 id very prevalent in North america while blaCTXM is more prevalent in Europe or bla metallo genes in Asia or India. So prior knowledge matters alot as well as phenotypic characteristics of the isolates derived from MIC reading.
If the resistance genes detected are associated with/specific to phenotypic characterictics of the isolates, and based on available information e.g. questionnaire survey or nationally collected data from routine surveillance, its possible to say frequent/continuous prescription maybe relating resistance.
Cheers
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