Use of a Commercially Available Microarray to Characterize Antibiotic-Resistant Clinical Isolates of Klebsiella pneumoniae

Charnock, Colin; Samuelsen, Ørjan; Nordlie, Anne-Lise; Hjeltnes, Bjarne

doi:10.1007/s00284-017-1361-4

Cited by 6 publications

(5 citation statements)

References 34 publications

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“…V praxi jsou dostupné i komerčně vyráběné DNA čipy pro detekci vybraných ARG jako např. DNA čip IDENTIBAC AMR-ve Genotyping kit Version 05 (CLONDIAG/ALERE, Německo) pro detekci determinant antibiotické rezistence u klinických izolátů Klebsiella pneumoniae 45 nebo souprava Pantype AS-1 (Alere Technologies GmbH, Německo), která detekuje 60 genů pro faktory virulence a 47 ARG u Escherichia coli 46 .…”

Section: Dna Mikročipyunclassified

Application of Modern Methods for the Determination of Antibiotic Resistance

Solcova

Purkrtová

2023

Chem. Listy

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The increasing occurrence of antibiotic resistance is one of the major problems of the 21st century. The occurrence of bacterial strains resistant to antibiotics subsequently narrows the spectrum of suitable antibiotics usable for the treatment of common bacterial infections or for the prevention of their occurrence, e.g., in surgery. Wastewater treatment plants, hospitals, and also the food chain belong to the hotspots, where the emergence and spread of new or existing strains of antibiotic resistant bacteria and antibiotic resistance genes occur most frequently. Phenotypic culture methods are routinely used in laboratories to determine antibiotic resistance, but they are laborious and time-consuming and the interpretation of exact results is also difficult. For this reason, faster alternatives for the detection of antibiotic resistant bacteria or even antibiotic resistance genes are sought. Such an example of an alternative method for the detection of antibiotic resistant bacteria is the use of the matrix-assisted laser desorption/ionization time-of-flight mass spectrometry phenotypic method to identify the beta-lactamase producers. Genotype methods provide faster analysis and, at the same time, more accurate detection. Antibiotic resistance genes can be directly detected and quantified by polymerase chain reaction. Microarrays can be used to further speed up and increase the specificity of PCR amplicons detection. Massive parallel methods provide comprehensive information on the resistoma of the specific environment. They facilitate sequencing of individual DNA molecules or amplicons to detect determinants of antibiotic resistance. Massive parallel methods have the potential to replace conventional pathogen characterization and allow the detection of all microorganisms in a sample (including difficult-to-cultivate or noncultivable microorganisms).

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Section: Dna Mikročipyunclassified

Application of Modern Methods for the Determination of Antibiotic Resistance

Solcova

Purkrtová

2023

Chem. Listy

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“…In another study, an effort has been successfully undertaken to reduce antibiotic susceptibility testing assay time, as well as for rapid determination of minimum inhibitory concentrations of different antibiotics using a nanoliter-sized microchamber/microarray-based microfluidic (N-3 M) platform [95]. More recently, a commercially available microarray (IDENTIBAC AMR-ve) has been developed for determination of antibiotic-resistant clinical isolates of Klebsiella pneumoniae, and to identify genes associated with resistance to a wide range of antibiotics [96].…”

Section: Microarrays and Drug Resistancementioning

confidence: 99%

“…Interestingly, lncRNA-TTN-AS1, a novel vital regulator of esophageal squamous cell carcinoma, has been identified using microarray analysis, and found to correlate with overall survival [96]. This biomarker promotes SNAIL1 and FSCN1 expression binding to miR-133b, as well as interaction with mRNA, thereby leading to activation of a metastasis cascade [112].…”

Section: Microarrays and Drug Discovery For Cancermentioning

confidence: 99%

Microarrays and NGS for Drug Discovery

Pop¹,

Zănoagă²,

Chiroi³

et al. 2021

Drug Design - Novel Advances in the Omics Field and Applications

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Novel technologies and state of the art platforms developed and launched over the last two decades such as microarrays, next-generation sequencing, and droplet PCR have provided the medical field many opportunities to generate and analyze big data from the human genome, particularly of genomes altered by different diseases like cancer, cardiovascular, diabetes and obesity. This knowledge further serves for either new drug discovery or drug repositioning. Designing drugs for specific mutations and genotypes will dramatically modify a patient’s response to treatment. Among other altered mechanisms, drug resistance is of concern, particularly when there is no response to cancer therapy. Once these new platforms for omics data are in place, available information will be used to pursue precision medicine and to establish new therapeutic guidelines. Target identification for new drugs is necessary, and it is of great benefit for critical cases where no alternatives are available. While mutational status is of highest importance as some mutations can be pathogenic, screening of known compounds in different preclinical models offer new and quick strategies to find alternative frameworks for treating more diseases with limited therapeutic options.

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“…A large variety of surfaces have been used as supports for DNA microarrays, including silicon [11], polymeric substrates such as poly(methylmethacrylate), polycarbonate, polystyrene, and porous membranes (nylon and nitrocellulose) [12,13], but the most popular is glass slides [14]. So far, several DNA microarray platforms have been developed for antibiotic resistance gene identification [15][16][17]. Various designs of microarrays have been proposed for the identification of β-lactamase genes [18,19].…”

Section: Introductionmentioning

confidence: 99%

Multiplex Microarrays in 96-Well Plates Photoactivated with 4-Azidotetrafluorobenzaldehyde for the Identification and Quantification of β-Lactamase Genes and Their RNA Transcripts

Ulyashova,

Presnova,

Filippova

et al. 2023

CIMB

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Antibiotic-resistant bacteria represent a global issue that calls for novel approaches to diagnosis and treatment. Given the variety of genetic factors that determine resistance, multiplex methods hold promise in this area. We developed a novel method to covalently attach oligonucleotide probes to the wells of polystyrene plates using photoactivation with 4-azidotetrafluorobenzaldehyde. Then, it was used to develop the technique of microarrays in the wells. It consists of the following steps: activating polystyrene, hybridizing the probes with biotinylated target DNA, and developing the result using a streptavidin–peroxidase conjugate with colorimetric detection. The first microarray was designed to identify 11 different gene types and 16 single-nucleotide polymorphisms (SNPs) of clinically relevant ESBLs and carbapenemases, which confer Gram-negative bacteria resistance to β-lactam antibiotics. The detection of bla genes in 65 clinical isolates of Enterobacteriaceae demonstrated the high sensitivity and reproducibility of the technique. The highly reproducible spot staining of colorimetric microarrays allowed us to design a second microarray that was intended to quantify four different types of bla mRNAs in order to ascertain their expressions. The combination of reliable performance, high throughput in standard 96-well plates, and inexpensive colorimetric detection makes the microarrays suitable for routine clinical application and for the study of multi-drug resistant bacteria.

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Use of a Commercially Available Microarray to Characterize Antibiotic-Resistant Clinical Isolates of Klebsiella pneumoniae

Cited by 6 publications

References 34 publications

Application of Modern Methods for the Determination of Antibiotic Resistance

Application of Modern Methods for the Determination of Antibiotic Resistance

Microarrays and NGS for Drug Discovery

Multiplex Microarrays in 96-Well Plates Photoactivated with 4-Azidotetrafluorobenzaldehyde for the Identification and Quantification of β-Lactamase Genes and Their RNA Transcripts

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