Pathotyping
            <i>Escherichia coli</i>
            by Using Miniaturized DNA Microarrays

Anjum, Muna F.; Mafura, Muriel; Slickers, Peter; Ballmer, Karin; Kuhnert, Peter; Woodward, Martin J.; Ehricht, Ralf

doi:10.1128/aem.00419-07

Cited by 65 publications

(60 citation statements)

References 25 publications

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“…We also compared isolates originating from septicemia and found that this isolate did not appear to be different from others in terms of serogroups, resistance profi le, and virulence factor. In the present study, all strains were OXA-I-derived ESBLs which appears to be important for ceftazidime hydrolysis as reported earlier [19]. Their presence seems to infl uence the level of resistance to penicillins conferred to isolates.…”

Section: Discussionsupporting

confidence: 51%

“…A miniaturized E. coli oligonucleotide virulence array that had previously been designed was used for this work [19]. Eighteen genes were specifi c to a particular E. coli patho type, 13 were common between two more pathotypes, and seven were unassigned.…”

Section: Microarraymentioning

confidence: 99%

“…The amplifi ed products were added to Array Tubes for hybridization, and the data were analyzed as previously described [19].…”

Section: Microarraymentioning

confidence: 99%

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Pathotypingbla_CTX-MEscherichia colifrom Nigeria

Olowe¹,

Choudhary²,

Schierack³

et al. 2013

European Journal of Microbiology and Immunology

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Background: Escherichia coli have become the enterobacteriaceae species most affected by extended-spectrum β-lactamases (ESBLs) in view of the emergence of CTX-M-type ESBLs. These CTX-M-positive E. coli have been reported in numerous regions worldwide. Virulence determinants of already reported CTX-M-positive E. coli were investigated. Methodology: To gain insights into the mechanism underlying this phenomenon, we assessed serogroup, susceptibility pattern and diversity of virulence profiles within a collection of nine bla CTX-M -positive E. coli strains and their virulent determinant using miniaturized DNA microarray techniques. The nine ESBL-positive E. coli isolates were from eight male and one female patient(s) selected for study based on previous work. Virulence potential was inferred by detection of 63 virulence factor (VF) genes. Results: Four (44.4%) of the 9 E. coli isolates exhibited the same set of core characteristics: serotype O8:Hnt, while all were positive for OXA-1, ciprofloxacin resistance. Five of the isolates exhibited highly similar (91% to 100%) VF profiles. Conclusion: The findings describe a broadly disseminated, bla CTX-M -positive and virulent E. coli serogroup with highly homogeneous virulence genotypes, suggesting recent emergence in this zone. Understanding how this clone has emerged and successfully disseminated within the hospital and community, including across national boundaries, should be a public health priority.

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Section: Discussionsupporting

confidence: 51%

Section: Microarraymentioning

confidence: 99%

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Pathotypingbla_CTX-MEscherichia colifrom Nigeria

Olowe¹,

Choudhary²,

Schierack³

et al. 2013

European Journal of Microbiology and Immunology

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“…It could be used in search for virulence genes [39] as well as resistance genes [40,41]. Although 99% correlation between PCR and microarray approaches was provided [40], the latter seems to be less common in the literature concerning ARGs.…”

Section: Args Occurring In Arb and Dna Isolated From Tap Watera Reviewmentioning

confidence: 99%

The occurrence of antibiotic resistance genes in tap water – a review

Siedlecka

2018

E3S Web Conf.

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Abstract. The study presents a review of the occurrence of genetic determinants of antibiotic resistance in tap water. The aim of this study was also to compare the applied methods for antibiotic resistance genes (ARGs) investigations in tap water. As the concentration of ARGs in treated, drinking water is expected to be very low and may cause problems in a standard isolation procedure, the special emphasis is placed on the applied procedures of DNA extraction and their efficiency. The study presents the first attempts to obtain DNA directly from tap water. Further efforts must be put to determine the final amount of obtained DNA and the presence of chosen ARGs among the molecules.

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“…A serotype-specific DNA microarray for the identification of clinically encountered Shigella and pathogenic E. coli strains has being described . Diagnostic microarrays based on the ArrayTube format were devised for virulence determinant detection as well as for protein-based serotyping of E. coli (Korczak et al, 2005;Anjum et al, 2007). A novel ArrayTube assay, which incorporates oligonucleotide DNA probes representing 24 of the most epidemiologically relevant O antigens and 47 H antigens, has been described for fast DNA serotyping of E. coli .…”

Section: Comparative Genomics and Microbial Typingmentioning

confidence: 99%

DNA microarrays and their applications in medical microbiology

Nsofor¹

2014

Biotechnol. Mol. Biol. Rev.

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Rapid diagnosis and treatment of disease is often based on the identification and characterization of causative agents derived from phenotypic characteristics. This can be laborious and time consuming, often requiring many skilled personnel and a large amount of lab space. However, the introduction of nucleic acid amplification techniques into molecular biology has transformed the laboratory detection of pathogens. The progression of the molecular diagnostic revolution currently relies on the ability to efficiently and accurately offer multiplex detection and characterization for a variety of infectious disease pathogens. DNA microarray analysis has the capability to offer robust multiplex detection. Multiple microarray platforms exist, including printed double-stranded DNA and oligonucleotide arrays, in situ-synthesized arrays, high-density bead arrays, electronic microarrays, and suspension bead arrays. The aim of this paper was to review DNA microarray technology, highlighting two major types: the oligonucleotide-based array and the PCR product-based array. Although, the use of microarrays to generate gene expression data has become routine, applications pertinent to microbiology continue to rapidly expand. This review highlights uses of microarray technology that impact diagnostic microbiology, including the detection and identification of pathogens, determination of antimicrobial resistance, epidemiological strain typing, and determination of virulence factors.

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Pathotyping Escherichia coli by Using Miniaturized DNA Microarrays

Cited by 65 publications

References 25 publications

Pathotypingbla_CTX-MEscherichia colifrom Nigeria

Pathotypingbla_CTX-MEscherichia colifrom Nigeria

The occurrence of antibiotic resistance genes in tap water – a review

DNA microarrays and their applications in medical microbiology

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Pathotyping Escherichia coli by Using Miniaturized DNA Microarrays

Cited by 65 publications

References 25 publications

PathotypingblaCTX-MEscherichia colifrom Nigeria

PathotypingblaCTX-MEscherichia colifrom Nigeria

The occurrence of antibiotic resistance genes in tap water – a review

DNA microarrays and their applications in medical microbiology

Contact Info

Product

Resources

About

Pathotypingbla_CTX-MEscherichia colifrom Nigeria

Pathotypingbla_CTX-MEscherichia colifrom Nigeria