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@article{1791665, author = {Bezdíček, Matěj and Nykrynova, Marketa and Sedlar, Karel and Králová, Stanislava and Hanslikova, Jana and Komprdova, Aja and Skutkova, Helena and Kocmanova, Iva and Mayer, Jiří and Lengerová, Martina}, article_location = {London}, article_number = {1}, doi = {http://dx.doi.org/10.1038/s41598-021-96148-3}, keywords = {Bacteriology; Clinical microbiology; Infectious-disease epidemiology}, language = {eng}, issn = {2045-2322}, journal = {Scientific Reports}, title = {Rapid high-resolution melting genotyping scheme for Escherichia coli based on MLST derived single nucleotide polymorphisms}, url = {https://doi.org/10.1038/s41598-021-96148-3}, volume = {11}, year = {2021} }
TY - JOUR ID - 1791665 AU - Bezdíček, Matěj - Nykrynova, Marketa - Sedlar, Karel - Králová, Stanislava - Hanslikova, Jana - Komprdova, Aja - Skutkova, Helena - Kocmanova, Iva - Mayer, Jiří - Lengerová, Martina PY - 2021 TI - Rapid high-resolution melting genotyping scheme for Escherichia coli based on MLST derived single nucleotide polymorphisms JF - Scientific Reports VL - 11 IS - 1 SP - "16572" EP - "16572" PB - Nature Research SN - 20452322 KW - Bacteriology KW - Clinical microbiology KW - Infectious-disease epidemiology UR - https://doi.org/10.1038/s41598-021-96148-3 N2 - Routinely used typing methods including MLST, rep-PCR and whole genome sequencing (WGS) are time-consuming, costly, and often low throughput. Here, we describe a novel mini-MLST scheme for Eschericha coli as an alternative method for rapid genotyping. Using the proposed mini-MLST scheme, 10,946 existing STs were converted into 1,038 Melting Types (MelTs). To validate the new mini-MLST scheme, in silico analysis was performed on 73,704 strains retrieved from EnteroBase resulting in discriminatory power D = 0.9465 (CI 95% 0.9726-0.9736) for mini-MLST and D = 0.9731 (CI 95% 0.9726-0.9736) for MLST. Moreover, validation on clinical isolates was conducted with a significant concordance between MLST, rep-PCR and WGS. To conclude, the great portability, efficient processing, cost-effectiveness, and high throughput of mini-MLST represents immense benefits, even when accompanied with a slightly lower discriminatory power than other typing methods. This study proved mini-MLST is an ideal method to screen and subgroup large sets of isolates and/or quick strain typing during outbreaks. In addition, our results clearly showed its suitability for prospective surveillance monitoring of emergent and high-risk E. coli clones'. ER -
BEZDÍČEK, Matěj, Marketa NYKRYNOVA, Karel SEDLAR, Stanislava KRÁLOVÁ, Jana HANSLIKOVA, Aja KOMPRDOVA, Helena SKUTKOVA, Iva KOCMANOVA, Jiří MAYER a Martina LENGEROVÁ. Rapid high-resolution melting genotyping scheme for Escherichia coli based on MLST derived single nucleotide polymorphisms. \textit{Scientific Reports}. London: Nature Research, 2021, roč.~11, č.~1, s.~''16572'', 11 s. ISSN~2045-2322. Dostupné z: https://dx.doi.org/10.1038/s41598-021-96148-3.
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