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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 and 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, vol.~11, No~1, p.~''16572'', 11 pp. ISSN~2045-2322. Available from: https://dx.doi.org/10.1038/s41598-021-96148-3.
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