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Efficacy of a typing scheme for campylobacter based on the combination of true and questionable CRISPR

Journal of microbiological methods publish this investigation article

December 1st, 2015

This study evaluates an improved scheme for Campylobacter genotyping based on the combination of true and questionable CRISPR (Clustered regularly interspaced short palindromic repeats) elements. A total of 180 Campylobacter strains (C. jejuni n = 93 and C. coli n = 87), isolated from neck skin and caecal content of broilers, poultry meat and sewage water were analysed. Another 97 C. jejuni DNA samples from cases of human campylobacteriosis were assessed. Sixty-three genotypes were found in C. jejuni considering only true CRISPR, and 16 additional genotypes were identified when questionable CRISPR were also taken into account. Likewise in C. coli the number of genotypes increased from eight for only true CRISPR to 14 after including questionable CRISPR elements. The number of typeable C. jejuni and C. coli isolates was 115 (60.5%) and 17 (19.5%) respectively considering only true CRISPR. These percentages increased to 92.7% (n = 176) and 39.1% (n = 34) respectively when both true and questionable CRISPR were considered. 60.9% of the C. coli isolates were non-typeable by CRISPR due to the lack of any PCR amplifiable CRISPR loci, which raises questions about CRISPR analysis as an appropriate method for C. coli typing. However the assessment of true and questionable CRISPR has proved to be fairly useful for typing C. jejuni due to its high discriminatory power (Simpson`s index = 0.960) and typeability (92.7%) values. The results of the present work show that our genotyping method based on the combination of true and questionable CRISPR elements may be used as a suitable complementary tool to existing C. jejuni genotyping methods




de Cardenas I., Fernandez-Garayzabal JF., de la Cruz ML., Dominguez L., Ugarte-Ruiz M. and Gomez S.




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Efficacy of a typing scheme for campylobacter based on the combination of true and questionable CRISPR

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Efficacy of a typing scheme for campylobacter based on the combination of true and questionable CRISPR



Participants:

Universidad ComplutenseServicio de Zoonosis de Transmisión Alimentaria y Resistencia a Antimicrobianos (ZTA). Centro de Vigilancia Sanitaria Veterinaria (VISAVET). Universidad Complutense (UCM).

Universidad ComplutenseDepartamento de Sanidad Animal. Facultad de Veterinaria. Universidad Complutense (UCM).







Journal of microbiological methods
FACTOR YEAR Q
1.857 2015

NLMID: 8306883

PMID: 26518609

ISSN: 0167-7012



TITLE: Efficacy of a typing scheme for campylobacter based on the combination of true and questionable CRISPR


JOURNAL: J Microbiol Methods


NUMERACIÓN: 119:147-53


AÑO: 2015


PUBLISHER: Amsterdam, The Netherlands : Elsevier Biomedical, c1983-


AUTHORS: de Cardenas I., Fernandez-Garayzabal JF., de la Cruz ML., Dominguez L., Ugarte-Ruiz M. and Gomez S.


2nd
José Francisco Fernández-Garayzabal Fernández
4th
Lucas Domínguez Rodríguez
5th
María Ugarte Ruiz

DOI: https://doi.org/10.1016/j.mimet.2015.10.020


CITE THIS PUBLICATION:

de Cardenas I., Fernandez-Garayzabal JF., de la Cruz ML., Dominguez L., Ugarte-Ruiz M. and Gomez S. Efficacy of a typing scheme for campylobacter based on the combination of true and questionable CRISPR. Journal of microbiological methods. 119:147-53. 2015. (A). ISSN: 0167-7012. DOI: 10.1016/j.mimet.2015.10.020


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