Publication details

Contribution of PCR Denaturing Gradient Gel Electrophoresis Combined with Mixed Chromatogram Software Separation for Complex Urinary Sample Analysis

Authors

KOTÁSKOVÁ Iva MALIŠOVÁ Barbora OBRUČOVÁ Hana HOLÁ Veronika PEROUTKOVÁ Tereza RŮŽIČKA Filip FREIBERGER Tomáš

Year of publication 2017
Type Article in Periodical
Magazine / Source Journal of Molecular Microbiology and Biotechnology
MU Faculty or unit

Faculty of Medicine

Citation
Doi http://dx.doi.org/10.1159/000484524
Field Genetics and molecular biology
Keywords Catheter; Complex sample; Mixed chromatogram; PCR denaturing gradient gel electrophoresis; RipSeq Mixed
Description Complex samples are a challenge for sequencing-based broad-range diagnostics. We analysed 19 urinary catheter, ureteral Double-J catheter, and urine samples using 3 methodological approaches. Out of the total 84 operational taxonomic units, 37, 61, and 88% were identified by culture, PCR-DGGE-SS (PCR denaturing gradient gel electrophoresis followed by Sanger sequencing), and PCR-DGGE-RM (PCR- DGGE combined with software chromatogram separation by RipSeq Mixed tool), respectively. The latter approach was shown to be an efficient tool to complement culture in complex sample assessment.
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